-- dump date 20140619_223712 -- class Genbank::misc_feature -- table misc_feature_note -- id note 439375000001 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 439375000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 439375000003 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 439375000004 Bacterial dnaA protein; Region: Bac_DnaA; pfam00308 439375000005 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 439375000006 DnaA box-binding interface [nucleotide binding]; other site 439375000007 DNA polymerase III subunit beta; Validated; Region: PRK05643 439375000008 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 439375000009 putative DNA binding surface [nucleotide binding]; other site 439375000010 dimer interface [polypeptide binding]; other site 439375000011 beta-clamp/clamp loader binding surface; other site 439375000012 beta-clamp/translesion DNA polymerase binding surface; other site 439375000013 recombination protein F; Reviewed; Region: recF; PRK00064 439375000014 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 439375000015 Walker A/P-loop; other site 439375000016 ATP binding site [chemical binding]; other site 439375000017 Q-loop/lid; other site 439375000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375000019 ABC transporter signature motif; other site 439375000020 Walker B; other site 439375000021 D-loop; other site 439375000022 H-loop/switch region; other site 439375000023 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 439375000024 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 439375000025 ATP binding site [chemical binding]; other site 439375000026 substrate interface [chemical binding]; other site 439375000027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375000028 Coenzyme A binding pocket [chemical binding]; other site 439375000029 Predicted aconitase [General function prediction only]; Region: COG1679 439375000030 Protein of unknown function (DUF521); Region: DUF521; pfam04412 439375000031 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 439375000032 substrate binding site [chemical binding]; other site 439375000033 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 439375000034 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 439375000035 putative ligand binding site [chemical binding]; other site 439375000036 NAD binding site [chemical binding]; other site 439375000037 dimerization interface [polypeptide binding]; other site 439375000038 catalytic site [active] 439375000039 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 439375000040 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375000041 Walker A/P-loop; other site 439375000042 ATP binding site [chemical binding]; other site 439375000043 Q-loop/lid; other site 439375000044 ABC transporter signature motif; other site 439375000045 Walker B; other site 439375000046 D-loop; other site 439375000047 H-loop/switch region; other site 439375000048 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375000049 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375000050 Walker A/P-loop; other site 439375000051 ATP binding site [chemical binding]; other site 439375000052 Q-loop/lid; other site 439375000053 ABC transporter signature motif; other site 439375000054 Walker B; other site 439375000055 D-loop; other site 439375000056 H-loop/switch region; other site 439375000057 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375000058 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 439375000059 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000060 dimer interface [polypeptide binding]; other site 439375000061 conserved gate region; other site 439375000062 putative PBP binding loops; other site 439375000063 ABC-ATPase subunit interface; other site 439375000064 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 439375000065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000066 dimer interface [polypeptide binding]; other site 439375000067 conserved gate region; other site 439375000068 putative PBP binding loops; other site 439375000069 ABC-ATPase subunit interface; other site 439375000070 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 439375000071 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 439375000072 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 439375000073 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 439375000074 Cytochrome c2 [Energy production and conversion]; Region: COG3474 439375000075 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 439375000076 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 439375000077 Ligand binding site; other site 439375000078 oligomer interface; other site 439375000079 prephenate dehydratase; Provisional; Region: PRK11899 439375000080 Prephenate dehydratase; Region: PDT; pfam00800 439375000081 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 439375000082 putative L-Phe binding site [chemical binding]; other site 439375000083 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 439375000084 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 439375000085 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 439375000086 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 439375000087 putative NADH binding site [chemical binding]; other site 439375000088 putative active site [active] 439375000089 nudix motif; other site 439375000090 putative metal binding site [ion binding]; other site 439375000091 HIT domain; Region: HIT; pfam01230 439375000092 nucleotide binding site/active site [active] 439375000093 HIT family signature motif; other site 439375000094 catalytic residue [active] 439375000095 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 439375000096 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375000097 Walker A motif; other site 439375000098 ATP binding site [chemical binding]; other site 439375000099 Walker B motif; other site 439375000100 arginine finger; other site 439375000101 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 439375000102 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 439375000103 hypothetical protein; Validated; Region: PRK00153 439375000104 recombination protein RecR; Reviewed; Region: recR; PRK00076 439375000105 RecR protein; Region: RecR; pfam02132 439375000106 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 439375000107 putative active site [active] 439375000108 putative metal-binding site [ion binding]; other site 439375000109 tetramer interface [polypeptide binding]; other site 439375000110 lytic murein transglycosylase; Region: MltB_2; TIGR02283 439375000111 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375000112 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375000113 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375000114 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 439375000115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375000116 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 439375000117 putative dimerization interface [polypeptide binding]; other site 439375000118 Predicted membrane protein [Function unknown]; Region: COG2855 439375000119 hypothetical protein; Provisional; Region: PRK10316 439375000120 YfdX protein; Region: YfdX; pfam10938 439375000121 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 439375000122 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 439375000123 RNA binding site [nucleotide binding]; other site 439375000124 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 439375000125 RNA binding site [nucleotide binding]; other site 439375000126 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 439375000127 RNA binding site [nucleotide binding]; other site 439375000128 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 439375000129 RNA binding site [nucleotide binding]; other site 439375000130 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 439375000131 RNA binding site [nucleotide binding]; other site 439375000132 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 439375000133 RNA binding site [nucleotide binding]; other site 439375000134 cytidylate kinase; Provisional; Region: cmk; PRK00023 439375000135 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 439375000136 CMP-binding site; other site 439375000137 The sites determining sugar specificity; other site 439375000138 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 439375000139 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 439375000140 hinge; other site 439375000141 active site 439375000142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 439375000143 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 439375000144 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 439375000145 putative C-terminal domain interface [polypeptide binding]; other site 439375000146 putative GSH binding site (G-site) [chemical binding]; other site 439375000147 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375000148 putative dimer interface [polypeptide binding]; other site 439375000149 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 439375000150 dimer interface [polypeptide binding]; other site 439375000151 N-terminal domain interface [polypeptide binding]; other site 439375000152 putative substrate binding pocket (H-site) [chemical binding]; other site 439375000153 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 439375000154 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375000155 EamA-like transporter family; Region: EamA; pfam00892 439375000156 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 439375000157 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 439375000158 acyl-activating enzyme (AAE) consensus motif; other site 439375000159 putative AMP binding site [chemical binding]; other site 439375000160 putative active site [active] 439375000161 putative CoA binding site [chemical binding]; other site 439375000162 isovaleryl-CoA dehydrogenase; Region: PLN02519 439375000163 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 439375000164 substrate binding site [chemical binding]; other site 439375000165 FAD binding site [chemical binding]; other site 439375000166 catalytic base [active] 439375000167 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 439375000168 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439375000169 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 439375000170 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375000171 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439375000172 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 439375000173 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 439375000174 carboxyltransferase (CT) interaction site; other site 439375000175 biotinylation site [posttranslational modification]; other site 439375000176 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 439375000177 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 439375000178 active site 439375000179 catalytic residues [active] 439375000180 metal binding site [ion binding]; metal-binding site 439375000181 enoyl-CoA hydratase; Provisional; Region: PRK07468 439375000182 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375000183 substrate binding site [chemical binding]; other site 439375000184 oxyanion hole (OAH) forming residues; other site 439375000185 trimer interface [polypeptide binding]; other site 439375000186 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439375000187 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 439375000188 dimerization interface [polypeptide binding]; other site 439375000189 ligand binding site [chemical binding]; other site 439375000190 Putative phosphatase (DUF442); Region: DUF442; cl17385 439375000191 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 439375000192 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 439375000193 putative MPT binding site; other site 439375000194 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 439375000195 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 439375000196 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 439375000197 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 439375000198 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 439375000199 D-pathway; other site 439375000200 Putative ubiquinol binding site [chemical binding]; other site 439375000201 Low-spin heme (heme b) binding site [chemical binding]; other site 439375000202 Putative water exit pathway; other site 439375000203 Binuclear center (heme o3/CuB) [ion binding]; other site 439375000204 K-pathway; other site 439375000205 Putative proton exit pathway; other site 439375000206 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 439375000207 Subunit I/III interface [polypeptide binding]; other site 439375000208 Subunit III/IV interface [polypeptide binding]; other site 439375000209 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 439375000210 Bacterial SH3 domain; Region: SH3_3; pfam08239 439375000211 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 439375000212 Surface antigen; Region: Bac_surface_Ag; pfam01103 439375000213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 439375000214 Family of unknown function (DUF490); Region: DUF490; pfam04357 439375000215 Family of unknown function (DUF490); Region: DUF490; pfam04357 439375000216 Family of unknown function (DUF490); Region: DUF490; pfam04357 439375000217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375000218 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375000219 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 439375000220 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 439375000221 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439375000222 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439375000223 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 439375000224 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 439375000225 dimer interface [polypeptide binding]; other site 439375000226 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375000227 active site 439375000228 metal binding site [ion binding]; metal-binding site 439375000229 glutathione binding site [chemical binding]; other site 439375000230 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 439375000231 antiporter inner membrane protein; Provisional; Region: PRK11670 439375000232 Domain of unknown function DUF59; Region: DUF59; pfam01883 439375000233 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 439375000234 Walker A motif; other site 439375000235 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 439375000236 phosphoglucomutase; Region: PLN02307 439375000237 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 439375000238 substrate binding site [chemical binding]; other site 439375000239 dimer interface [polypeptide binding]; other site 439375000240 active site 439375000241 metal binding site [ion binding]; metal-binding site 439375000242 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 439375000243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375000244 Helix-turn-helix domain; Region: HTH_18; pfam12833 439375000245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375000246 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 439375000247 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375000248 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 439375000249 non-specific DNA interactions [nucleotide binding]; other site 439375000250 DNA binding site [nucleotide binding] 439375000251 sequence specific DNA binding site [nucleotide binding]; other site 439375000252 putative cAMP binding site [chemical binding]; other site 439375000253 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 439375000254 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 439375000255 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 439375000256 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375000257 ligand binding site [chemical binding]; other site 439375000258 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375000259 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375000260 TM-ABC transporter signature motif; other site 439375000261 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375000262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375000263 Walker A/P-loop; other site 439375000264 ATP binding site [chemical binding]; other site 439375000265 Q-loop/lid; other site 439375000266 ABC transporter signature motif; other site 439375000267 Walker B; other site 439375000268 D-loop; other site 439375000269 H-loop/switch region; other site 439375000270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 439375000271 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 439375000272 active site 439375000273 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 439375000274 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 439375000275 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375000276 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375000277 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375000278 catalytic residue [active] 439375000279 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 439375000280 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 439375000281 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 439375000282 putative active site [active] 439375000283 putative PHP Thumb interface [polypeptide binding]; other site 439375000284 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 439375000285 generic binding surface II; other site 439375000286 generic binding surface I; other site 439375000287 DNA Polymerase Y-family; Region: PolY_like; cd03468 439375000288 active site 439375000289 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 439375000290 DNA binding site [nucleotide binding] 439375000291 Uncharacterized conserved protein [Function unknown]; Region: COG4544 439375000292 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375000293 MarR family; Region: MarR; pfam01047 439375000294 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 439375000295 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 439375000296 active site 439375000297 argininosuccinate synthase; Provisional; Region: PRK13820 439375000298 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 439375000299 ANP binding site [chemical binding]; other site 439375000300 Substrate Binding Site II [chemical binding]; other site 439375000301 Substrate Binding Site I [chemical binding]; other site 439375000302 Uncharacterized conserved protein [Function unknown]; Region: COG1359 439375000303 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375000304 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 439375000305 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375000306 FeS/SAM binding site; other site 439375000307 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 439375000308 Uncharacterized conserved protein [Function unknown]; Region: COG3339 439375000309 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 439375000310 aromatic arch; other site 439375000311 DCoH dimer interaction site [polypeptide binding]; other site 439375000312 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 439375000313 DCoH tetramer interaction site [polypeptide binding]; other site 439375000314 substrate binding site [chemical binding]; other site 439375000315 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 439375000316 Low molecular weight phosphatase family; Region: LMWPc; cd00115 439375000317 active site 439375000318 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 439375000319 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 439375000320 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 439375000321 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 439375000322 active site 439375000323 catalytic triad [active] 439375000324 oxyanion hole [active] 439375000325 switch loop; other site 439375000326 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 439375000327 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439375000328 Walker A/P-loop; other site 439375000329 ATP binding site [chemical binding]; other site 439375000330 Q-loop/lid; other site 439375000331 ABC transporter signature motif; other site 439375000332 Walker B; other site 439375000333 D-loop; other site 439375000334 H-loop/switch region; other site 439375000335 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 439375000336 FtsX-like permease family; Region: FtsX; pfam02687 439375000337 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 439375000338 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 439375000339 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 439375000340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375000341 Coenzyme A binding pocket [chemical binding]; other site 439375000342 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 439375000343 Uncharacterized secreted protein [Function unknown]; Region: COG5429 439375000344 aconitate hydratase; Validated; Region: PRK09277 439375000345 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 439375000346 substrate binding site [chemical binding]; other site 439375000347 ligand binding site [chemical binding]; other site 439375000348 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 439375000349 substrate binding site [chemical binding]; other site 439375000350 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 439375000351 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 439375000352 Walker A/P-loop; other site 439375000353 ATP binding site [chemical binding]; other site 439375000354 Q-loop/lid; other site 439375000355 ABC transporter signature motif; other site 439375000356 Walker B; other site 439375000357 D-loop; other site 439375000358 H-loop/switch region; other site 439375000359 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 439375000360 heme exporter protein CcmC; Region: ccmC; TIGR01191 439375000361 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 439375000362 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 439375000363 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 439375000364 catalytic residues [active] 439375000365 central insert; other site 439375000366 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 439375000367 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439375000368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 439375000369 active site 439375000370 phosphorylation site [posttranslational modification] 439375000371 intermolecular recognition site; other site 439375000372 dimerization interface [polypeptide binding]; other site 439375000373 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375000374 AsnC family; Region: AsnC_trans_reg; pfam01037 439375000375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375000376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375000377 metal binding site [ion binding]; metal-binding site 439375000378 active site 439375000379 I-site; other site 439375000380 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 439375000381 Uncharacterized conserved protein [Function unknown]; Region: COG1434 439375000382 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 439375000383 putative active site [active] 439375000384 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 439375000385 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 439375000386 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 439375000387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000388 dimer interface [polypeptide binding]; other site 439375000389 conserved gate region; other site 439375000390 putative PBP binding loops; other site 439375000391 ABC-ATPase subunit interface; other site 439375000392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000393 dimer interface [polypeptide binding]; other site 439375000394 conserved gate region; other site 439375000395 putative PBP binding loops; other site 439375000396 ABC-ATPase subunit interface; other site 439375000397 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 439375000398 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 439375000399 Walker A/P-loop; other site 439375000400 ATP binding site [chemical binding]; other site 439375000401 Q-loop/lid; other site 439375000402 ABC transporter signature motif; other site 439375000403 Walker B; other site 439375000404 D-loop; other site 439375000405 H-loop/switch region; other site 439375000406 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 439375000407 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 439375000408 Putative glucoamylase; Region: Glycoamylase; pfam10091 439375000409 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 439375000410 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 439375000411 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 439375000412 Protein of unknown function, DUF608; Region: DUF608; pfam04685 439375000413 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 439375000414 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 439375000415 active site 439375000416 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 439375000417 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375000418 S-adenosylmethionine binding site [chemical binding]; other site 439375000419 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375000420 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375000421 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 439375000422 putative substrate binding site [chemical binding]; other site 439375000423 putative ATP binding site [chemical binding]; other site 439375000424 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 439375000425 classical (c) SDRs; Region: SDR_c; cd05233 439375000426 NAD(P) binding site [chemical binding]; other site 439375000427 active site 439375000428 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 439375000429 Transglycosylase; Region: Transgly; pfam00912 439375000430 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 439375000431 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375000432 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375000433 Predicted membrane protein [Function unknown]; Region: COG4763 439375000434 Acyltransferase family; Region: Acyl_transf_3; pfam01757 439375000435 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 439375000436 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 439375000437 catalytic site [active] 439375000438 putative active site [active] 439375000439 putative substrate binding site [chemical binding]; other site 439375000440 hypothetical protein; Validated; Region: PRK09104 439375000441 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 439375000442 metal binding site [ion binding]; metal-binding site 439375000443 putative dimer interface [polypeptide binding]; other site 439375000444 DNA polymerase I; Region: pola; TIGR00593 439375000445 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 439375000446 active site 439375000447 metal binding site 1 [ion binding]; metal-binding site 439375000448 putative 5' ssDNA interaction site; other site 439375000449 metal binding site 3; metal-binding site 439375000450 metal binding site 2 [ion binding]; metal-binding site 439375000451 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 439375000452 putative DNA binding site [nucleotide binding]; other site 439375000453 putative metal binding site [ion binding]; other site 439375000454 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 439375000455 active site 439375000456 catalytic site [active] 439375000457 substrate binding site [chemical binding]; other site 439375000458 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 439375000459 active site 439375000460 DNA binding site [nucleotide binding] 439375000461 catalytic site [active] 439375000462 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 439375000463 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 439375000464 ATP binding site [chemical binding]; other site 439375000465 Mg++ binding site [ion binding]; other site 439375000466 motif III; other site 439375000467 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375000468 nucleotide binding region [chemical binding]; other site 439375000469 ATP-binding site [chemical binding]; other site 439375000470 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 439375000471 RNA binding site [nucleotide binding]; other site 439375000472 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 439375000473 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375000474 Mg2+ binding site [ion binding]; other site 439375000475 G-X-G motif; other site 439375000476 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 439375000477 anchoring element; other site 439375000478 dimer interface [polypeptide binding]; other site 439375000479 ATP binding site [chemical binding]; other site 439375000480 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 439375000481 active site 439375000482 putative metal-binding site [ion binding]; other site 439375000483 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 439375000484 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 439375000485 Cytochrome P450; Region: p450; cl12078 439375000486 S-formylglutathione hydrolase; Region: PLN02442 439375000487 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 439375000488 Predicted membrane protein [Function unknown]; Region: COG4291 439375000489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375000490 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439375000491 Coenzyme A binding pocket [chemical binding]; other site 439375000492 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 439375000493 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 439375000494 substrate binding site [chemical binding]; other site 439375000495 catalytic Zn binding site [ion binding]; other site 439375000496 NAD binding site [chemical binding]; other site 439375000497 structural Zn binding site [ion binding]; other site 439375000498 dimer interface [polypeptide binding]; other site 439375000499 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 439375000500 putative metal binding site [ion binding]; other site 439375000501 putative homodimer interface [polypeptide binding]; other site 439375000502 putative homotetramer interface [polypeptide binding]; other site 439375000503 putative homodimer-homodimer interface [polypeptide binding]; other site 439375000504 putative allosteric switch controlling residues; other site 439375000505 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 439375000506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375000507 Coenzyme A binding pocket [chemical binding]; other site 439375000508 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 439375000509 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 439375000510 ATP binding site [chemical binding]; other site 439375000511 putative Mg++ binding site [ion binding]; other site 439375000512 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375000513 nucleotide binding region [chemical binding]; other site 439375000514 ATP-binding site [chemical binding]; other site 439375000515 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 439375000516 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 439375000517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375000518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375000519 ATP binding site [chemical binding]; other site 439375000520 Mg2+ binding site [ion binding]; other site 439375000521 G-X-G motif; other site 439375000522 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 439375000523 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 439375000524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375000525 active site 439375000526 phosphorylation site [posttranslational modification] 439375000527 intermolecular recognition site; other site 439375000528 dimerization interface [polypeptide binding]; other site 439375000529 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 439375000530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5321 439375000531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375000532 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375000533 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 439375000534 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 439375000535 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 439375000536 Ligand Binding Site [chemical binding]; other site 439375000537 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 439375000538 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 439375000539 active site 439375000540 HIGH motif; other site 439375000541 dimer interface [polypeptide binding]; other site 439375000542 KMSKS motif; other site 439375000543 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 439375000544 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 439375000545 PII uridylyl-transferase; Provisional; Region: PRK05092 439375000546 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 439375000547 metal binding triad; other site 439375000548 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 439375000549 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439375000550 Zn2+ binding site [ion binding]; other site 439375000551 Mg2+ binding site [ion binding]; other site 439375000552 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 439375000553 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 439375000554 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 439375000555 Malic enzyme, N-terminal domain; Region: malic; pfam00390 439375000556 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 439375000557 putative NAD(P) binding site [chemical binding]; other site 439375000558 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 439375000559 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 439375000560 MutS domain I; Region: MutS_I; pfam01624 439375000561 MutS domain II; Region: MutS_II; pfam05188 439375000562 MutS domain III; Region: MutS_III; pfam05192 439375000563 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 439375000564 Walker A/P-loop; other site 439375000565 ATP binding site [chemical binding]; other site 439375000566 Q-loop/lid; other site 439375000567 ABC transporter signature motif; other site 439375000568 Walker B; other site 439375000569 D-loop; other site 439375000570 H-loop/switch region; other site 439375000571 Putative hemolysin [General function prediction only]; Region: COG3176 439375000572 lipoprotein signal peptidase; Provisional; Region: PRK14795 439375000573 lipoprotein signal peptidase; Provisional; Region: PRK14787 439375000574 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 439375000575 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 439375000576 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 439375000577 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 439375000578 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375000579 S-adenosylmethionine binding site [chemical binding]; other site 439375000580 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 439375000581 IHF dimer interface [polypeptide binding]; other site 439375000582 IHF - DNA interface [nucleotide binding]; other site 439375000583 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 439375000584 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 439375000585 tandem repeat interface [polypeptide binding]; other site 439375000586 oligomer interface [polypeptide binding]; other site 439375000587 active site residues [active] 439375000588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 439375000589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 439375000590 OstA-like protein; Region: OstA; pfam03968 439375000591 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 439375000592 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 439375000593 Walker A/P-loop; other site 439375000594 ATP binding site [chemical binding]; other site 439375000595 Q-loop/lid; other site 439375000596 ABC transporter signature motif; other site 439375000597 Walker B; other site 439375000598 D-loop; other site 439375000599 H-loop/switch region; other site 439375000600 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 439375000601 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 439375000602 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 439375000603 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 439375000604 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 439375000605 30S subunit binding site; other site 439375000606 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 439375000607 active site 439375000608 phosphorylation site [posttranslational modification] 439375000609 Uncharacterized small protein [Function unknown]; Region: COG5568 439375000610 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375000611 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 439375000612 putative dimer interface [polypeptide binding]; other site 439375000613 Integral membrane protein [Function unknown]; Region: COG5488 439375000614 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 439375000615 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 439375000616 minor groove reading motif; other site 439375000617 helix-hairpin-helix signature motif; other site 439375000618 substrate binding pocket [chemical binding]; other site 439375000619 active site 439375000620 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 439375000621 CysZ-like protein; Reviewed; Region: PRK12768 439375000622 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 439375000623 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375000624 substrate binding site [chemical binding]; other site 439375000625 ATP binding site [chemical binding]; other site 439375000626 Predicted membrane protein [Function unknown]; Region: COG2860 439375000627 UPF0126 domain; Region: UPF0126; pfam03458 439375000628 UPF0126 domain; Region: UPF0126; pfam03458 439375000629 heat shock protein GrpE; Provisional; Region: PRK14141 439375000630 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 439375000631 dimer interface [polypeptide binding]; other site 439375000632 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 439375000633 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 439375000634 ribonuclease PH; Reviewed; Region: rph; PRK00173 439375000635 Ribonuclease PH; Region: RNase_PH_bact; cd11362 439375000636 hexamer interface [polypeptide binding]; other site 439375000637 active site 439375000638 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375000639 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 439375000640 putative metal binding site [ion binding]; other site 439375000641 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 439375000642 active site 439375000643 dimerization interface [polypeptide binding]; other site 439375000644 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 439375000645 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375000646 FeS/SAM binding site; other site 439375000647 HemN C-terminal domain; Region: HemN_C; pfam06969 439375000648 Predicted methyltransferases [General function prediction only]; Region: COG0313 439375000649 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 439375000650 putative SAM binding site [chemical binding]; other site 439375000651 putative homodimer interface [polypeptide binding]; other site 439375000652 hypothetical protein; Reviewed; Region: PRK12497 439375000653 siroheme synthase; Provisional; Region: cysG; PRK10637 439375000654 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 439375000655 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 439375000656 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 439375000657 active site 439375000658 SAM binding site [chemical binding]; other site 439375000659 homodimer interface [polypeptide binding]; other site 439375000660 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 439375000661 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 439375000662 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 439375000663 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 439375000664 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 439375000665 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 439375000666 Active Sites [active] 439375000667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 439375000668 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 439375000669 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 439375000670 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 439375000671 active site 439375000672 DNA binding site [nucleotide binding] 439375000673 BA14K-like protein; Region: BA14K; pfam07886 439375000674 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 439375000675 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 439375000676 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 439375000677 substrate binding pocket [chemical binding]; other site 439375000678 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 439375000679 B12 binding site [chemical binding]; other site 439375000680 cobalt ligand [ion binding]; other site 439375000681 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 439375000682 Autoinducer binding domain; Region: Autoind_bind; pfam03472 439375000683 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375000684 DNA binding residues [nucleotide binding] 439375000685 aminotransferase; Provisional; Region: PRK06105 439375000686 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375000687 inhibitor-cofactor binding pocket; inhibition site 439375000688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375000689 catalytic residue [active] 439375000690 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 439375000691 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 439375000692 Active Sites [active] 439375000693 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 439375000694 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 439375000695 CysD dimerization site [polypeptide binding]; other site 439375000696 G1 box; other site 439375000697 putative GEF interaction site [polypeptide binding]; other site 439375000698 GTP/Mg2+ binding site [chemical binding]; other site 439375000699 Switch I region; other site 439375000700 G2 box; other site 439375000701 G3 box; other site 439375000702 Switch II region; other site 439375000703 G4 box; other site 439375000704 G5 box; other site 439375000705 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 439375000706 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 439375000707 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 439375000708 ligand-binding site [chemical binding]; other site 439375000709 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439375000710 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 439375000711 active site 439375000712 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375000713 active site 439375000714 DNA binding site [nucleotide binding] 439375000715 Int/Topo IB signature motif; other site 439375000716 HNH endonuclease; Region: HNH_3; pfam13392 439375000717 Protein of unknown function (DUF968); Region: DUF968; pfam06147 439375000718 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375000719 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439375000720 Walker A motif; other site 439375000721 ATP binding site [chemical binding]; other site 439375000722 Walker B motif; other site 439375000723 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 439375000724 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 439375000725 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375000726 non-specific DNA binding site [nucleotide binding]; other site 439375000727 salt bridge; other site 439375000728 sequence-specific DNA binding site [nucleotide binding]; other site 439375000729 Predicted transcriptional regulator [Transcription]; Region: COG2932 439375000730 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 439375000731 Catalytic site [active] 439375000732 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 439375000733 seryl-tRNA synthetase; Provisional; Region: PRK05431 439375000734 acyl carrier protein; Provisional; Region: acpP; PRK00982 439375000735 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 439375000736 replicative DNA helicase; Provisional; Region: PRK09165 439375000737 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 439375000738 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375000739 Walker A motif; other site 439375000740 ATP binding site [chemical binding]; other site 439375000741 Walker B motif; other site 439375000742 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 439375000743 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 439375000744 cofactor binding site; other site 439375000745 DNA binding site [nucleotide binding] 439375000746 substrate interaction site [chemical binding]; other site 439375000747 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 439375000748 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 439375000749 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 439375000750 DNA-binding interface [nucleotide binding]; DNA binding site 439375000751 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 439375000752 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 439375000753 Phage capsid family; Region: Phage_capsid; pfam05065 439375000754 Phage-related protein [Function unknown]; Region: COG4695 439375000755 Phage portal protein; Region: Phage_portal; pfam04860 439375000756 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 439375000757 oligomerization interface [polypeptide binding]; other site 439375000758 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 439375000759 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 439375000760 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 439375000761 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 439375000762 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 439375000763 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 439375000764 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375000765 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375000766 catalytic residue [active] 439375000767 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 439375000768 Putative phage tail protein; Region: Phage-tail_3; pfam13550 439375000769 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439375000770 Interdomain contacts; other site 439375000771 Cytokine receptor motif; other site 439375000772 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 439375000773 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439375000774 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375000775 active site 439375000776 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 439375000777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375000778 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 439375000779 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 439375000780 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 439375000781 Protein of unknown function (DUF1062); Region: DUF1062; pfam06353 439375000782 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375000783 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375000784 ligand binding site [chemical binding]; other site 439375000785 flexible hinge region; other site 439375000786 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 439375000787 putative switch regulator; other site 439375000788 non-specific DNA interactions [nucleotide binding]; other site 439375000789 DNA binding site [nucleotide binding] 439375000790 sequence specific DNA binding site [nucleotide binding]; other site 439375000791 putative cAMP binding site [chemical binding]; other site 439375000792 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375000793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 439375000794 active site 439375000795 dimerization interface [polypeptide binding]; other site 439375000796 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375000797 DNA binding residues [nucleotide binding] 439375000798 dimerization interface [polypeptide binding]; other site 439375000799 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 439375000800 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 439375000801 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 439375000802 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 439375000803 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 439375000804 GAF domain; Region: GAF; pfam01590 439375000805 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439375000806 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 439375000807 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375000808 NAD(P) binding site [chemical binding]; other site 439375000809 catalytic residues [active] 439375000810 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 439375000811 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 439375000812 NAD binding site [chemical binding]; other site 439375000813 substrate binding site [chemical binding]; other site 439375000814 catalytic Zn binding site [ion binding]; other site 439375000815 tetramer interface [polypeptide binding]; other site 439375000816 structural Zn binding site [ion binding]; other site 439375000817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 439375000818 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375000819 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375000820 DNA binding site [nucleotide binding] 439375000821 domain linker motif; other site 439375000822 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 439375000823 putative dimerization interface [polypeptide binding]; other site 439375000824 putative ligand binding site [chemical binding]; other site 439375000825 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 439375000826 Sulfatase; Region: Sulfatase; pfam00884 439375000827 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439375000828 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375000829 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 439375000830 Walker A/P-loop; other site 439375000831 ATP binding site [chemical binding]; other site 439375000832 Q-loop/lid; other site 439375000833 ABC transporter signature motif; other site 439375000834 Walker B; other site 439375000835 D-loop; other site 439375000836 H-loop/switch region; other site 439375000837 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 439375000838 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375000839 NAD(P) binding site [chemical binding]; other site 439375000840 catalytic residues [active] 439375000841 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375000842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000843 dimer interface [polypeptide binding]; other site 439375000844 conserved gate region; other site 439375000845 putative PBP binding loops; other site 439375000846 ABC-ATPase subunit interface; other site 439375000847 Putative transcription activator [Transcription]; Region: TenA; COG0819 439375000848 NMT1/THI5 like; Region: NMT1; pfam09084 439375000849 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 439375000850 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 439375000851 active site 439375000852 thiamine phosphate binding site [chemical binding]; other site 439375000853 pyrophosphate binding site [ion binding]; other site 439375000854 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 439375000855 ThiS interaction site; other site 439375000856 putative active site [active] 439375000857 tetramer interface [polypeptide binding]; other site 439375000858 Ubiquitin-like proteins; Region: UBQ; cl00155 439375000859 hydrophobic patch; other site 439375000860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375000861 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 439375000862 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 439375000863 dimer interface [polypeptide binding]; other site 439375000864 substrate binding site [chemical binding]; other site 439375000865 ATP binding site [chemical binding]; other site 439375000866 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375000867 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439375000868 putative active site [active] 439375000869 heme pocket [chemical binding]; other site 439375000870 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375000871 putative active site [active] 439375000872 heme pocket [chemical binding]; other site 439375000873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375000874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375000875 metal binding site [ion binding]; metal-binding site 439375000876 active site 439375000877 I-site; other site 439375000878 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 439375000879 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375000880 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439375000881 metal-binding site [ion binding] 439375000882 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439375000883 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375000884 metal-binding site [ion binding] 439375000885 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375000886 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375000887 motif II; other site 439375000888 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 439375000889 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375000890 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 439375000891 substrate binding site [chemical binding]; other site 439375000892 ATP binding site [chemical binding]; other site 439375000893 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375000894 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375000895 TM-ABC transporter signature motif; other site 439375000896 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375000897 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375000898 Walker A/P-loop; other site 439375000899 ATP binding site [chemical binding]; other site 439375000900 Q-loop/lid; other site 439375000901 ABC transporter signature motif; other site 439375000902 Walker B; other site 439375000903 D-loop; other site 439375000904 H-loop/switch region; other site 439375000905 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375000906 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 439375000907 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375000908 putative ligand binding site [chemical binding]; other site 439375000909 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375000910 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375000911 DNA binding site [nucleotide binding] 439375000912 domain linker motif; other site 439375000913 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 439375000914 dimerization interface [polypeptide binding]; other site 439375000915 ligand binding site [chemical binding]; other site 439375000916 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 439375000917 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 439375000918 Trp docking motif [polypeptide binding]; other site 439375000919 putative active site [active] 439375000920 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 439375000921 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 439375000922 DNA binding residues [nucleotide binding] 439375000923 dimer interface [polypeptide binding]; other site 439375000924 copper binding site [ion binding]; other site 439375000925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000926 dimer interface [polypeptide binding]; other site 439375000927 conserved gate region; other site 439375000928 putative PBP binding loops; other site 439375000929 ABC-ATPase subunit interface; other site 439375000930 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 439375000931 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 439375000932 Walker A/P-loop; other site 439375000933 ATP binding site [chemical binding]; other site 439375000934 Q-loop/lid; other site 439375000935 ABC transporter signature motif; other site 439375000936 Walker B; other site 439375000937 D-loop; other site 439375000938 H-loop/switch region; other site 439375000939 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 439375000940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000941 dimer interface [polypeptide binding]; other site 439375000942 conserved gate region; other site 439375000943 ABC-ATPase subunit interface; other site 439375000944 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 439375000945 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 439375000946 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 439375000947 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 439375000948 NAD(P) binding site [chemical binding]; other site 439375000949 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 439375000950 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375000951 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 439375000952 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 439375000953 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 439375000954 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 439375000955 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 439375000956 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 439375000957 CoA-transferase family III; Region: CoA_transf_3; pfam02515 439375000958 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375000959 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 439375000960 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 439375000961 active site 439375000962 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375000963 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375000964 putative DNA binding site [nucleotide binding]; other site 439375000965 putative Zn2+ binding site [ion binding]; other site 439375000966 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375000967 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375000968 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375000969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000970 dimer interface [polypeptide binding]; other site 439375000971 putative PBP binding loops; other site 439375000972 ABC-ATPase subunit interface; other site 439375000973 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375000974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375000975 dimer interface [polypeptide binding]; other site 439375000976 conserved gate region; other site 439375000977 putative PBP binding loops; other site 439375000978 ABC-ATPase subunit interface; other site 439375000979 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375000980 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375000981 Walker A/P-loop; other site 439375000982 ATP binding site [chemical binding]; other site 439375000983 Q-loop/lid; other site 439375000984 ABC transporter signature motif; other site 439375000985 Walker B; other site 439375000986 D-loop; other site 439375000987 H-loop/switch region; other site 439375000988 TOBE domain; Region: TOBE_2; pfam08402 439375000989 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 439375000990 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 439375000991 active site pocket [active] 439375000992 Domain of unknown function (DUF718); Region: DUF718; pfam05336 439375000993 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375000994 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375000995 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 439375000996 active site 2 [active] 439375000997 active site 1 [active] 439375000998 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 439375000999 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 439375001000 NAD binding site [chemical binding]; other site 439375001001 homotetramer interface [polypeptide binding]; other site 439375001002 homodimer interface [polypeptide binding]; other site 439375001003 active site 439375001004 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 439375001005 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 439375001006 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 439375001007 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 439375001008 putative active site pocket [active] 439375001009 metal binding site [ion binding]; metal-binding site 439375001010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 439375001011 zinc-binding protein; Provisional; Region: PRK01343 439375001012 Maf-like protein; Region: Maf; pfam02545 439375001013 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 439375001014 active site 439375001015 dimer interface [polypeptide binding]; other site 439375001016 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 439375001017 rRNA binding site [nucleotide binding]; other site 439375001018 predicted 30S ribosome binding site; other site 439375001019 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 439375001020 Low molecular weight phosphatase family; Region: LMWPc; cd00115 439375001021 active site 439375001022 hypothetical protein; Provisional; Region: PRK02853 439375001023 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 439375001024 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 439375001025 NAD binding site [chemical binding]; other site 439375001026 dimerization interface [polypeptide binding]; other site 439375001027 product binding site; other site 439375001028 substrate binding site [chemical binding]; other site 439375001029 zinc binding site [ion binding]; other site 439375001030 catalytic residues [active] 439375001031 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 439375001032 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 439375001033 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 439375001034 hinge; other site 439375001035 active site 439375001036 Predicted integral membrane protein [Function unknown]; Region: COG5473 439375001037 UreD urease accessory protein; Region: UreD; cl00530 439375001038 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 439375001039 alpha-gamma subunit interface [polypeptide binding]; other site 439375001040 beta-gamma subunit interface [polypeptide binding]; other site 439375001041 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 439375001042 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 439375001043 gamma-beta subunit interface [polypeptide binding]; other site 439375001044 alpha-beta subunit interface [polypeptide binding]; other site 439375001045 urease subunit alpha; Reviewed; Region: ureC; PRK13207 439375001046 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 439375001047 subunit interactions [polypeptide binding]; other site 439375001048 active site 439375001049 flap region; other site 439375001050 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 439375001051 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 439375001052 dimer interface [polypeptide binding]; other site 439375001053 catalytic residues [active] 439375001054 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 439375001055 UreF; Region: UreF; pfam01730 439375001056 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 439375001057 AAA domain; Region: AAA_18; pfam13238 439375001058 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 439375001059 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 439375001060 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375001061 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375001062 ATP binding site [chemical binding]; other site 439375001063 Mg2+ binding site [ion binding]; other site 439375001064 G-X-G motif; other site 439375001065 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375001066 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375001067 E3 interaction surface; other site 439375001068 lipoyl attachment site [posttranslational modification]; other site 439375001069 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375001070 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439375001071 NMT1/THI5 like; Region: NMT1; pfam09084 439375001072 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375001073 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375001074 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375001075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375001076 dimer interface [polypeptide binding]; other site 439375001077 conserved gate region; other site 439375001078 putative PBP binding loops; other site 439375001079 ABC-ATPase subunit interface; other site 439375001080 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375001081 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375001082 Walker A/P-loop; other site 439375001083 ATP binding site [chemical binding]; other site 439375001084 Q-loop/lid; other site 439375001085 ABC transporter signature motif; other site 439375001086 Walker B; other site 439375001087 D-loop; other site 439375001088 H-loop/switch region; other site 439375001089 phenylhydantoinase; Validated; Region: PRK08323 439375001090 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 439375001091 tetramer interface [polypeptide binding]; other site 439375001092 active site 439375001093 allantoate amidohydrolase; Reviewed; Region: PRK12893 439375001094 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 439375001095 active site 439375001096 metal binding site [ion binding]; metal-binding site 439375001097 dimer interface [polypeptide binding]; other site 439375001098 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 439375001099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375001100 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 439375001101 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 439375001102 nudix motif; other site 439375001103 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375001104 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375001105 Walker A/P-loop; other site 439375001106 ATP binding site [chemical binding]; other site 439375001107 Q-loop/lid; other site 439375001108 ABC transporter signature motif; other site 439375001109 Walker B; other site 439375001110 D-loop; other site 439375001111 H-loop/switch region; other site 439375001112 TOBE domain; Region: TOBE_2; pfam08402 439375001113 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375001114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375001115 dimer interface [polypeptide binding]; other site 439375001116 conserved gate region; other site 439375001117 putative PBP binding loops; other site 439375001118 ABC-ATPase subunit interface; other site 439375001119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375001120 dimer interface [polypeptide binding]; other site 439375001121 conserved gate region; other site 439375001122 putative PBP binding loops; other site 439375001123 ABC-ATPase subunit interface; other site 439375001124 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375001125 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375001126 hypothetical protein; Provisional; Region: PRK05968 439375001127 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 439375001128 homodimer interface [polypeptide binding]; other site 439375001129 substrate-cofactor binding pocket; other site 439375001130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375001131 catalytic residue [active] 439375001132 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375001133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375001134 DNA-binding site [nucleotide binding]; DNA binding site 439375001135 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375001136 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375001137 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375001138 active site 439375001139 catalytic tetrad [active] 439375001140 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375001141 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 439375001142 substrate binding site [chemical binding]; other site 439375001143 ATP binding site [chemical binding]; other site 439375001144 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375001145 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 439375001146 inhibitor site; inhibition site 439375001147 active site 439375001148 dimer interface [polypeptide binding]; other site 439375001149 catalytic residue [active] 439375001150 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375001151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 439375001152 DNA-binding site [nucleotide binding]; DNA binding site 439375001153 FCD domain; Region: FCD; pfam07729 439375001154 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375001155 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375001156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375001157 dimer interface [polypeptide binding]; other site 439375001158 conserved gate region; other site 439375001159 putative PBP binding loops; other site 439375001160 ABC-ATPase subunit interface; other site 439375001161 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375001162 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375001163 putative PBP binding loops; other site 439375001164 ABC-ATPase subunit interface; other site 439375001165 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375001166 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375001167 Walker A/P-loop; other site 439375001168 ATP binding site [chemical binding]; other site 439375001169 Q-loop/lid; other site 439375001170 ABC transporter signature motif; other site 439375001171 Walker B; other site 439375001172 D-loop; other site 439375001173 H-loop/switch region; other site 439375001174 TOBE domain; Region: TOBE_2; pfam08402 439375001175 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 439375001176 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 439375001177 homodimer interface [polypeptide binding]; other site 439375001178 active site 439375001179 FMN binding site [chemical binding]; other site 439375001180 substrate binding site [chemical binding]; other site 439375001181 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439375001182 4Fe-4S binding domain; Region: Fer4; pfam00037 439375001183 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 439375001184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375001185 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375001186 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439375001187 EamA-like transporter family; Region: EamA; pfam00892 439375001188 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 439375001189 putative hydrophobic ligand binding site [chemical binding]; other site 439375001190 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 439375001191 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 439375001192 active site 439375001193 dimer interface [polypeptide binding]; other site 439375001194 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 439375001195 dimer interface [polypeptide binding]; other site 439375001196 active site 439375001197 Predicted deacylase [General function prediction only]; Region: COG3608 439375001198 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 439375001199 active site 439375001200 Zn binding site [ion binding]; other site 439375001201 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 439375001202 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375001203 motif II; other site 439375001204 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 439375001205 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375001206 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 439375001207 C-terminal domain interface [polypeptide binding]; other site 439375001208 GSH binding site (G-site) [chemical binding]; other site 439375001209 dimer interface [polypeptide binding]; other site 439375001210 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 439375001211 dimer interface [polypeptide binding]; other site 439375001212 N-terminal domain interface [polypeptide binding]; other site 439375001213 putative substrate binding pocket (H-site) [chemical binding]; other site 439375001214 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 439375001215 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439375001216 acyl-activating enzyme (AAE) consensus motif; other site 439375001217 putative AMP binding site [chemical binding]; other site 439375001218 putative active site [active] 439375001219 putative CoA binding site [chemical binding]; other site 439375001220 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375001221 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 439375001222 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375001223 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375001224 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375001225 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 439375001226 Protein export membrane protein; Region: SecD_SecF; cl14618 439375001227 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375001228 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375001229 substrate binding pocket [chemical binding]; other site 439375001230 membrane-bound complex binding site; other site 439375001231 hinge residues; other site 439375001232 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 439375001233 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 439375001234 DXD motif; other site 439375001235 Uncharacterized conserved protein [Function unknown]; Region: COG2326 439375001236 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439375001237 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375001238 dimer interface [polypeptide binding]; other site 439375001239 phosphorylation site [posttranslational modification] 439375001240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375001241 ATP binding site [chemical binding]; other site 439375001242 Mg2+ binding site [ion binding]; other site 439375001243 G-X-G motif; other site 439375001244 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 439375001245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 439375001246 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439375001247 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375001248 active site 439375001249 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 439375001250 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 439375001251 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 439375001252 Chain length determinant protein; Region: Wzz; pfam02706 439375001253 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439375001254 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375001255 Homeodomain-like domain; Region: HTH_23; pfam13384 439375001256 Homeodomain-like domain; Region: HTH_32; pfam13565 439375001257 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375001258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375001259 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 439375001260 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 439375001261 putative active site [active] 439375001262 putative metal binding site [ion binding]; other site 439375001263 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439375001264 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375001265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375001266 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 439375001267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 439375001268 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 439375001269 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375001270 inhibitor-cofactor binding pocket; inhibition site 439375001271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375001272 catalytic residue [active] 439375001273 ornithine carbamoyltransferase; Provisional; Region: PRK00779 439375001274 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 439375001275 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 439375001276 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 439375001277 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 439375001278 dimerization interface [polypeptide binding]; other site 439375001279 domain crossover interface; other site 439375001280 redox-dependent activation switch; other site 439375001281 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 439375001282 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 439375001283 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 439375001284 homodimer interface [polypeptide binding]; other site 439375001285 substrate-cofactor binding pocket; other site 439375001286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375001287 catalytic residue [active] 439375001288 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 439375001289 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 439375001290 trimer interface [polypeptide binding]; other site 439375001291 active site 439375001292 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 439375001293 trimer interface [polypeptide binding]; other site 439375001294 active site 439375001295 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 439375001296 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 439375001297 conserved cys residue [active] 439375001298 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 439375001299 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 439375001300 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 439375001301 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 439375001302 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 439375001303 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 439375001304 quinone interaction residues [chemical binding]; other site 439375001305 active site 439375001306 catalytic residues [active] 439375001307 FMN binding site [chemical binding]; other site 439375001308 substrate binding site [chemical binding]; other site 439375001309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 439375001310 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 439375001311 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 439375001312 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375001313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375001314 active site 439375001315 phosphorylation site [posttranslational modification] 439375001316 intermolecular recognition site; other site 439375001317 dimerization interface [polypeptide binding]; other site 439375001318 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375001319 DNA binding residues [nucleotide binding] 439375001320 dimerization interface [polypeptide binding]; other site 439375001321 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 439375001322 Na binding site [ion binding]; other site 439375001323 PAS domain; Region: PAS; smart00091 439375001324 PAS fold; Region: PAS_7; pfam12860 439375001325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375001326 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375001327 dimer interface [polypeptide binding]; other site 439375001328 phosphorylation site [posttranslational modification] 439375001329 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375001330 ATP binding site [chemical binding]; other site 439375001331 Mg2+ binding site [ion binding]; other site 439375001332 G-X-G motif; other site 439375001333 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439375001334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375001335 active site 439375001336 phosphorylation site [posttranslational modification] 439375001337 intermolecular recognition site; other site 439375001338 dimerization interface [polypeptide binding]; other site 439375001339 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 439375001340 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 439375001341 aspartate aminotransferase; Provisional; Region: PRK06108 439375001342 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375001343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375001344 homodimer interface [polypeptide binding]; other site 439375001345 catalytic residue [active] 439375001346 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 439375001347 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 439375001348 substrate-cofactor binding pocket; other site 439375001349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375001350 catalytic residue [active] 439375001351 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439375001352 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 439375001353 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 439375001354 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 439375001355 putative active site [active] 439375001356 putative metal binding site [ion binding]; other site 439375001357 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 439375001358 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 439375001359 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 439375001360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375001361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375001362 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 439375001363 putative dimerization interface [polypeptide binding]; other site 439375001364 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 439375001365 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 439375001366 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 439375001367 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375001368 Zn binding site [ion binding]; other site 439375001369 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 439375001370 Zn binding site [ion binding]; other site 439375001371 Predicted esterase [General function prediction only]; Region: COG0400 439375001372 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 439375001373 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375001374 Zn binding site [ion binding]; other site 439375001375 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 439375001376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375001377 Zn binding site [ion binding]; other site 439375001378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 439375001379 pantoate--beta-alanine ligase; Region: panC; TIGR00018 439375001380 Pantoate-beta-alanine ligase; Region: PanC; cd00560 439375001381 active site 439375001382 ATP-binding site [chemical binding]; other site 439375001383 pantoate-binding site; other site 439375001384 HXXH motif; other site 439375001385 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 439375001386 oligomerization interface [polypeptide binding]; other site 439375001387 active site 439375001388 metal binding site [ion binding]; metal-binding site 439375001389 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 439375001390 quinolinate synthetase; Provisional; Region: PRK09375 439375001391 L-aspartate oxidase; Provisional; Region: PRK07512 439375001392 L-aspartate oxidase; Provisional; Region: PRK06175 439375001393 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 439375001394 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 439375001395 dimerization interface [polypeptide binding]; other site 439375001396 active site 439375001397 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375001398 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375001399 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 439375001400 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 439375001401 FAD binding pocket [chemical binding]; other site 439375001402 FAD binding motif [chemical binding]; other site 439375001403 phosphate binding motif [ion binding]; other site 439375001404 beta-alpha-beta structure motif; other site 439375001405 NAD binding pocket [chemical binding]; other site 439375001406 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 439375001407 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 439375001408 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 439375001409 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 439375001410 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 439375001411 non-specific DNA interactions [nucleotide binding]; other site 439375001412 DNA binding site [nucleotide binding] 439375001413 sequence specific DNA binding site [nucleotide binding]; other site 439375001414 putative cAMP binding site [chemical binding]; other site 439375001415 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375001416 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375001417 putative substrate translocation pore; other site 439375001418 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 439375001419 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 439375001420 dimer interface [polypeptide binding]; other site 439375001421 active site 439375001422 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375001423 catalytic residues [active] 439375001424 substrate binding site [chemical binding]; other site 439375001425 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 439375001426 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 439375001427 NAD(P) binding site [chemical binding]; other site 439375001428 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 439375001429 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 439375001430 multidrug efflux protein; Reviewed; Region: PRK01766 439375001431 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 439375001432 cation binding site [ion binding]; other site 439375001433 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 439375001434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 439375001435 Cache domain; Region: Cache_2; cl07034 439375001436 Histidine kinase; Region: HisKA_3; pfam07730 439375001437 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375001438 ATP binding site [chemical binding]; other site 439375001439 Mg2+ binding site [ion binding]; other site 439375001440 G-X-G motif; other site 439375001441 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375001442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375001443 active site 439375001444 phosphorylation site [posttranslational modification] 439375001445 intermolecular recognition site; other site 439375001446 dimerization interface [polypeptide binding]; other site 439375001447 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375001448 DNA binding residues [nucleotide binding] 439375001449 dimerization interface [polypeptide binding]; other site 439375001450 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 439375001451 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 439375001452 DctM-like transporters; Region: DctM; pfam06808 439375001453 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 439375001454 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439375001455 Porin subfamily; Region: Porin_2; pfam02530 439375001456 hypothetical protein; Provisional; Region: PRK11171 439375001457 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 439375001458 Cupin domain; Region: Cupin_2; pfam07883 439375001459 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 439375001460 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 439375001461 active site 439375001462 catalytic site [active] 439375001463 tetramer interface [polypeptide binding]; other site 439375001464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 439375001465 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 439375001466 active site 439375001467 homotetramer interface [polypeptide binding]; other site 439375001468 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 439375001469 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 439375001470 catalytic loop [active] 439375001471 iron binding site [ion binding]; other site 439375001472 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 439375001473 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 439375001474 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 439375001475 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 439375001476 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 439375001477 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 439375001478 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 439375001479 XdhC Rossmann domain; Region: XdhC_C; pfam13478 439375001480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375001481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375001482 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 439375001483 putative effector binding pocket; other site 439375001484 dimerization interface [polypeptide binding]; other site 439375001485 Predicted membrane protein [Function unknown]; Region: COG3748 439375001486 Protein of unknown function (DUF989); Region: DUF989; pfam06181 439375001487 Cytochrome c; Region: Cytochrom_C; pfam00034 439375001488 guanine deaminase; Provisional; Region: PRK09228 439375001489 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 439375001490 active site 439375001491 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 439375001492 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375001493 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375001494 glyoxylate carboligase; Provisional; Region: PRK11269 439375001495 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439375001496 PYR/PP interface [polypeptide binding]; other site 439375001497 dimer interface [polypeptide binding]; other site 439375001498 TPP binding site [chemical binding]; other site 439375001499 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439375001500 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 439375001501 TPP-binding site [chemical binding]; other site 439375001502 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 439375001503 tartronate semialdehyde reductase; Provisional; Region: PRK15059 439375001504 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439375001505 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 439375001506 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 439375001507 MOFRL family; Region: MOFRL; pfam05161 439375001508 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 439375001509 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439375001510 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375001511 metal-binding site [ion binding] 439375001512 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375001513 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375001514 motif II; other site 439375001515 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 439375001516 FixH; Region: FixH; pfam05751 439375001517 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 439375001518 4Fe-4S binding domain; Region: Fer4_5; pfam12801 439375001519 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 439375001520 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 439375001521 Cytochrome c; Region: Cytochrom_C; pfam00034 439375001522 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 439375001523 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 439375001524 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 439375001525 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 439375001526 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 439375001527 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 439375001528 Low-spin heme binding site [chemical binding]; other site 439375001529 Putative water exit pathway; other site 439375001530 Binuclear center (active site) [active] 439375001531 Putative proton exit pathway; other site 439375001532 sensor protein QseC; Provisional; Region: PRK10337 439375001533 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375001534 dimer interface [polypeptide binding]; other site 439375001535 phosphorylation site [posttranslational modification] 439375001536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375001537 ATP binding site [chemical binding]; other site 439375001538 Mg2+ binding site [ion binding]; other site 439375001539 G-X-G motif; other site 439375001540 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 439375001541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375001542 active site 439375001543 phosphorylation site [posttranslational modification] 439375001544 intermolecular recognition site; other site 439375001545 dimerization interface [polypeptide binding]; other site 439375001546 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375001547 DNA binding site [nucleotide binding] 439375001548 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 439375001549 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 439375001550 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 439375001551 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439375001552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375001553 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375001554 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 439375001555 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 439375001556 catalytic residues [active] 439375001557 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 439375001558 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 439375001559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375001560 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 439375001561 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 439375001562 DNA binding site [nucleotide binding] 439375001563 active site 439375001564 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 439375001565 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 439375001566 ArsC family; Region: ArsC; pfam03960 439375001567 putative catalytic residues [active] 439375001568 Predicted membrane protein [Function unknown]; Region: COG4129 439375001569 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 439375001570 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 439375001571 oligomer interface [polypeptide binding]; other site 439375001572 active site residues [active] 439375001573 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 439375001574 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375001575 dimerization interface [polypeptide binding]; other site 439375001576 putative DNA binding site [nucleotide binding]; other site 439375001577 putative Zn2+ binding site [ion binding]; other site 439375001578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375001579 putative substrate translocation pore; other site 439375001580 D-galactonate transporter; Region: 2A0114; TIGR00893 439375001581 microcin B17 transporter; Reviewed; Region: PRK11098 439375001582 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 439375001583 NodB motif; other site 439375001584 putative active site [active] 439375001585 putative catalytic site [active] 439375001586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 439375001587 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 439375001588 GTP-binding protein Der; Reviewed; Region: PRK00093 439375001589 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 439375001590 G1 box; other site 439375001591 GTP/Mg2+ binding site [chemical binding]; other site 439375001592 Switch I region; other site 439375001593 G2 box; other site 439375001594 Switch II region; other site 439375001595 G3 box; other site 439375001596 G4 box; other site 439375001597 G5 box; other site 439375001598 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 439375001599 G1 box; other site 439375001600 GTP/Mg2+ binding site [chemical binding]; other site 439375001601 Switch I region; other site 439375001602 G2 box; other site 439375001603 G3 box; other site 439375001604 Switch II region; other site 439375001605 G4 box; other site 439375001606 G5 box; other site 439375001607 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 439375001608 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375001609 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439375001610 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439375001611 ligand binding site [chemical binding]; other site 439375001612 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 439375001613 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 439375001614 nucleotide binding site [chemical binding]; other site 439375001615 putative NEF/HSP70 interaction site [polypeptide binding]; other site 439375001616 SBD interface [polypeptide binding]; other site 439375001617 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 439375001618 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 439375001619 Catalytic site [active] 439375001620 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 439375001621 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 439375001622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 439375001623 Uncharacterized conserved protein [Function unknown]; Region: COG3791 439375001624 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 439375001625 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 439375001626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 439375001627 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 439375001628 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 439375001629 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 439375001630 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 439375001631 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 439375001632 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 439375001633 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 439375001634 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 439375001635 active site 439375001636 8-oxo-dGMP binding site [chemical binding]; other site 439375001637 nudix motif; other site 439375001638 metal binding site [ion binding]; metal-binding site 439375001639 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375001640 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375001641 putative DNA binding site [nucleotide binding]; other site 439375001642 putative Zn2+ binding site [ion binding]; other site 439375001643 AsnC family; Region: AsnC_trans_reg; pfam01037 439375001644 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375001645 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 439375001646 RNA/DNA hybrid binding site [nucleotide binding]; other site 439375001647 active site 439375001648 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 439375001649 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375001650 FeS/SAM binding site; other site 439375001651 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 439375001652 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 439375001653 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 439375001654 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 439375001655 tandem repeat interface [polypeptide binding]; other site 439375001656 oligomer interface [polypeptide binding]; other site 439375001657 active site residues [active] 439375001658 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 439375001659 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 439375001660 active site 439375001661 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 439375001662 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 439375001663 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 439375001664 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 439375001665 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 439375001666 substrate binding pocket [chemical binding]; other site 439375001667 chain length determination region; other site 439375001668 substrate-Mg2+ binding site; other site 439375001669 catalytic residues [active] 439375001670 aspartate-rich region 1; other site 439375001671 active site lid residues [active] 439375001672 aspartate-rich region 2; other site 439375001673 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 439375001674 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375001675 binding surface 439375001676 TPR motif; other site 439375001677 TPR repeat; Region: TPR_11; pfam13414 439375001678 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375001679 binding surface 439375001680 TPR motif; other site 439375001681 TPR repeat; Region: TPR_11; pfam13414 439375001682 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375001683 binding surface 439375001684 TPR motif; other site 439375001685 TPR repeat; Region: TPR_11; pfam13414 439375001686 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 439375001687 dimer interface [polypeptide binding]; other site 439375001688 motif 1; other site 439375001689 active site 439375001690 motif 2; other site 439375001691 motif 3; other site 439375001692 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 439375001693 DALR anticodon binding domain; Region: DALR_1; pfam05746 439375001694 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 439375001695 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 439375001696 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439375001697 FAD binding domain; Region: FAD_binding_4; pfam01565 439375001698 enoyl-CoA hydratase; Provisional; Region: PRK06688 439375001699 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375001700 substrate binding site [chemical binding]; other site 439375001701 oxyanion hole (OAH) forming residues; other site 439375001702 trimer interface [polypeptide binding]; other site 439375001703 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439375001704 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439375001705 active site 439375001706 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439375001707 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 439375001708 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 439375001709 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 439375001710 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 439375001711 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 439375001712 UbiA prenyltransferase family; Region: UbiA; pfam01040 439375001713 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 439375001714 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 439375001715 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 439375001716 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375001717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375001718 metal binding site [ion binding]; metal-binding site 439375001719 active site 439375001720 I-site; other site 439375001721 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 439375001722 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 439375001723 HSP70 interaction site [polypeptide binding]; other site 439375001724 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 439375001725 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 439375001726 dimer interface [polypeptide binding]; other site 439375001727 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 439375001728 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 439375001729 NAD binding site [chemical binding]; other site 439375001730 homotetramer interface [polypeptide binding]; other site 439375001731 homodimer interface [polypeptide binding]; other site 439375001732 substrate binding site [chemical binding]; other site 439375001733 active site 439375001734 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 439375001735 catalytic core [active] 439375001736 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 439375001737 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375001738 active site 439375001739 metal binding site [ion binding]; metal-binding site 439375001740 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 439375001741 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 439375001742 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 439375001743 Tetramer interface [polypeptide binding]; other site 439375001744 active site 439375001745 FMN-binding site [chemical binding]; other site 439375001746 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 439375001747 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 439375001748 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 439375001749 dimerization interface [polypeptide binding]; other site 439375001750 active site 439375001751 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 439375001752 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 439375001753 putative active site [active] 439375001754 Zn binding site [ion binding]; other site 439375001755 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 439375001756 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 439375001757 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 439375001758 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 439375001759 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 439375001760 Pirin-related protein [General function prediction only]; Region: COG1741 439375001761 Pirin; Region: Pirin; pfam02678 439375001762 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 439375001763 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 439375001764 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 439375001765 TPP-binding site; other site 439375001766 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 439375001767 PYR/PP interface [polypeptide binding]; other site 439375001768 dimer interface [polypeptide binding]; other site 439375001769 TPP binding site [chemical binding]; other site 439375001770 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375001771 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 439375001772 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 439375001773 RNA binding surface [nucleotide binding]; other site 439375001774 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375001775 S-adenosylmethionine binding site [chemical binding]; other site 439375001776 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 439375001777 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375001778 S-adenosylmethionine binding site [chemical binding]; other site 439375001779 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 439375001780 aspartate racemase; Region: asp_race; TIGR00035 439375001781 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 439375001782 Predicted periplasmic protein [General function prediction only]; Region: COG3895 439375001783 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 439375001784 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 439375001785 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439375001786 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375001787 putative DNA binding site [nucleotide binding]; other site 439375001788 dimerization interface [polypeptide binding]; other site 439375001789 putative Zn2+ binding site [ion binding]; other site 439375001790 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375001791 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 439375001792 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 439375001793 Walker A/P-loop; other site 439375001794 ATP binding site [chemical binding]; other site 439375001795 Q-loop/lid; other site 439375001796 ABC transporter signature motif; other site 439375001797 Walker B; other site 439375001798 D-loop; other site 439375001799 H-loop/switch region; other site 439375001800 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 439375001801 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 439375001802 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 439375001803 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 439375001804 Predicted ATPase [General function prediction only]; Region: COG3911 439375001805 AAA domain; Region: AAA_28; pfam13521 439375001806 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 439375001807 classical (c) SDRs; Region: SDR_c; cd05233 439375001808 NAD(P) binding site [chemical binding]; other site 439375001809 active site 439375001810 amidophosphoribosyltransferase; Provisional; Region: PRK09123 439375001811 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 439375001812 active site 439375001813 tetramer interface [polypeptide binding]; other site 439375001814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375001815 active site 439375001816 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 439375001817 Colicin V production protein; Region: Colicin_V; pfam02674 439375001818 DNA repair protein RadA; Provisional; Region: PRK11823 439375001819 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 439375001820 Walker A motif/ATP binding site; other site 439375001821 ATP binding site [chemical binding]; other site 439375001822 Walker B motif; other site 439375001823 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 439375001824 replicative DNA helicase; Provisional; Region: PRK09165 439375001825 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 439375001826 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 439375001827 Walker A motif; other site 439375001828 ATP binding site [chemical binding]; other site 439375001829 Walker B motif; other site 439375001830 DNA binding loops [nucleotide binding] 439375001831 Purine nucleoside permease (NUP); Region: NUP; pfam06516 439375001832 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 439375001833 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375001834 S-adenosylmethionine binding site [chemical binding]; other site 439375001835 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 439375001836 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 439375001837 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 439375001838 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 439375001839 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 439375001840 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 439375001841 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 439375001842 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 439375001843 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 439375001844 NAD(P) binding site [chemical binding]; other site 439375001845 homotetramer interface [polypeptide binding]; other site 439375001846 homodimer interface [polypeptide binding]; other site 439375001847 active site 439375001848 acyl carrier protein; Provisional; Region: acpP; PRK00982 439375001849 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 439375001850 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 439375001851 dimer interface [polypeptide binding]; other site 439375001852 active site 439375001853 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 439375001854 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 439375001855 dimerization interface [polypeptide binding]; other site 439375001856 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 439375001857 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 439375001858 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 439375001859 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 439375001860 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 439375001861 catalytic site [active] 439375001862 G-X2-G-X-G-K; other site 439375001863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375001864 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 439375001865 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375001866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375001867 protease TldD; Provisional; Region: tldD; PRK10735 439375001868 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 439375001869 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 439375001870 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 439375001871 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 439375001872 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 439375001873 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 439375001874 Subunit I/III interface [polypeptide binding]; other site 439375001875 D-pathway; other site 439375001876 Subunit I/VIIc interface [polypeptide binding]; other site 439375001877 Subunit I/IV interface [polypeptide binding]; other site 439375001878 Subunit I/II interface [polypeptide binding]; other site 439375001879 Low-spin heme (heme a) binding site [chemical binding]; other site 439375001880 Subunit I/VIIa interface [polypeptide binding]; other site 439375001881 Subunit I/VIa interface [polypeptide binding]; other site 439375001882 Dimer interface; other site 439375001883 Putative water exit pathway; other site 439375001884 Binuclear center (heme a3/CuB) [ion binding]; other site 439375001885 K-pathway; other site 439375001886 Subunit I/Vb interface [polypeptide binding]; other site 439375001887 Putative proton exit pathway; other site 439375001888 Subunit I/VIb interface; other site 439375001889 Subunit I/VIc interface [polypeptide binding]; other site 439375001890 Electron transfer pathway; other site 439375001891 Subunit I/VIIIb interface [polypeptide binding]; other site 439375001892 Subunit I/VIIb interface [polypeptide binding]; other site 439375001893 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 439375001894 UbiA prenyltransferase family; Region: UbiA; pfam01040 439375001895 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 439375001896 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 439375001897 Subunit III/VIIa interface [polypeptide binding]; other site 439375001898 Phospholipid binding site [chemical binding]; other site 439375001899 Subunit I/III interface [polypeptide binding]; other site 439375001900 Subunit III/VIb interface [polypeptide binding]; other site 439375001901 Subunit III/VIa interface; other site 439375001902 Subunit III/Vb interface [polypeptide binding]; other site 439375001903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 439375001904 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 439375001905 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 439375001906 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 439375001907 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 439375001908 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 439375001909 putative active site [active] 439375001910 putative substrate binding site [chemical binding]; other site 439375001911 ATP binding site [chemical binding]; other site 439375001912 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 439375001913 RNA/DNA hybrid binding site [nucleotide binding]; other site 439375001914 active site 439375001915 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 439375001916 catalytic triad [active] 439375001917 dimer interface [polypeptide binding]; other site 439375001918 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 439375001919 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375001920 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375001921 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375001922 hypothetical protein; Validated; Region: PRK00228 439375001923 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 439375001924 PAS fold; Region: PAS_3; pfam08447 439375001925 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375001926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375001927 metal binding site [ion binding]; metal-binding site 439375001928 active site 439375001929 I-site; other site 439375001930 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 439375001931 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 439375001932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439375001933 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 439375001934 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 439375001935 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439375001936 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 439375001937 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 439375001938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375001939 catalytic residue [active] 439375001940 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 439375001941 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 439375001942 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375001943 active site 439375001944 motif I; other site 439375001945 motif II; other site 439375001946 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 439375001947 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 439375001948 Cl- selectivity filter; other site 439375001949 Cl- binding residues [ion binding]; other site 439375001950 pore gating glutamate residue; other site 439375001951 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 439375001952 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 439375001953 dimer interface [polypeptide binding]; other site 439375001954 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 439375001955 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 439375001956 DNA methylase; Region: N6_N4_Mtase; pfam01555 439375001957 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 439375001958 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 439375001959 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 439375001960 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 439375001961 minor groove reading motif; other site 439375001962 helix-hairpin-helix signature motif; other site 439375001963 substrate binding pocket [chemical binding]; other site 439375001964 active site 439375001965 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 439375001966 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 439375001967 DNA binding and oxoG recognition site [nucleotide binding] 439375001968 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 439375001969 O-Antigen ligase; Region: Wzy_C; pfam04932 439375001970 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439375001971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375001972 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439375001973 NAD(P) binding site [chemical binding]; other site 439375001974 active site 439375001975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 439375001976 Thioredoxin; Region: Thioredoxin_4; pfam13462 439375001977 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 439375001978 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 439375001979 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 439375001980 Walker A/P-loop; other site 439375001981 ATP binding site [chemical binding]; other site 439375001982 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 439375001983 ABC transporter signature motif; other site 439375001984 Walker B; other site 439375001985 D-loop; other site 439375001986 H-loop/switch region; other site 439375001987 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 439375001988 Protein of unknown function (DUF497); Region: DUF497; cl01108 439375001989 Fic family protein [Function unknown]; Region: COG3177 439375001990 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 439375001991 Fic/DOC family; Region: Fic; pfam02661 439375001992 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375001993 putative DNA binding site [nucleotide binding]; other site 439375001994 putative Zn2+ binding site [ion binding]; other site 439375001995 PIN domain; Region: PIN_3; pfam13470 439375001996 HicB family; Region: HicB; pfam05534 439375001997 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 439375001998 HicB family; Region: HicB; pfam05534 439375001999 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375002000 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375002001 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375002002 putative active site [active] 439375002003 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 439375002004 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375002005 Walker A/P-loop; other site 439375002006 ATP binding site [chemical binding]; other site 439375002007 Q-loop/lid; other site 439375002008 ABC transporter signature motif; other site 439375002009 Walker B; other site 439375002010 D-loop; other site 439375002011 H-loop/switch region; other site 439375002012 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375002013 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375002014 Walker A/P-loop; other site 439375002015 ATP binding site [chemical binding]; other site 439375002016 Q-loop/lid; other site 439375002017 ABC transporter signature motif; other site 439375002018 Walker B; other site 439375002019 D-loop; other site 439375002020 H-loop/switch region; other site 439375002021 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375002022 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 439375002023 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 439375002024 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 439375002025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375002026 dimer interface [polypeptide binding]; other site 439375002027 conserved gate region; other site 439375002028 putative PBP binding loops; other site 439375002029 ABC-ATPase subunit interface; other site 439375002030 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 439375002031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375002032 dimer interface [polypeptide binding]; other site 439375002033 conserved gate region; other site 439375002034 putative PBP binding loops; other site 439375002035 ABC-ATPase subunit interface; other site 439375002036 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 439375002037 SxDxEG motif; other site 439375002038 active site 439375002039 metal binding site [ion binding]; metal-binding site 439375002040 homopentamer interface [polypeptide binding]; other site 439375002041 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 439375002042 catalytic nucleophile [active] 439375002043 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 439375002044 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 439375002045 putative active site [active] 439375002046 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 439375002047 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002048 sequence-specific DNA binding site [nucleotide binding]; other site 439375002049 salt bridge; other site 439375002050 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 439375002051 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375002052 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375002053 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375002054 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375002055 dimer interface [polypeptide binding]; other site 439375002056 conserved gate region; other site 439375002057 putative PBP binding loops; other site 439375002058 ABC-ATPase subunit interface; other site 439375002059 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375002060 dimer interface [polypeptide binding]; other site 439375002061 conserved gate region; other site 439375002062 putative PBP binding loops; other site 439375002063 ABC-ATPase subunit interface; other site 439375002064 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375002065 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375002066 Walker A/P-loop; other site 439375002067 ATP binding site [chemical binding]; other site 439375002068 Q-loop/lid; other site 439375002069 ABC transporter signature motif; other site 439375002070 Walker B; other site 439375002071 D-loop; other site 439375002072 H-loop/switch region; other site 439375002073 TOBE domain; Region: TOBE_2; pfam08402 439375002074 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439375002075 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375002076 active site 439375002077 metal binding site [ion binding]; metal-binding site 439375002078 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 439375002079 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375002080 motif II; other site 439375002081 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375002082 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375002083 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 439375002084 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 439375002085 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375002086 Walker A motif; other site 439375002087 ATP binding site [chemical binding]; other site 439375002088 Walker B motif; other site 439375002089 TraC-like protein; Region: TraC; pfam07820 439375002090 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 439375002091 MobA/MobL family; Region: MobA_MobL; pfam03389 439375002092 AAA domain; Region: AAA_30; pfam13604 439375002093 Family description; Region: UvrD_C_2; pfam13538 439375002094 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 439375002095 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 439375002096 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 439375002097 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 439375002098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375002099 catalytic residue [active] 439375002100 dimer interface [polypeptide binding]; other site 439375002101 Transposase; Region: HTH_Tnp_1; pfam01527 439375002102 HTH-like domain; Region: HTH_21; pfam13276 439375002103 Integrase core domain; Region: rve; pfam00665 439375002104 Integrase core domain; Region: rve_3; pfam13683 439375002105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375002106 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375002107 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375002108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375002109 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375002110 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375002111 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 439375002112 TPP-binding site [chemical binding]; other site 439375002113 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 439375002114 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 439375002115 PYR/PP interface [polypeptide binding]; other site 439375002116 dimer interface [polypeptide binding]; other site 439375002117 TPP binding site [chemical binding]; other site 439375002118 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 439375002119 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 439375002120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 439375002121 threonine synthase; Validated; Region: PRK06260 439375002122 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 439375002123 homodimer interface [polypeptide binding]; other site 439375002124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375002125 catalytic residue [active] 439375002126 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439375002127 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439375002128 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 439375002129 active site 439375002130 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375002131 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 439375002132 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375002133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002134 sequence-specific DNA binding site [nucleotide binding]; other site 439375002135 salt bridge; other site 439375002136 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002137 non-specific DNA binding site [nucleotide binding]; other site 439375002138 salt bridge; other site 439375002139 sequence-specific DNA binding site [nucleotide binding]; other site 439375002140 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375002141 DNA binding residues [nucleotide binding] 439375002142 dimerization interface [polypeptide binding]; other site 439375002143 Autoinducer binding domain; Region: Autoind_bind; pfam03472 439375002144 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 439375002145 TrbC/VIRB2 family; Region: TrbC; pfam04956 439375002146 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 439375002147 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 439375002148 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 439375002149 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 439375002150 Type IV secretion system proteins; Region: T4SS; pfam07996 439375002151 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 439375002152 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 439375002153 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 439375002154 VirB7 interaction site; other site 439375002155 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 439375002156 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 439375002157 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 439375002158 Walker A motif; other site 439375002159 hexamer interface [polypeptide binding]; other site 439375002160 ATP binding site [chemical binding]; other site 439375002161 Walker B motif; other site 439375002162 pyruvate phosphate dikinase; Provisional; Region: PRK09279 439375002163 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 439375002164 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439375002165 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 439375002166 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 439375002167 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 439375002168 NodB motif; other site 439375002169 putative active site [active] 439375002170 putative catalytic site [active] 439375002171 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 439375002172 Cytochrome c; Region: Cytochrom_C; pfam00034 439375002173 Cytochrome c [Energy production and conversion]; Region: COG3258 439375002174 Cytochrome c; Region: Cytochrom_C; pfam00034 439375002175 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 439375002176 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439375002177 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 439375002178 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 439375002179 ureidoglycolate hydrolase; Provisional; Region: PRK03606 439375002180 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 439375002181 active site 439375002182 homotetramer interface [polypeptide binding]; other site 439375002183 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 439375002184 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 439375002185 NAD(P) binding site [chemical binding]; other site 439375002186 homodimer interface [polypeptide binding]; other site 439375002187 substrate binding site [chemical binding]; other site 439375002188 active site 439375002189 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 439375002190 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 439375002191 Mg++ binding site [ion binding]; other site 439375002192 putative catalytic motif [active] 439375002193 putative substrate binding site [chemical binding]; other site 439375002194 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375002195 active site 439375002196 DNA binding site [nucleotide binding] 439375002197 Int/Topo IB signature motif; other site 439375002198 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439375002199 active site 439375002200 metal binding site [ion binding]; metal-binding site 439375002201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 439375002202 Integrase core domain; Region: rve; pfam00665 439375002203 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375002204 DNA binding residues [nucleotide binding] 439375002205 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 439375002206 Integrase core domain; Region: rve; pfam00665 439375002207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 439375002208 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 439375002209 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 439375002210 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375002211 Walker A motif; other site 439375002212 ATP binding site [chemical binding]; other site 439375002213 Walker B motif; other site 439375002214 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375002215 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439375002216 Walker A motif; other site 439375002217 ATP binding site [chemical binding]; other site 439375002218 Walker B motif; other site 439375002219 arginine finger; other site 439375002220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375002221 Transposase; Region: HTH_Tnp_1; pfam01527 439375002222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375002223 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375002224 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375002225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375002226 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375002227 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375002228 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375002229 enoyl-CoA hydratase; Provisional; Region: PRK05862 439375002230 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375002231 substrate binding site [chemical binding]; other site 439375002232 oxyanion hole (OAH) forming residues; other site 439375002233 trimer interface [polypeptide binding]; other site 439375002234 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 439375002235 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 439375002236 DNA binding site [nucleotide binding] 439375002237 catalytic residue [active] 439375002238 H2TH interface [polypeptide binding]; other site 439375002239 putative catalytic residues [active] 439375002240 turnover-facilitating residue; other site 439375002241 intercalation triad [nucleotide binding]; other site 439375002242 8OG recognition residue [nucleotide binding]; other site 439375002243 putative reading head residues; other site 439375002244 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 439375002245 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 439375002246 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 439375002247 TadE-like protein; Region: TadE; pfam07811 439375002248 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 439375002249 TadE-like protein; Region: TadE; pfam07811 439375002250 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 439375002251 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 439375002252 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 439375002253 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 439375002254 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 439375002255 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 439375002256 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 439375002257 BON domain; Region: BON; pfam04972 439375002258 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 439375002259 Type IV pili component [Cell motility and secretion]; Region: COG5461 439375002260 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 439375002261 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 439375002262 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 439375002263 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 439375002264 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 439375002265 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 439375002266 ATP binding site [chemical binding]; other site 439375002267 Walker A motif; other site 439375002268 hexamer interface [polypeptide binding]; other site 439375002269 Walker B motif; other site 439375002270 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 439375002271 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439375002272 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 439375002273 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439375002274 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 439375002275 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375002276 binding surface 439375002277 TPR motif; other site 439375002278 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 439375002279 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 439375002280 interface (dimer of trimers) [polypeptide binding]; other site 439375002281 Substrate-binding/catalytic site; other site 439375002282 Zn-binding sites [ion binding]; other site 439375002283 MarR family; Region: MarR; pfam01047 439375002284 Bacterial SH3 domain; Region: SH3_3; cl17532 439375002285 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 439375002286 NlpC/P60 family; Region: NLPC_P60; cl17555 439375002287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375002288 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 439375002289 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 439375002290 dimerization interface [polypeptide binding]; other site 439375002291 ligand binding site [chemical binding]; other site 439375002292 NADP binding site [chemical binding]; other site 439375002293 catalytic site [active] 439375002294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 439375002295 Bacterial SH3 domain; Region: SH3_4; pfam06347 439375002296 Bacterial SH3 domain; Region: SH3_4; pfam06347 439375002297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 439375002298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375002299 Coenzyme A binding pocket [chemical binding]; other site 439375002300 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 439375002301 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 439375002302 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439375002303 metal binding site 2 [ion binding]; metal-binding site 439375002304 putative DNA binding helix; other site 439375002305 metal binding site 1 [ion binding]; metal-binding site 439375002306 dimer interface [polypeptide binding]; other site 439375002307 structural Zn2+ binding site [ion binding]; other site 439375002308 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 439375002309 active site 1 [active] 439375002310 dimer interface [polypeptide binding]; other site 439375002311 active site 2 [active] 439375002312 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 439375002313 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 439375002314 dimer interface [polypeptide binding]; other site 439375002315 active site 439375002316 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 439375002317 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 439375002318 NAD binding site [chemical binding]; other site 439375002319 homotetramer interface [polypeptide binding]; other site 439375002320 homodimer interface [polypeptide binding]; other site 439375002321 substrate binding site [chemical binding]; other site 439375002322 active site 439375002323 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 439375002324 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375002325 S-adenosylmethionine binding site [chemical binding]; other site 439375002326 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 439375002327 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 439375002328 RNase E interface [polypeptide binding]; other site 439375002329 trimer interface [polypeptide binding]; other site 439375002330 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 439375002331 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 439375002332 RNase E interface [polypeptide binding]; other site 439375002333 trimer interface [polypeptide binding]; other site 439375002334 active site 439375002335 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 439375002336 putative nucleic acid binding region [nucleotide binding]; other site 439375002337 G-X-X-G motif; other site 439375002338 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 439375002339 RNA binding site [nucleotide binding]; other site 439375002340 domain interface; other site 439375002341 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 439375002342 16S/18S rRNA binding site [nucleotide binding]; other site 439375002343 S13e-L30e interaction site [polypeptide binding]; other site 439375002344 25S rRNA binding site [nucleotide binding]; other site 439375002345 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 439375002346 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 439375002347 RNA binding site [nucleotide binding]; other site 439375002348 active site 439375002349 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 439375002350 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 439375002351 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 439375002352 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 439375002353 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 439375002354 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 439375002355 G1 box; other site 439375002356 putative GEF interaction site [polypeptide binding]; other site 439375002357 GTP/Mg2+ binding site [chemical binding]; other site 439375002358 Switch I region; other site 439375002359 G2 box; other site 439375002360 G3 box; other site 439375002361 Switch II region; other site 439375002362 G4 box; other site 439375002363 G5 box; other site 439375002364 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 439375002365 Translation-initiation factor 2; Region: IF-2; pfam11987 439375002366 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 439375002367 hypothetical protein; Provisional; Region: PRK09190 439375002368 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 439375002369 putative RNA binding cleft [nucleotide binding]; other site 439375002370 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 439375002371 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 439375002372 NusA N-terminal domain; Region: NusA_N; pfam08529 439375002373 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 439375002374 RNA binding site [nucleotide binding]; other site 439375002375 homodimer interface [polypeptide binding]; other site 439375002376 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 439375002377 G-X-X-G motif; other site 439375002378 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 439375002379 G-X-X-G motif; other site 439375002380 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 439375002381 ribosome maturation protein RimP; Reviewed; Region: PRK00092 439375002382 Sm and related proteins; Region: Sm_like; cl00259 439375002383 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 439375002384 putative oligomer interface [polypeptide binding]; other site 439375002385 putative RNA binding site [nucleotide binding]; other site 439375002386 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 439375002387 S-adenosylmethionine synthetase; Validated; Region: PRK05250 439375002388 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 439375002389 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 439375002390 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 439375002391 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375002392 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002393 non-specific DNA binding site [nucleotide binding]; other site 439375002394 salt bridge; other site 439375002395 sequence-specific DNA binding site [nucleotide binding]; other site 439375002396 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 439375002397 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 439375002398 putative active site [active] 439375002399 catalytic triad [active] 439375002400 putative dimer interface [polypeptide binding]; other site 439375002401 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 439375002402 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 439375002403 Transporter associated domain; Region: CorC_HlyC; smart01091 439375002404 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 439375002405 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 439375002406 PhoH-like protein; Region: PhoH; pfam02562 439375002407 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 439375002408 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 439375002409 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375002410 FeS/SAM binding site; other site 439375002411 TRAM domain; Region: TRAM; cl01282 439375002412 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439375002413 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 439375002414 putative acyl-acceptor binding pocket; other site 439375002415 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 439375002416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375002417 Coenzyme A binding pocket [chemical binding]; other site 439375002418 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 439375002419 Glycoprotease family; Region: Peptidase_M22; pfam00814 439375002420 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 439375002421 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 439375002422 dimerization interface [polypeptide binding]; other site 439375002423 DPS ferroxidase diiron center [ion binding]; other site 439375002424 ion pore; other site 439375002425 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 439375002426 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 439375002427 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 439375002428 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 439375002429 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 439375002430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375002431 active site 439375002432 phosphorylation site [posttranslational modification] 439375002433 intermolecular recognition site; other site 439375002434 dimerization interface [polypeptide binding]; other site 439375002435 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375002436 DNA binding site [nucleotide binding] 439375002437 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 439375002438 PhoU domain; Region: PhoU; pfam01895 439375002439 PhoU domain; Region: PhoU; pfam01895 439375002440 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 439375002441 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 439375002442 Walker A/P-loop; other site 439375002443 ATP binding site [chemical binding]; other site 439375002444 Q-loop/lid; other site 439375002445 ABC transporter signature motif; other site 439375002446 Walker B; other site 439375002447 D-loop; other site 439375002448 H-loop/switch region; other site 439375002449 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 439375002450 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 439375002451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375002452 dimer interface [polypeptide binding]; other site 439375002453 conserved gate region; other site 439375002454 putative PBP binding loops; other site 439375002455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375002456 ABC-ATPase subunit interface; other site 439375002457 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 439375002458 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 439375002459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375002460 dimer interface [polypeptide binding]; other site 439375002461 conserved gate region; other site 439375002462 putative PBP binding loops; other site 439375002463 ABC-ATPase subunit interface; other site 439375002464 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 439375002465 hypothetical protein; Provisional; Region: PRK07550 439375002466 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375002467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375002468 homodimer interface [polypeptide binding]; other site 439375002469 catalytic residue [active] 439375002470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 439375002471 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 439375002472 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 439375002473 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 439375002474 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 439375002475 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 439375002476 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 439375002477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375002478 Coenzyme A binding pocket [chemical binding]; other site 439375002479 Peptidase_C39 like family; Region: DUF3335; pfam11814 439375002480 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 439375002481 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375002482 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 439375002483 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 439375002484 catalytic core [active] 439375002485 replicative DNA helicase; Provisional; Region: PRK05973 439375002486 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 439375002487 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 439375002488 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 439375002489 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375002490 Walker A motif; other site 439375002491 ATP binding site [chemical binding]; other site 439375002492 Walker B motif; other site 439375002493 arginine finger; other site 439375002494 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 439375002495 glutathione synthetase; Provisional; Region: PRK05246 439375002496 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 439375002497 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 439375002498 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 439375002499 Uncharacterized conserved protein [Function unknown]; Region: COG5470 439375002500 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 439375002501 active site 439375002502 dimer interface [polypeptide binding]; other site 439375002503 Predicted flavoprotein [General function prediction only]; Region: COG0431 439375002504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439375002505 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439375002506 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375002507 S-adenosylmethionine binding site [chemical binding]; other site 439375002508 chaperone protein DnaJ; Provisional; Region: PRK10767 439375002509 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 439375002510 HSP70 interaction site [polypeptide binding]; other site 439375002511 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 439375002512 substrate binding site [polypeptide binding]; other site 439375002513 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 439375002514 Zn binding sites [ion binding]; other site 439375002515 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 439375002516 dimer interface [polypeptide binding]; other site 439375002517 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 439375002518 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 439375002519 nucleotide binding site [chemical binding]; other site 439375002520 NEF interaction site [polypeptide binding]; other site 439375002521 SBD interface [polypeptide binding]; other site 439375002522 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375002523 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375002524 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375002525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 439375002526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375002527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375002528 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 439375002529 putative effector binding pocket; other site 439375002530 putative dimerization interface [polypeptide binding]; other site 439375002531 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375002532 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375002533 active site 439375002534 catalytic tetrad [active] 439375002535 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439375002536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375002537 putative substrate translocation pore; other site 439375002538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375002539 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375002540 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 439375002541 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 439375002542 putative tRNA-binding site [nucleotide binding]; other site 439375002543 B3/4 domain; Region: B3_4; pfam03483 439375002544 tRNA synthetase B5 domain; Region: B5; smart00874 439375002545 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 439375002546 dimer interface [polypeptide binding]; other site 439375002547 motif 1; other site 439375002548 motif 3; other site 439375002549 motif 2; other site 439375002550 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 439375002551 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 439375002552 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 439375002553 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 439375002554 dimer interface [polypeptide binding]; other site 439375002555 motif 1; other site 439375002556 active site 439375002557 motif 2; other site 439375002558 motif 3; other site 439375002559 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 439375002560 23S rRNA binding site [nucleotide binding]; other site 439375002561 L21 binding site [polypeptide binding]; other site 439375002562 L13 binding site [polypeptide binding]; other site 439375002563 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 439375002564 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 439375002565 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 439375002566 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 439375002567 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 439375002568 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375002569 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 439375002570 benzoate transporter; Region: benE; TIGR00843 439375002571 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 439375002572 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 439375002573 Uncharacterized conserved protein [Function unknown]; Region: COG1434 439375002574 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 439375002575 putative active site [active] 439375002576 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 439375002577 active site 439375002578 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 439375002579 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 439375002580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375002581 catalytic residue [active] 439375002582 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 439375002583 substrate binding site [chemical binding]; other site 439375002584 active site 439375002585 catalytic residues [active] 439375002586 heterodimer interface [polypeptide binding]; other site 439375002587 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 439375002588 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439375002589 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 439375002590 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439375002591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375002592 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 439375002593 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375002594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375002595 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 439375002596 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439375002597 catalytic residues [active] 439375002598 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 439375002599 Part of AAA domain; Region: AAA_19; pfam13245 439375002600 Family description; Region: UvrD_C_2; pfam13538 439375002601 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 439375002602 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 439375002603 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 439375002604 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 439375002605 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 439375002606 Substrate binding site; other site 439375002607 metal-binding site 439375002608 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 439375002609 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 439375002610 Phosphotransferase enzyme family; Region: APH; pfam01636 439375002611 PAS fold; Region: PAS_7; pfam12860 439375002612 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439375002613 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375002614 dimer interface [polypeptide binding]; other site 439375002615 phosphorylation site [posttranslational modification] 439375002616 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375002617 ATP binding site [chemical binding]; other site 439375002618 Mg2+ binding site [ion binding]; other site 439375002619 G-X-G motif; other site 439375002620 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 439375002621 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 439375002622 homotetramer interface [polypeptide binding]; other site 439375002623 ligand binding site [chemical binding]; other site 439375002624 catalytic site [active] 439375002625 NAD binding site [chemical binding]; other site 439375002626 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 439375002627 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 439375002628 dimerization domain swap beta strand [polypeptide binding]; other site 439375002629 regulatory protein interface [polypeptide binding]; other site 439375002630 active site 439375002631 regulatory phosphorylation site [posttranslational modification]; other site 439375002632 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 439375002633 active pocket/dimerization site; other site 439375002634 active site 439375002635 phosphorylation site [posttranslational modification] 439375002636 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 439375002637 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 439375002638 Hpr binding site; other site 439375002639 active site 439375002640 homohexamer subunit interaction site [polypeptide binding]; other site 439375002641 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 439375002642 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 439375002643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375002644 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 439375002645 dimerization interface [polypeptide binding]; other site 439375002646 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375002647 dimer interface [polypeptide binding]; other site 439375002648 phosphorylation site [posttranslational modification] 439375002649 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375002650 ATP binding site [chemical binding]; other site 439375002651 Mg2+ binding site [ion binding]; other site 439375002652 G-X-G motif; other site 439375002653 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375002654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375002655 active site 439375002656 phosphorylation site [posttranslational modification] 439375002657 intermolecular recognition site; other site 439375002658 dimerization interface [polypeptide binding]; other site 439375002659 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375002660 DNA binding site [nucleotide binding] 439375002661 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 439375002662 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 439375002663 active site 439375002664 substrate-binding site [chemical binding]; other site 439375002665 metal-binding site [ion binding] 439375002666 ATP binding site [chemical binding]; other site 439375002667 hypothetical protein; Provisional; Region: PRK09256 439375002668 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 439375002669 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439375002670 pantothenate kinase; Provisional; Region: PRK05439 439375002671 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 439375002672 ATP-binding site [chemical binding]; other site 439375002673 CoA-binding site [chemical binding]; other site 439375002674 Mg2+-binding site [ion binding]; other site 439375002675 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 439375002676 metal binding site [ion binding]; metal-binding site 439375002677 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 439375002678 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 439375002679 substrate binding site [chemical binding]; other site 439375002680 glutamase interaction surface [polypeptide binding]; other site 439375002681 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 439375002682 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 439375002683 catalytic residues [active] 439375002684 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 439375002685 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 439375002686 putative active site [active] 439375002687 oxyanion strand; other site 439375002688 catalytic triad [active] 439375002689 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 439375002690 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 439375002691 putative active site pocket [active] 439375002692 4-fold oligomerization interface [polypeptide binding]; other site 439375002693 metal binding residues [ion binding]; metal-binding site 439375002694 3-fold/trimer interface [polypeptide binding]; other site 439375002695 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 439375002696 active site 439375002697 HslU subunit interaction site [polypeptide binding]; other site 439375002698 hypothetical protein; Provisional; Region: PRK00944 439375002699 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 439375002700 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375002701 Walker A motif; other site 439375002702 ATP binding site [chemical binding]; other site 439375002703 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 439375002704 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439375002705 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 439375002706 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375002707 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002708 sequence-specific DNA binding site [nucleotide binding]; other site 439375002709 salt bridge; other site 439375002710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 439375002711 Smr domain; Region: Smr; pfam01713 439375002712 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 439375002713 MltA specific insert domain; Region: MltA; pfam03562 439375002714 3D domain; Region: 3D; pfam06725 439375002715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 439375002716 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 439375002717 preprotein translocase subunit SecB; Validated; Region: PRK05751 439375002718 SecA binding site; other site 439375002719 Preprotein binding site; other site 439375002720 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 439375002721 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 439375002722 active site 439375002723 catalytic site [active] 439375002724 substrate binding site [chemical binding]; other site 439375002725 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 439375002726 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 439375002727 CoA-binding site [chemical binding]; other site 439375002728 ATP-binding [chemical binding]; other site 439375002729 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 439375002730 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 439375002731 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 439375002732 shikimate binding site; other site 439375002733 NAD(P) binding site [chemical binding]; other site 439375002734 Maf-like protein; Reviewed; Region: PRK00078 439375002735 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 439375002736 active site 439375002737 dimer interface [polypeptide binding]; other site 439375002738 PEP synthetase regulatory protein; Provisional; Region: PRK05339 439375002739 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 439375002740 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 439375002741 substrate binding site [chemical binding]; other site 439375002742 active site 439375002743 Predicted membrane protein [Function unknown]; Region: COG1981 439375002744 transcription termination factor Rho; Provisional; Region: rho; PRK09376 439375002745 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 439375002746 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 439375002747 RNA binding site [nucleotide binding]; other site 439375002748 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 439375002749 multimer interface [polypeptide binding]; other site 439375002750 Walker A motif; other site 439375002751 ATP binding site [chemical binding]; other site 439375002752 Walker B motif; other site 439375002753 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 439375002754 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 439375002755 catalytic residues [active] 439375002756 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 439375002757 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 439375002758 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 439375002759 trmE is a tRNA modification GTPase; Region: trmE; cd04164 439375002760 G1 box; other site 439375002761 G1 box; other site 439375002762 GTP/Mg2+ binding site [chemical binding]; other site 439375002763 GTP/Mg2+ binding site [chemical binding]; other site 439375002764 Switch I region; other site 439375002765 Switch I region; other site 439375002766 G2 box; other site 439375002767 G2 box; other site 439375002768 Switch II region; other site 439375002769 G3 box; other site 439375002770 G4 box; other site 439375002771 G5 box; other site 439375002772 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 439375002773 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 439375002774 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 439375002775 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 439375002776 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 439375002777 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 439375002778 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 439375002779 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375002780 P-loop; other site 439375002781 Magnesium ion binding site [ion binding]; other site 439375002782 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375002783 Magnesium ion binding site [ion binding]; other site 439375002784 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 439375002785 ParB-like nuclease domain; Region: ParB; smart00470 439375002786 KorB domain; Region: KorB; pfam08535 439375002787 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 439375002788 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 439375002789 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 439375002790 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375002791 Walker A/P-loop; other site 439375002792 ATP binding site [chemical binding]; other site 439375002793 Q-loop/lid; other site 439375002794 ABC transporter signature motif; other site 439375002795 Walker B; other site 439375002796 D-loop; other site 439375002797 H-loop/switch region; other site 439375002798 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375002799 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 439375002800 TM-ABC transporter signature motif; other site 439375002801 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 439375002802 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375002803 zinc binding site [ion binding]; other site 439375002804 putative ligand binding site [chemical binding]; other site 439375002805 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 439375002806 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 439375002807 Protein of unknown function (DUF993); Region: DUF993; pfam06187 439375002808 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375002809 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375002810 DNA binding site [nucleotide binding] 439375002811 domain linker motif; other site 439375002812 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 439375002813 putative dimerization interface [polypeptide binding]; other site 439375002814 putative ligand binding site [chemical binding]; other site 439375002815 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375002816 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375002817 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375002818 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 439375002819 Coenzyme A transferase; Region: CoA_trans; smart00882 439375002820 Coenzyme A transferase; Region: CoA_trans; cl17247 439375002821 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439375002822 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375002823 substrate binding site [chemical binding]; other site 439375002824 oxyanion hole (OAH) forming residues; other site 439375002825 trimer interface [polypeptide binding]; other site 439375002826 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375002827 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 439375002828 NAD(P) binding site [chemical binding]; other site 439375002829 catalytic residues [active] 439375002830 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439375002831 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439375002832 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 439375002833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375002834 NAD(P) binding site [chemical binding]; other site 439375002835 active site 439375002836 choline dehydrogenase; Validated; Region: PRK02106 439375002837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375002838 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439375002839 Uncharacterized conserved protein [Function unknown]; Region: COG3791 439375002840 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439375002841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375002842 NAD(P) binding site [chemical binding]; other site 439375002843 active site 439375002844 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439375002845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375002846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375002847 Walker A/P-loop; other site 439375002848 ATP binding site [chemical binding]; other site 439375002849 Q-loop/lid; other site 439375002850 ABC transporter signature motif; other site 439375002851 Walker B; other site 439375002852 D-loop; other site 439375002853 H-loop/switch region; other site 439375002854 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375002855 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 439375002856 Int/Topo IB signature motif; other site 439375002857 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 439375002858 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 439375002859 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 439375002860 Protein of unknown function, DUF488; Region: DUF488; pfam04343 439375002861 Helix-turn-helix domain; Region: HTH_17; cl17695 439375002862 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002863 non-specific DNA binding site [nucleotide binding]; other site 439375002864 salt bridge; other site 439375002865 sequence-specific DNA binding site [nucleotide binding]; other site 439375002866 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375002867 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375002868 non-specific DNA binding site [nucleotide binding]; other site 439375002869 salt bridge; other site 439375002870 sequence-specific DNA binding site [nucleotide binding]; other site 439375002871 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 439375002872 DNA protecting protein DprA; Region: dprA; TIGR00732 439375002873 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375002874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375002875 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375002876 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375002877 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375002878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375002879 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375002880 Transposase; Region: HTH_Tnp_1; pfam01527 439375002881 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375002882 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 439375002883 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 439375002884 metal binding site [ion binding]; metal-binding site 439375002885 putative dimer interface [polypeptide binding]; other site 439375002886 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 439375002887 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 439375002888 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 439375002889 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 439375002890 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 439375002891 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 439375002892 CPxP motif; other site 439375002893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 439375002894 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 439375002895 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 439375002896 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 439375002897 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375002898 active site 439375002899 DNA binding site [nucleotide binding] 439375002900 Int/Topo IB signature motif; other site 439375002901 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 439375002902 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 439375002903 ADP binding site [chemical binding]; other site 439375002904 magnesium binding site [ion binding]; other site 439375002905 putative shikimate binding site; other site 439375002906 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 439375002907 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 439375002908 active site 439375002909 dimer interface [polypeptide binding]; other site 439375002910 metal binding site [ion binding]; metal-binding site 439375002911 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 439375002912 Domain of unknown function DUF21; Region: DUF21; pfam01595 439375002913 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 439375002914 Transporter associated domain; Region: CorC_HlyC; smart01091 439375002915 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 439375002916 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 439375002917 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 439375002918 HSP70 interaction site [polypeptide binding]; other site 439375002919 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 439375002920 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 439375002921 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 439375002922 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 439375002923 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 439375002924 metal ion-dependent adhesion site (MIDAS); other site 439375002925 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 439375002926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375002927 NAD(P) binding site [chemical binding]; other site 439375002928 active site 439375002929 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 439375002930 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 439375002931 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 439375002932 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 439375002933 DNA binding residues [nucleotide binding] 439375002934 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 439375002935 dimer interface [polypeptide binding]; other site 439375002936 putative metal binding site [ion binding]; other site 439375002937 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375002938 metal-binding site [ion binding] 439375002939 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 439375002940 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375002941 metal-binding site [ion binding] 439375002942 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375002943 Soluble P-type ATPase [General function prediction only]; Region: COG4087 439375002944 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 439375002945 intracellular septation protein A; Reviewed; Region: PRK00259 439375002946 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 439375002947 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 439375002948 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 439375002949 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 439375002950 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 439375002951 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375002952 FeS/SAM binding site; other site 439375002953 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 439375002954 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 439375002955 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 439375002956 Protease inhibitor Inh; Region: Inh; pfam02974 439375002957 Predicted ATPase [General function prediction only]; Region: COG1485 439375002958 malate dehydrogenase; Reviewed; Region: PRK06223 439375002959 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 439375002960 NAD(P) binding site [chemical binding]; other site 439375002961 dimer interface [polypeptide binding]; other site 439375002962 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439375002963 substrate binding site [chemical binding]; other site 439375002964 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 439375002965 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 439375002966 CoA-ligase; Region: Ligase_CoA; pfam00549 439375002967 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 439375002968 CoA binding domain; Region: CoA_binding; smart00881 439375002969 CoA-ligase; Region: Ligase_CoA; pfam00549 439375002970 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 439375002971 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 439375002972 TPP-binding site [chemical binding]; other site 439375002973 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 439375002974 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 439375002975 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375002976 E3 interaction surface; other site 439375002977 lipoyl attachment site [posttranslational modification]; other site 439375002978 e3 binding domain; Region: E3_binding; pfam02817 439375002979 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 439375002980 Predicted membrane protein [Function unknown]; Region: COG3686 439375002981 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375002982 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 439375002983 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375002984 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375002985 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439375002986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 439375002987 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 439375002988 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375002989 active site 439375002990 DNA binding site [nucleotide binding] 439375002991 Int/Topo IB signature motif; other site 439375002992 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 439375002993 RimM N-terminal domain; Region: RimM; pfam01782 439375002994 PRC-barrel domain; Region: PRC; pfam05239 439375002995 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 439375002996 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 439375002997 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 439375002998 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 439375002999 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 439375003000 substrate binding site [chemical binding]; other site 439375003001 ligand binding site [chemical binding]; other site 439375003002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375003003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375003004 metal binding site [ion binding]; metal-binding site 439375003005 active site 439375003006 I-site; other site 439375003007 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 439375003008 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003009 Coenzyme A binding pocket [chemical binding]; other site 439375003010 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 439375003011 Iron-sulfur protein interface; other site 439375003012 proximal quinone binding site [chemical binding]; other site 439375003013 SdhD (CybS) interface [polypeptide binding]; other site 439375003014 proximal heme binding site [chemical binding]; other site 439375003015 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 439375003016 putative SdhC subunit interface [polypeptide binding]; other site 439375003017 putative proximal heme binding site [chemical binding]; other site 439375003018 putative Iron-sulfur protein interface [polypeptide binding]; other site 439375003019 putative proximal quinone binding site; other site 439375003020 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 439375003021 L-aspartate oxidase; Provisional; Region: PRK06175 439375003022 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 439375003023 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 439375003024 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 439375003025 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 439375003026 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375003027 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 439375003028 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 439375003029 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 439375003030 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 439375003031 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 439375003032 active site 439375003033 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 439375003034 catalytic triad [active] 439375003035 dimer interface [polypeptide binding]; other site 439375003036 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 439375003037 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 439375003038 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 439375003039 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 439375003040 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 439375003041 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 439375003042 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 439375003043 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 439375003044 putative catalytic site [active] 439375003045 putative phosphate binding site [ion binding]; other site 439375003046 active site 439375003047 metal binding site A [ion binding]; metal-binding site 439375003048 DNA binding site [nucleotide binding] 439375003049 putative AP binding site [nucleotide binding]; other site 439375003050 putative metal binding site B [ion binding]; other site 439375003051 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439375003052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375003053 Walker A/P-loop; other site 439375003054 ATP binding site [chemical binding]; other site 439375003055 Q-loop/lid; other site 439375003056 ABC transporter signature motif; other site 439375003057 Walker B; other site 439375003058 D-loop; other site 439375003059 H-loop/switch region; other site 439375003060 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375003061 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375003062 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375003063 ligand binding site [chemical binding]; other site 439375003064 flexible hinge region; other site 439375003065 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375003066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375003067 active site 439375003068 phosphorylation site [posttranslational modification] 439375003069 intermolecular recognition site; other site 439375003070 dimerization interface [polypeptide binding]; other site 439375003071 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375003072 DNA binding site [nucleotide binding] 439375003073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 439375003074 xanthine permease; Region: pbuX; TIGR03173 439375003075 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 439375003076 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375003077 DNA-binding site [nucleotide binding]; DNA binding site 439375003078 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375003079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375003080 homodimer interface [polypeptide binding]; other site 439375003081 catalytic residue [active] 439375003082 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375003083 EamA-like transporter family; Region: EamA; pfam00892 439375003084 Predicted methyltransferase [General function prediction only]; Region: COG3897 439375003085 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375003086 S-adenosylmethionine binding site [chemical binding]; other site 439375003087 Uncharacterized conserved protein [Function unknown]; Region: COG2947 439375003088 YCII-related domain; Region: YCII; cl00999 439375003089 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 439375003090 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 439375003091 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 439375003092 UGMP family protein; Validated; Region: PRK09604 439375003093 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 439375003094 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 439375003095 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 439375003096 domain interfaces; other site 439375003097 active site 439375003098 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 439375003099 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 439375003100 active site 439375003101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 439375003102 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 439375003103 HemY protein N-terminus; Region: HemY_N; pfam07219 439375003104 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 439375003105 putative metal binding site [ion binding]; other site 439375003106 enterobactin exporter EntS; Provisional; Region: PRK10489 439375003107 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003108 putative substrate translocation pore; other site 439375003109 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 439375003110 amphipathic channel; other site 439375003111 Asn-Pro-Ala signature motifs; other site 439375003112 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 439375003113 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439375003114 Walker A/P-loop; other site 439375003115 ATP binding site [chemical binding]; other site 439375003116 Q-loop/lid; other site 439375003117 ABC transporter signature motif; other site 439375003118 Walker B; other site 439375003119 D-loop; other site 439375003120 H-loop/switch region; other site 439375003121 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 439375003122 Uncharacterized conserved protein [Function unknown]; Region: COG1434 439375003123 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 439375003124 putative active site [active] 439375003125 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439375003126 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 439375003127 putative acyl-acceptor binding pocket; other site 439375003128 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 439375003129 dimer interface [polypeptide binding]; other site 439375003130 substrate binding site [chemical binding]; other site 439375003131 metal binding sites [ion binding]; metal-binding site 439375003132 YGGT family; Region: YGGT; pfam02325 439375003133 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 439375003134 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 439375003135 putative active site pocket [active] 439375003136 dimerization interface [polypeptide binding]; other site 439375003137 putative catalytic residue [active] 439375003138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 439375003139 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 439375003140 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 439375003141 prephenate dehydrogenase; Validated; Region: PRK08507 439375003142 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 439375003143 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375003144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375003145 homodimer interface [polypeptide binding]; other site 439375003146 catalytic residue [active] 439375003147 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439375003148 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375003149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375003150 active site 439375003151 TIGR02302 family protein; Region: aProt_lowcomp 439375003152 diaminopimelate decarboxylase; Region: lysA; TIGR01048 439375003153 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 439375003154 active site 439375003155 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375003156 substrate binding site [chemical binding]; other site 439375003157 catalytic residues [active] 439375003158 dimer interface [polypeptide binding]; other site 439375003159 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 439375003160 argininosuccinate lyase; Provisional; Region: PRK00855 439375003161 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 439375003162 active sites [active] 439375003163 tetramer interface [polypeptide binding]; other site 439375003164 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 439375003165 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439375003166 catalytic residues [active] 439375003167 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375003168 hypothetical protein; Validated; Region: PRK00124 439375003169 EamA-like transporter family; Region: EamA; pfam00892 439375003170 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439375003171 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 439375003172 short chain dehydrogenase; Provisional; Region: PRK05993 439375003173 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 439375003174 NADP binding site [chemical binding]; other site 439375003175 active site 439375003176 steroid binding site; other site 439375003177 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 439375003178 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 439375003179 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 439375003180 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 439375003181 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 439375003182 active site 439375003183 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 439375003184 Ligand Binding Site [chemical binding]; other site 439375003185 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 439375003186 Ligand binding site [chemical binding]; other site 439375003187 Electron transfer flavoprotein domain; Region: ETF; pfam01012 439375003188 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 439375003189 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 439375003190 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 439375003191 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 439375003192 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375003193 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439375003194 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 439375003195 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 439375003196 dimer interface [polypeptide binding]; other site 439375003197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375003198 catalytic residue [active] 439375003199 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 439375003200 Ligand Binding Site [chemical binding]; other site 439375003201 methionine gamma-lyase; Validated; Region: PRK07049 439375003202 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 439375003203 homodimer interface [polypeptide binding]; other site 439375003204 substrate-cofactor binding pocket; other site 439375003205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375003206 catalytic residue [active] 439375003207 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 439375003208 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 439375003209 Sulfatase; Region: Sulfatase; pfam00884 439375003210 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 439375003211 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 439375003212 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 439375003213 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 439375003214 DEAD/DEAH box helicase; Region: DEAD; pfam00270 439375003215 ATP binding site [chemical binding]; other site 439375003216 putative Mg++ binding site [ion binding]; other site 439375003217 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 439375003218 SEC-C motif; Region: SEC-C; pfam02810 439375003219 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 439375003220 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 439375003221 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 439375003222 heterotetramer interface [polypeptide binding]; other site 439375003223 active site pocket [active] 439375003224 cleavage site 439375003225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003226 Coenzyme A binding pocket [chemical binding]; other site 439375003227 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 439375003228 active site 439375003229 8-oxo-dGMP binding site [chemical binding]; other site 439375003230 nudix motif; other site 439375003231 metal binding site [ion binding]; metal-binding site 439375003232 Methyltransferase domain; Region: Methyltransf_11; pfam08241 439375003233 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 439375003234 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 439375003235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375003236 active site 439375003237 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 439375003238 GSH binding site [chemical binding]; other site 439375003239 catalytic residues [active] 439375003240 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439375003241 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 439375003242 putative active site [active] 439375003243 catalytic triad [active] 439375003244 dimer interface [polypeptide binding]; other site 439375003245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 439375003246 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439375003247 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 439375003248 Methyltransferase domain; Region: Methyltransf_11; pfam08241 439375003249 aspartate kinase; Reviewed; Region: PRK06635 439375003250 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 439375003251 putative nucleotide binding site [chemical binding]; other site 439375003252 putative catalytic residues [active] 439375003253 putative Mg ion binding site [ion binding]; other site 439375003254 putative aspartate binding site [chemical binding]; other site 439375003255 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 439375003256 putative allosteric regulatory site; other site 439375003257 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 439375003258 putative allosteric regulatory residue; other site 439375003259 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 439375003260 GAF domain; Region: GAF; pfam01590 439375003261 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 439375003262 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439375003263 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 439375003264 peptide chain release factor 1; Validated; Region: prfA; PRK00591 439375003265 This domain is found in peptide chain release factors; Region: PCRF; smart00937 439375003266 RF-1 domain; Region: RF-1; pfam00472 439375003267 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 439375003268 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375003269 S-adenosylmethionine binding site [chemical binding]; other site 439375003270 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 439375003271 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 439375003272 Clp amino terminal domain; Region: Clp_N; pfam02861 439375003273 Clp amino terminal domain; Region: Clp_N; pfam02861 439375003274 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375003275 Walker A motif; other site 439375003276 ATP binding site [chemical binding]; other site 439375003277 Walker B motif; other site 439375003278 arginine finger; other site 439375003279 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375003280 Walker A motif; other site 439375003281 ATP binding site [chemical binding]; other site 439375003282 Walker B motif; other site 439375003283 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 439375003284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375003285 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375003286 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 439375003287 Peptidase family M23; Region: Peptidase_M23; pfam01551 439375003288 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439375003289 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003290 Coenzyme A binding pocket [chemical binding]; other site 439375003291 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 439375003292 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 439375003293 PAS fold; Region: PAS_4; pfam08448 439375003294 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375003295 putative active site [active] 439375003296 heme pocket [chemical binding]; other site 439375003297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375003298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375003299 metal binding site [ion binding]; metal-binding site 439375003300 active site 439375003301 I-site; other site 439375003302 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 439375003303 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 439375003304 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 439375003305 active site 439375003306 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 439375003307 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 439375003308 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 439375003309 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 439375003310 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 439375003311 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439375003312 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 439375003313 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 439375003314 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439375003316 Coenzyme A binding pocket [chemical binding]; other site 439375003317 GTPase CgtA; Reviewed; Region: obgE; PRK12299 439375003318 GTP1/OBG; Region: GTP1_OBG; pfam01018 439375003319 Obg GTPase; Region: Obg; cd01898 439375003320 G1 box; other site 439375003321 GTP/Mg2+ binding site [chemical binding]; other site 439375003322 Switch I region; other site 439375003323 G2 box; other site 439375003324 G3 box; other site 439375003325 Switch II region; other site 439375003326 G4 box; other site 439375003327 G5 box; other site 439375003328 gamma-glutamyl kinase; Provisional; Region: PRK05429 439375003329 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 439375003330 nucleotide binding site [chemical binding]; other site 439375003331 homotetrameric interface [polypeptide binding]; other site 439375003332 putative phosphate binding site [ion binding]; other site 439375003333 putative allosteric binding site; other site 439375003334 PUA domain; Region: PUA; pfam01472 439375003335 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 439375003336 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 439375003337 putative catalytic cysteine [active] 439375003338 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 439375003339 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 439375003340 active site 439375003341 (T/H)XGH motif; other site 439375003342 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 439375003343 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 439375003344 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 439375003345 Peptidase family M23; Region: Peptidase_M23; pfam01551 439375003346 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 439375003347 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 439375003348 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 439375003349 protein binding site [polypeptide binding]; other site 439375003350 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 439375003351 Catalytic dyad [active] 439375003352 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 439375003353 NodB motif; other site 439375003354 putative active site [active] 439375003355 putative catalytic site [active] 439375003356 Zn binding site [ion binding]; other site 439375003357 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 439375003358 putative active site [active] 439375003359 Ap4A binding site [chemical binding]; other site 439375003360 nudix motif; other site 439375003361 putative metal binding site [ion binding]; other site 439375003362 Predicted membrane protein [Function unknown]; Region: COG3619 439375003363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375003364 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375003365 dimerization interface [polypeptide binding]; other site 439375003366 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 439375003367 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 439375003368 tetrameric interface [polypeptide binding]; other site 439375003369 NAD binding site [chemical binding]; other site 439375003370 catalytic residues [active] 439375003371 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 439375003372 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 439375003373 Prostaglandin dehydrogenases; Region: PGDH; cd05288 439375003374 NAD(P) binding site [chemical binding]; other site 439375003375 substrate binding site [chemical binding]; other site 439375003376 dimer interface [polypeptide binding]; other site 439375003377 pyridoxamine kinase; Validated; Region: PRK05756 439375003378 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 439375003379 dimer interface [polypeptide binding]; other site 439375003380 pyridoxal binding site [chemical binding]; other site 439375003381 ATP binding site [chemical binding]; other site 439375003382 Protein of unknown function (DUF429); Region: DUF429; cl12046 439375003383 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 439375003384 active site clefts [active] 439375003385 zinc binding site [ion binding]; other site 439375003386 dimer interface [polypeptide binding]; other site 439375003387 lytic murein transglycosylase; Region: MltB_2; TIGR02283 439375003388 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375003389 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375003390 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 439375003391 L-lactate permease; Region: Lactate_perm; cl00701 439375003392 signal recognition particle protein; Provisional; Region: PRK10867 439375003393 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 439375003394 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 439375003395 P loop; other site 439375003396 GTP binding site [chemical binding]; other site 439375003397 Signal peptide binding domain; Region: SRP_SPB; pfam02978 439375003398 chorismate mutase; Provisional; Region: PRK09239 439375003399 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 439375003400 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375003401 MarR family; Region: MarR_2; pfam12802 439375003402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439375003403 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003404 Coenzyme A binding pocket [chemical binding]; other site 439375003405 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 439375003406 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 439375003407 Repair protein; Region: Repair_PSII; pfam04536 439375003408 Predicted membrane protein [Function unknown]; Region: COG3762 439375003409 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 439375003410 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 439375003411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003412 glycerol kinase; Provisional; Region: glpK; PRK00047 439375003413 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 439375003414 N- and C-terminal domain interface [polypeptide binding]; other site 439375003415 active site 439375003416 MgATP binding site [chemical binding]; other site 439375003417 catalytic site [active] 439375003418 metal binding site [ion binding]; metal-binding site 439375003419 putative homotetramer interface [polypeptide binding]; other site 439375003420 glycerol binding site [chemical binding]; other site 439375003421 homodimer interface [polypeptide binding]; other site 439375003422 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 439375003423 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 439375003424 purine monophosphate binding site [chemical binding]; other site 439375003425 dimer interface [polypeptide binding]; other site 439375003426 putative catalytic residues [active] 439375003427 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 439375003428 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 439375003429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 439375003430 NusB family; Region: NusB; pfam01029 439375003431 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 439375003432 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375003433 S-adenosylmethionine binding site [chemical binding]; other site 439375003434 heat shock protein HtpX; Provisional; Region: PRK01345 439375003435 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 439375003436 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 439375003437 acetyl-CoA synthetase; Provisional; Region: PRK00174 439375003438 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 439375003439 active site 439375003440 CoA binding site [chemical binding]; other site 439375003441 acyl-activating enzyme (AAE) consensus motif; other site 439375003442 AMP binding site [chemical binding]; other site 439375003443 acetate binding site [chemical binding]; other site 439375003444 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 439375003445 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 439375003446 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375003447 catalytic residue [active] 439375003448 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 439375003449 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 439375003450 HIGH motif; other site 439375003451 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 439375003452 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375003453 active site 439375003454 KMSKS motif; other site 439375003455 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 439375003456 tRNA binding surface [nucleotide binding]; other site 439375003457 Lipopolysaccharide-assembly; Region: LptE; cl01125 439375003458 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439375003459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375003460 Predicted ATPase [General function prediction only]; Region: COG4637 439375003461 Walker A/P-loop; other site 439375003462 ATP binding site [chemical binding]; other site 439375003463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 439375003464 ABC transporter signature motif; other site 439375003465 Walker B; other site 439375003466 D-loop; other site 439375003467 H-loop/switch region; other site 439375003468 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 439375003469 active site 439375003470 intersubunit interactions; other site 439375003471 catalytic residue [active] 439375003472 primosome assembly protein PriA; Validated; Region: PRK05580 439375003473 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 439375003474 ATP binding site [chemical binding]; other site 439375003475 putative Mg++ binding site [ion binding]; other site 439375003476 helicase superfamily c-terminal domain; Region: HELICc; smart00490 439375003477 nucleotide binding region [chemical binding]; other site 439375003478 ATP-binding site [chemical binding]; other site 439375003479 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 439375003480 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 439375003481 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 439375003482 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 439375003483 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 439375003484 beta subunit interaction interface [polypeptide binding]; other site 439375003485 Walker A motif; other site 439375003486 ATP binding site [chemical binding]; other site 439375003487 Walker B motif; other site 439375003488 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 439375003489 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 439375003490 core domain interface [polypeptide binding]; other site 439375003491 delta subunit interface [polypeptide binding]; other site 439375003492 epsilon subunit interface [polypeptide binding]; other site 439375003493 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 439375003494 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 439375003495 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 439375003496 alpha subunit interaction interface [polypeptide binding]; other site 439375003497 Walker A motif; other site 439375003498 ATP binding site [chemical binding]; other site 439375003499 Walker B motif; other site 439375003500 inhibitor binding site; inhibition site 439375003501 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 439375003502 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 439375003503 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 439375003504 gamma subunit interface [polypeptide binding]; other site 439375003505 epsilon subunit interface [polypeptide binding]; other site 439375003506 LBP interface [polypeptide binding]; other site 439375003507 MarR family; Region: MarR; pfam01047 439375003508 transcriptional regulator SlyA; Provisional; Region: PRK03573 439375003509 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 439375003510 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 439375003511 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375003512 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375003513 DNA-binding site [nucleotide binding]; DNA binding site 439375003514 FCD domain; Region: FCD; pfam07729 439375003515 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375003516 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 439375003517 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 439375003518 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375003519 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375003520 TM-ABC transporter signature motif; other site 439375003521 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439375003522 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375003523 TM-ABC transporter signature motif; other site 439375003524 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375003525 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375003526 Walker A/P-loop; other site 439375003527 ATP binding site [chemical binding]; other site 439375003528 Q-loop/lid; other site 439375003529 ABC transporter signature motif; other site 439375003530 Walker B; other site 439375003531 D-loop; other site 439375003532 H-loop/switch region; other site 439375003533 Uncharacterized conserved protein [Function unknown]; Region: COG3743 439375003534 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375003535 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375003536 Walker A/P-loop; other site 439375003537 ATP binding site [chemical binding]; other site 439375003538 Q-loop/lid; other site 439375003539 ABC transporter signature motif; other site 439375003540 Walker B; other site 439375003541 D-loop; other site 439375003542 H-loop/switch region; other site 439375003543 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439375003544 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 439375003545 dimerization interface [polypeptide binding]; other site 439375003546 ligand binding site [chemical binding]; other site 439375003547 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439375003548 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 439375003549 dimerization interface [polypeptide binding]; other site 439375003550 ligand binding site [chemical binding]; other site 439375003551 pyruvate carboxylase; Reviewed; Region: PRK12999 439375003552 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375003553 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439375003554 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439375003555 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 439375003556 active site 439375003557 catalytic residues [active] 439375003558 metal binding site [ion binding]; metal-binding site 439375003559 homodimer binding site [polypeptide binding]; other site 439375003560 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 439375003561 carboxyltransferase (CT) interaction site; other site 439375003562 biotinylation site [posttranslational modification]; other site 439375003563 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 439375003564 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 439375003565 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 439375003566 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003567 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375003568 putative substrate translocation pore; other site 439375003569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375003570 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 439375003571 NAD(P) binding site [chemical binding]; other site 439375003572 active site 439375003573 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 439375003574 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 439375003575 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 439375003576 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439375003577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003578 putative substrate translocation pore; other site 439375003579 Predicted transcriptional regulators [Transcription]; Region: COG1733 439375003580 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 439375003581 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 439375003582 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 439375003583 substrate binding pocket [chemical binding]; other site 439375003584 chain length determination region; other site 439375003585 substrate-Mg2+ binding site; other site 439375003586 catalytic residues [active] 439375003587 aspartate-rich region 1; other site 439375003588 active site lid residues [active] 439375003589 aspartate-rich region 2; other site 439375003590 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 439375003591 Transglycosylase; Region: Transgly; pfam00912 439375003592 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 439375003593 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 439375003594 putative acyltransferase; Provisional; Region: PRK05790 439375003595 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 439375003596 dimer interface [polypeptide binding]; other site 439375003597 active site 439375003598 DEAD/DEAH box helicase; Region: DEAD; pfam00270 439375003599 ATP binding site [chemical binding]; other site 439375003600 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 439375003601 putative Mg++ binding site [ion binding]; other site 439375003602 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375003603 nucleotide binding region [chemical binding]; other site 439375003604 ATP-binding site [chemical binding]; other site 439375003605 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 439375003606 RNA binding surface [nucleotide binding]; other site 439375003607 Ferredoxin [Energy production and conversion]; Region: COG1146 439375003608 4Fe-4S binding domain; Region: Fer4; pfam00037 439375003609 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 439375003610 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 439375003611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375003612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375003613 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375003614 dimerization interface [polypeptide binding]; other site 439375003615 short chain dehydrogenase; Provisional; Region: PRK06500 439375003616 classical (c) SDRs; Region: SDR_c; cd05233 439375003617 NAD(P) binding site [chemical binding]; other site 439375003618 active site 439375003619 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 439375003620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375003621 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375003622 DNA binding residues [nucleotide binding] 439375003623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 439375003624 MOSC domain; Region: MOSC; pfam03473 439375003625 3-alpha domain; Region: 3-alpha; pfam03475 439375003626 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 439375003627 Peptidase family M48; Region: Peptidase_M48; pfam01435 439375003628 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439375003629 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 439375003630 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 439375003631 Walker A/P-loop; other site 439375003632 ATP binding site [chemical binding]; other site 439375003633 Q-loop/lid; other site 439375003634 ABC transporter signature motif; other site 439375003635 Walker B; other site 439375003636 D-loop; other site 439375003637 H-loop/switch region; other site 439375003638 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 439375003639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375003640 dimer interface [polypeptide binding]; other site 439375003641 conserved gate region; other site 439375003642 putative PBP binding loops; other site 439375003643 ABC-ATPase subunit interface; other site 439375003644 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375003645 dimer interface [polypeptide binding]; other site 439375003646 conserved gate region; other site 439375003647 putative PBP binding loops; other site 439375003648 ABC-ATPase subunit interface; other site 439375003649 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 439375003650 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 439375003651 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 439375003652 Thiamine pyrophosphokinase; Region: TPK; cd07995 439375003653 active site 439375003654 dimerization interface [polypeptide binding]; other site 439375003655 thiamine binding site [chemical binding]; other site 439375003656 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439375003657 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375003658 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375003659 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375003660 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375003661 active site 439375003662 catalytic tetrad [active] 439375003663 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 439375003664 active site 439375003665 catalytic residues [active] 439375003666 DNA binding site [nucleotide binding] 439375003667 Int/Topo IB signature motif; other site 439375003668 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 439375003669 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 439375003670 putative active site [active] 439375003671 putative NTP binding site [chemical binding]; other site 439375003672 putative nucleic acid binding site [nucleotide binding]; other site 439375003673 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 439375003674 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439375003675 active site 439375003676 metal binding site [ion binding]; metal-binding site 439375003677 hypothetical protein; Provisional; Region: PRK13694 439375003678 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 439375003679 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 439375003680 Predicted integral membrane protein [Function unknown]; Region: COG5480 439375003681 pyruvate kinase; Provisional; Region: PRK06247 439375003682 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 439375003683 domain interfaces; other site 439375003684 active site 439375003685 TPR repeat; Region: TPR_11; pfam13414 439375003686 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375003687 TPR motif; other site 439375003688 binding surface 439375003689 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 439375003690 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439375003691 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 439375003692 ATP-grasp domain; Region: ATP-grasp; pfam02222 439375003693 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 439375003694 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 439375003695 Uncharacterized small protein [Function unknown]; Region: COG5570 439375003696 putative MFS family transporter protein; Provisional; Region: PRK03633 439375003697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003698 putative substrate translocation pore; other site 439375003699 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 439375003700 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 439375003701 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 439375003702 NAD(P) binding site [chemical binding]; other site 439375003703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 439375003704 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 439375003705 Predicted transcriptional regulator [Transcription]; Region: COG2378 439375003706 HTH domain; Region: HTH_11; pfam08279 439375003707 WYL domain; Region: WYL; pfam13280 439375003708 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 439375003709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375003710 NAD(P) binding site [chemical binding]; other site 439375003711 active site 439375003712 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 439375003713 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 439375003714 acyl-activating enzyme (AAE) consensus motif; other site 439375003715 putative AMP binding site [chemical binding]; other site 439375003716 putative active site [active] 439375003717 putative CoA binding site [chemical binding]; other site 439375003718 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 439375003719 active site 439375003720 intersubunit interface [polypeptide binding]; other site 439375003721 catalytic residue [active] 439375003722 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 439375003723 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 439375003724 Phosphoglycerate kinase; Region: PGK; pfam00162 439375003725 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 439375003726 substrate binding site [chemical binding]; other site 439375003727 hinge regions; other site 439375003728 ADP binding site [chemical binding]; other site 439375003729 catalytic site [active] 439375003730 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 439375003731 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 439375003732 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 439375003733 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 439375003734 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 439375003735 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 439375003736 TPP-binding site [chemical binding]; other site 439375003737 dimer interface [polypeptide binding]; other site 439375003738 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 439375003739 PYR/PP interface [polypeptide binding]; other site 439375003740 dimer interface [polypeptide binding]; other site 439375003741 TPP binding site [chemical binding]; other site 439375003742 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375003743 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 439375003744 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 439375003745 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 439375003746 hydrophobic ligand binding site; other site 439375003747 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 439375003748 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 439375003749 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 439375003750 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375003751 putative active site [active] 439375003752 metal binding site [ion binding]; metal-binding site 439375003753 homodimer binding site [polypeptide binding]; other site 439375003754 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 439375003755 Uncharacterized conserved protein [Function unknown]; Region: COG3543 439375003756 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 439375003757 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375003758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375003759 DNA-binding site [nucleotide binding]; DNA binding site 439375003760 FCD domain; Region: FCD; pfam07729 439375003761 hypothetical protein; Validated; Region: PRK00110 439375003762 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 439375003763 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 439375003764 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375003765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375003766 Walker A/P-loop; other site 439375003767 ATP binding site [chemical binding]; other site 439375003768 Q-loop/lid; other site 439375003769 ABC transporter signature motif; other site 439375003770 Walker B; other site 439375003771 D-loop; other site 439375003772 H-loop/switch region; other site 439375003773 hypothetical protein; Validated; Region: PRK09039 439375003774 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439375003775 ligand binding site [chemical binding]; other site 439375003776 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439375003777 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 439375003778 active site 439375003779 dimerization interface [polypeptide binding]; other site 439375003780 elongation factor P; Validated; Region: PRK00529 439375003781 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 439375003782 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 439375003783 RNA binding site [nucleotide binding]; other site 439375003784 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 439375003785 RNA binding site [nucleotide binding]; other site 439375003786 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439375003787 Sel1-like repeats; Region: SEL1; smart00671 439375003788 Sel1-like repeats; Region: SEL1; smart00671 439375003789 Sel1-like repeats; Region: SEL1; smart00671 439375003790 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 439375003791 active site 439375003792 thiamine phosphate binding site [chemical binding]; other site 439375003793 pyrophosphate binding site [ion binding]; other site 439375003794 OpgC protein; Region: OpgC_C; cl17858 439375003795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 439375003796 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 439375003797 active site 439375003798 putative DNA-binding cleft [nucleotide binding]; other site 439375003799 dimer interface [polypeptide binding]; other site 439375003800 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 439375003801 RuvA N terminal domain; Region: RuvA_N; pfam01330 439375003802 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 439375003803 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375003804 Walker A motif; other site 439375003805 ATP binding site [chemical binding]; other site 439375003806 Walker B motif; other site 439375003807 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 439375003808 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 439375003809 active site 439375003810 TolQ protein; Region: tolQ; TIGR02796 439375003811 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 439375003812 TolR protein; Region: tolR; TIGR02801 439375003813 translocation protein TolB; Provisional; Region: tolB; PRK05137 439375003814 TolB amino-terminal domain; Region: TolB_N; pfam04052 439375003815 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439375003816 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439375003817 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439375003818 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439375003819 ligand binding site [chemical binding]; other site 439375003820 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439375003821 Tetratricopeptide repeat; Region: TPR_6; pfam13174 439375003822 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 439375003823 Ligand Binding Site [chemical binding]; other site 439375003824 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 439375003825 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 439375003826 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375003827 Walker A motif; other site 439375003828 ATP binding site [chemical binding]; other site 439375003829 Walker B motif; other site 439375003830 arginine finger; other site 439375003831 Peptidase family M41; Region: Peptidase_M41; pfam01434 439375003832 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 439375003833 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 439375003834 active site 439375003835 substrate binding site [chemical binding]; other site 439375003836 metal binding site [ion binding]; metal-binding site 439375003837 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375003838 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375003839 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 439375003840 Sodium Bile acid symporter family; Region: SBF; pfam01758 439375003841 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 439375003842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375003843 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 439375003844 catalytic residue [active] 439375003845 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 439375003846 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 439375003847 ligand binding site [chemical binding]; other site 439375003848 NAD binding site [chemical binding]; other site 439375003849 dimerization interface [polypeptide binding]; other site 439375003850 catalytic site [active] 439375003851 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 439375003852 putative L-serine binding site [chemical binding]; other site 439375003853 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439375003854 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003855 Coenzyme A binding pocket [chemical binding]; other site 439375003856 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 439375003857 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 439375003858 GDP-binding site [chemical binding]; other site 439375003859 ACT binding site; other site 439375003860 IMP binding site; other site 439375003861 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 439375003862 dimer interface [polypeptide binding]; other site 439375003863 substrate binding site [chemical binding]; other site 439375003864 metal binding sites [ion binding]; metal-binding site 439375003865 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 439375003866 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 439375003867 conserved cys residue [active] 439375003868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375003869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375003870 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 439375003871 active site residue [active] 439375003872 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 439375003873 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 439375003874 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375003875 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375003876 DNA binding residues [nucleotide binding] 439375003877 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 439375003878 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 439375003879 RNA binding surface [nucleotide binding]; other site 439375003880 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 439375003881 active site 439375003882 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439375003883 metal binding site 2 [ion binding]; metal-binding site 439375003884 putative DNA binding helix; other site 439375003885 metal binding site 1 [ion binding]; metal-binding site 439375003886 dimer interface [polypeptide binding]; other site 439375003887 structural Zn2+ binding site [ion binding]; other site 439375003888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439375003889 HWE histidine kinase; Region: HWE_HK; pfam07536 439375003890 two-component response regulator; Provisional; Region: PRK09191 439375003891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375003892 active site 439375003893 phosphorylation site [posttranslational modification] 439375003894 intermolecular recognition site; other site 439375003895 dimerization interface [polypeptide binding]; other site 439375003896 RNA polymerase sigma factor; Provisional; Region: PRK12516 439375003897 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375003898 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375003899 DNA binding residues [nucleotide binding] 439375003900 CHASE3 domain; Region: CHASE3; pfam05227 439375003901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439375003902 Histidine kinase; Region: HisKA_2; pfam07568 439375003903 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375003904 ATP binding site [chemical binding]; other site 439375003905 Mg2+ binding site [ion binding]; other site 439375003906 G-X-G motif; other site 439375003907 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 439375003908 PRC-barrel domain; Region: PRC; pfam05239 439375003909 tonB-system energizer ExbB; Region: exbB; TIGR02797 439375003910 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 439375003911 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 439375003912 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 439375003913 Predicted periplasmic protein [Function unknown]; Region: COG3698 439375003914 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 439375003915 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 439375003916 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439375003917 Walker A/P-loop; other site 439375003918 ATP binding site [chemical binding]; other site 439375003919 Q-loop/lid; other site 439375003920 ABC transporter signature motif; other site 439375003921 Walker B; other site 439375003922 D-loop; other site 439375003923 H-loop/switch region; other site 439375003924 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439375003925 FtsX-like permease family; Region: FtsX; pfam02687 439375003926 macrolide transporter subunit MacA; Provisional; Region: PRK11578 439375003927 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375003928 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375003929 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 439375003930 TadE-like protein; Region: TadE; pfam07811 439375003931 Predicted membrane protein [Function unknown]; Region: COG4655 439375003932 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 439375003933 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 439375003934 trimer interface [polypeptide binding]; other site 439375003935 active site 439375003936 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375003937 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375003938 putative DNA binding site [nucleotide binding]; other site 439375003939 dimerization interface [polypeptide binding]; other site 439375003940 putative Zn2+ binding site [ion binding]; other site 439375003941 AsnC family; Region: AsnC_trans_reg; pfam01037 439375003942 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 439375003943 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 439375003944 putative active site [active] 439375003945 putative dimer interface [polypeptide binding]; other site 439375003946 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 439375003947 diiron binding motif [ion binding]; other site 439375003948 Uncharacterized conserved protein [Function unknown]; Region: COG1633 439375003949 CCC1-related protein family; Region: CCC1_like_1; cd02437 439375003950 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003951 metabolite-proton symporter; Region: 2A0106; TIGR00883 439375003952 putative substrate translocation pore; other site 439375003953 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 439375003954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375003955 Coenzyme A binding pocket [chemical binding]; other site 439375003956 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 439375003957 active site 439375003958 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 439375003959 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 439375003960 active site 439375003961 HIGH motif; other site 439375003962 nucleotide binding site [chemical binding]; other site 439375003963 active site 439375003964 KMSKS motif; other site 439375003965 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 439375003966 endonuclease III; Region: ENDO3c; smart00478 439375003967 minor groove reading motif; other site 439375003968 helix-hairpin-helix signature motif; other site 439375003969 substrate binding pocket [chemical binding]; other site 439375003970 active site 439375003971 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 439375003972 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 439375003973 active site 439375003974 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 439375003975 Predicted membrane protein [Function unknown]; Region: COG1238 439375003976 succinic semialdehyde dehydrogenase; Region: PLN02278 439375003977 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 439375003978 tetramerization interface [polypeptide binding]; other site 439375003979 NAD(P) binding site [chemical binding]; other site 439375003980 catalytic residues [active] 439375003981 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 439375003982 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375003983 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375003984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375003985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375003986 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 439375003987 putative effector binding pocket; other site 439375003988 putative dimerization interface [polypeptide binding]; other site 439375003989 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375003990 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375003991 active site 439375003992 catalytic tetrad [active] 439375003993 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 439375003994 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 439375003995 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 439375003996 putative active site [active] 439375003997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375003998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375003999 putative substrate translocation pore; other site 439375004000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375004001 putative cyanate transporter; Provisional; Region: cynX; PRK09705 439375004002 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375004003 putative substrate translocation pore; other site 439375004004 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 439375004005 nucleoside/Zn binding site; other site 439375004006 dimer interface [polypeptide binding]; other site 439375004007 catalytic motif [active] 439375004008 Ankyrin repeat; Region: Ank; pfam00023 439375004009 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 439375004010 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 439375004011 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439375004012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375004013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375004014 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375004015 dimerization interface [polypeptide binding]; other site 439375004016 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375004017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375004018 DNA-binding site [nucleotide binding]; DNA binding site 439375004019 FCD domain; Region: FCD; pfam07729 439375004020 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375004021 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 439375004022 NAD(P) binding site [chemical binding]; other site 439375004023 catalytic residues [active] 439375004024 catalytic residues [active] 439375004025 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 439375004026 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 439375004027 putative NAD(P) binding site [chemical binding]; other site 439375004028 active site 439375004029 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375004030 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 439375004031 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375004032 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004033 dimer interface [polypeptide binding]; other site 439375004034 conserved gate region; other site 439375004035 putative PBP binding loops; other site 439375004036 ABC-ATPase subunit interface; other site 439375004037 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375004038 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004039 dimer interface [polypeptide binding]; other site 439375004040 conserved gate region; other site 439375004041 putative PBP binding loops; other site 439375004042 ABC-ATPase subunit interface; other site 439375004043 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439375004044 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375004045 Walker A/P-loop; other site 439375004046 ATP binding site [chemical binding]; other site 439375004047 Q-loop/lid; other site 439375004048 ABC transporter signature motif; other site 439375004049 Walker B; other site 439375004050 D-loop; other site 439375004051 H-loop/switch region; other site 439375004052 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375004053 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375004054 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375004055 Walker A/P-loop; other site 439375004056 ATP binding site [chemical binding]; other site 439375004057 Q-loop/lid; other site 439375004058 ABC transporter signature motif; other site 439375004059 Walker B; other site 439375004060 D-loop; other site 439375004061 H-loop/switch region; other site 439375004062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375004063 amidase; Provisional; Region: PRK07042 439375004064 Amidase; Region: Amidase; cl11426 439375004065 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 439375004066 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 439375004067 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 439375004068 active site 439375004069 catalytic site [active] 439375004070 substrate binding site [chemical binding]; other site 439375004071 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375004072 Predicted dehydrogenase [General function prediction only]; Region: COG0579 439375004073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375004074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375004075 metal binding site [ion binding]; metal-binding site 439375004076 active site 439375004077 I-site; other site 439375004078 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 439375004079 glutathionine S-transferase; Provisional; Region: PRK10542 439375004080 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 439375004081 C-terminal domain interface [polypeptide binding]; other site 439375004082 GSH binding site (G-site) [chemical binding]; other site 439375004083 dimer interface [polypeptide binding]; other site 439375004084 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 439375004085 N-terminal domain interface [polypeptide binding]; other site 439375004086 dimer interface [polypeptide binding]; other site 439375004087 substrate binding pocket (H-site) [chemical binding]; other site 439375004088 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375004089 non-specific DNA binding site [nucleotide binding]; other site 439375004090 salt bridge; other site 439375004091 sequence-specific DNA binding site [nucleotide binding]; other site 439375004092 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 439375004093 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439375004094 putative active site [active] 439375004095 putative NTP binding site [chemical binding]; other site 439375004096 putative nucleic acid binding site [nucleotide binding]; other site 439375004097 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 439375004098 putative active site [active] 439375004099 putative NTP binding site [chemical binding]; other site 439375004100 putative nucleic acid binding site [nucleotide binding]; other site 439375004101 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375004102 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 439375004103 catalytic residues [active] 439375004104 catalytic nucleophile [active] 439375004105 UPF0126 domain; Region: UPF0126; pfam03458 439375004106 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375004107 active site 439375004108 DNA binding site [nucleotide binding] 439375004109 Int/Topo IB signature motif; other site 439375004110 methionine sulfoxide reductase A; Provisional; Region: PRK00058 439375004111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375004112 Coenzyme A binding pocket [chemical binding]; other site 439375004113 hypothetical protein; Provisional; Region: PRK00736 439375004114 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 439375004115 catalytic motif [active] 439375004116 Catalytic residue [active] 439375004117 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375004118 active site 439375004119 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 439375004120 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375004121 S-adenosylmethionine binding site [chemical binding]; other site 439375004122 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 439375004123 ABC1 family; Region: ABC1; pfam03109 439375004124 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 439375004125 active site 439375004126 ATP binding site [chemical binding]; other site 439375004127 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 439375004128 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 439375004129 Flavoprotein; Region: Flavoprotein; pfam02441 439375004130 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 439375004131 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 439375004132 Phosphotransferase enzyme family; Region: APH; pfam01636 439375004133 active site 439375004134 ATP binding site [chemical binding]; other site 439375004135 antibiotic binding site [chemical binding]; other site 439375004136 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 439375004137 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 439375004138 G1 box; other site 439375004139 putative GEF interaction site [polypeptide binding]; other site 439375004140 GTP/Mg2+ binding site [chemical binding]; other site 439375004141 Switch I region; other site 439375004142 G2 box; other site 439375004143 G3 box; other site 439375004144 Switch II region; other site 439375004145 G4 box; other site 439375004146 G5 box; other site 439375004147 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 439375004148 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 439375004149 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 439375004150 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 439375004151 putative active site [active] 439375004152 catalytic site [active] 439375004153 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 439375004154 putative active site [active] 439375004155 catalytic site [active] 439375004156 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 439375004157 putative catalytic site [active] 439375004158 putative metal binding site [ion binding]; other site 439375004159 putative phosphate binding site [ion binding]; other site 439375004160 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 439375004161 NAD(P) binding site [chemical binding]; other site 439375004162 catalytic residues [active] 439375004163 YhhN-like protein; Region: YhhN; pfam07947 439375004164 RibD C-terminal domain; Region: RibD_C; cl17279 439375004165 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 439375004166 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 439375004167 putative FMN binding site [chemical binding]; other site 439375004168 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 439375004169 catalytic core [active] 439375004170 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 439375004171 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 439375004172 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 439375004173 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439375004174 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375004175 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 439375004176 Walker A/P-loop; other site 439375004177 ATP binding site [chemical binding]; other site 439375004178 Q-loop/lid; other site 439375004179 ABC transporter signature motif; other site 439375004180 Walker B; other site 439375004181 D-loop; other site 439375004182 H-loop/switch region; other site 439375004183 glucokinase; Provisional; Region: glk; PRK00292 439375004184 glucokinase, proteobacterial type; Region: glk; TIGR00749 439375004185 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 439375004186 active site 439375004187 dimer interfaces [polypeptide binding]; other site 439375004188 catalytic residues [active] 439375004189 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 439375004190 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 439375004191 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 439375004192 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375004193 putative substrate translocation pore; other site 439375004194 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439375004195 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 439375004196 putative NAD(P) binding site [chemical binding]; other site 439375004197 epoxyqueuosine reductase; Region: TIGR00276 439375004198 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 439375004199 HEAT repeat; Region: HEAT; pfam02985 439375004200 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375004201 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 439375004202 C-terminal domain interface [polypeptide binding]; other site 439375004203 GSH binding site (G-site) [chemical binding]; other site 439375004204 dimer interface [polypeptide binding]; other site 439375004205 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 439375004206 N-terminal domain interface [polypeptide binding]; other site 439375004207 dimer interface [polypeptide binding]; other site 439375004208 substrate binding pocket (H-site) [chemical binding]; other site 439375004209 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 439375004210 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 439375004211 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 439375004212 putative NAD(P) binding site [chemical binding]; other site 439375004213 active site 439375004214 GTP-binding protein LepA; Provisional; Region: PRK05433 439375004215 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 439375004216 G1 box; other site 439375004217 putative GEF interaction site [polypeptide binding]; other site 439375004218 GTP/Mg2+ binding site [chemical binding]; other site 439375004219 Switch I region; other site 439375004220 G2 box; other site 439375004221 G3 box; other site 439375004222 Switch II region; other site 439375004223 G4 box; other site 439375004224 G5 box; other site 439375004225 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 439375004226 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 439375004227 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 439375004228 Rdx family; Region: Rdx; cl01407 439375004229 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 439375004230 RmuC family; Region: RmuC; pfam02646 439375004231 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 439375004232 active site 439375004233 catalytic residues [active] 439375004234 metal binding site [ion binding]; metal-binding site 439375004235 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 439375004236 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 439375004237 putative active site [active] 439375004238 substrate binding site [chemical binding]; other site 439375004239 putative cosubstrate binding site; other site 439375004240 catalytic site [active] 439375004241 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 439375004242 substrate binding site [chemical binding]; other site 439375004243 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 439375004244 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 439375004245 dimerization interface 3.5A [polypeptide binding]; other site 439375004246 active site 439375004247 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 439375004248 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 439375004249 NADP binding site [chemical binding]; other site 439375004250 dimer interface [polypeptide binding]; other site 439375004251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375004252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375004253 LysR substrate binding domain; Region: LysR_substrate; pfam03466 439375004254 dimerization interface [polypeptide binding]; other site 439375004255 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 439375004256 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 439375004257 metal binding site [ion binding]; metal-binding site 439375004258 dimer interface [polypeptide binding]; other site 439375004259 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 439375004260 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 439375004261 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 439375004262 trimer interface [polypeptide binding]; other site 439375004263 active site 439375004264 substrate binding site [chemical binding]; other site 439375004265 CoA binding site [chemical binding]; other site 439375004266 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 439375004267 Protein of unknown function (DUF817); Region: DUF817; pfam05675 439375004268 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 439375004269 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 439375004270 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 439375004271 homohexameric interface [polypeptide binding]; other site 439375004272 feedback inhibition sensing region; other site 439375004273 nucleotide binding site [chemical binding]; other site 439375004274 N-acetyl-L-glutamate binding site [chemical binding]; other site 439375004275 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 439375004276 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 439375004277 G1 box; other site 439375004278 GTP/Mg2+ binding site [chemical binding]; other site 439375004279 Switch I region; other site 439375004280 G2 box; other site 439375004281 G3 box; other site 439375004282 Switch II region; other site 439375004283 G4 box; other site 439375004284 G5 box; other site 439375004285 membrane protein insertase; Provisional; Region: PRK01318 439375004286 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 439375004287 ribonuclease P; Reviewed; Region: rnpA; PRK01313 439375004288 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 439375004289 Predicted ester cyclase [General function prediction only]; Region: COG5485 439375004290 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 439375004291 homotrimer interaction site [polypeptide binding]; other site 439375004292 putative active site [active] 439375004293 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 439375004294 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 439375004295 TMAO/DMSO reductase; Reviewed; Region: PRK05363 439375004296 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 439375004297 Moco binding site; other site 439375004298 metal coordination site [ion binding]; other site 439375004299 Predicted esterase [General function prediction only]; Region: COG0400 439375004300 putative hydrolase; Provisional; Region: PRK11460 439375004301 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 439375004302 FOG: WD40 repeat [General function prediction only]; Region: COG2319 439375004303 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 439375004304 structural tetrad; other site 439375004305 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 439375004306 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 439375004307 P-loop, Walker A motif; other site 439375004308 Base recognition motif; other site 439375004309 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 439375004310 Creatinine amidohydrolase; Region: Creatininase; pfam02633 439375004311 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375004312 MarR family; Region: MarR_2; pfam12802 439375004313 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375004314 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375004315 DNA binding site [nucleotide binding] 439375004316 domain linker motif; other site 439375004317 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 439375004318 putative dimerization interface [polypeptide binding]; other site 439375004319 putative ligand binding site [chemical binding]; other site 439375004320 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 439375004321 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 439375004322 putative ligand binding site [chemical binding]; other site 439375004323 NAD binding site [chemical binding]; other site 439375004324 catalytic site [active] 439375004325 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 439375004326 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 439375004327 catalytic triad [active] 439375004328 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 439375004329 classical (c) SDRs; Region: SDR_c; cd05233 439375004330 NAD(P) binding site [chemical binding]; other site 439375004331 active site 439375004332 PAS fold; Region: PAS_7; pfam12860 439375004333 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375004334 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375004335 metal binding site [ion binding]; metal-binding site 439375004336 active site 439375004337 I-site; other site 439375004338 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 439375004339 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439375004340 Beta-lactamase; Region: Beta-lactamase; pfam00144 439375004341 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 439375004342 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 439375004343 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 439375004344 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 439375004345 ligand binding site [chemical binding]; other site 439375004346 homodimer interface [polypeptide binding]; other site 439375004347 NAD(P) binding site [chemical binding]; other site 439375004348 trimer interface B [polypeptide binding]; other site 439375004349 trimer interface A [polypeptide binding]; other site 439375004350 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 439375004351 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 439375004352 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 439375004353 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 439375004354 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 439375004355 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 439375004356 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 439375004357 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375004358 active site 439375004359 motif I; other site 439375004360 motif II; other site 439375004361 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 439375004362 putative active site [active] 439375004363 putative catalytic site [active] 439375004364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375004365 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 439375004366 TPR repeat; Region: TPR_11; pfam13414 439375004367 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375004368 TPR motif; other site 439375004369 binding surface 439375004370 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375004371 binding surface 439375004372 TPR repeat; Region: TPR_11; pfam13414 439375004373 TPR motif; other site 439375004374 TPR repeat; Region: TPR_11; pfam13414 439375004375 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 439375004376 TPR repeat; Region: TPR_11; pfam13414 439375004377 binding surface 439375004378 TPR motif; other site 439375004379 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 439375004380 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375004381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004382 dimer interface [polypeptide binding]; other site 439375004383 conserved gate region; other site 439375004384 ABC-ATPase subunit interface; other site 439375004385 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 439375004386 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 439375004387 Walker A/P-loop; other site 439375004388 ATP binding site [chemical binding]; other site 439375004389 Q-loop/lid; other site 439375004390 ABC transporter signature motif; other site 439375004391 Walker B; other site 439375004392 D-loop; other site 439375004393 H-loop/switch region; other site 439375004394 NIL domain; Region: NIL; pfam09383 439375004395 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 439375004396 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 439375004397 choline dehydrogenase; Validated; Region: PRK02106 439375004398 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439375004399 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439375004400 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375004401 TM-ABC transporter signature motif; other site 439375004402 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375004403 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375004404 TM-ABC transporter signature motif; other site 439375004405 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375004406 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375004407 Walker A/P-loop; other site 439375004408 ATP binding site [chemical binding]; other site 439375004409 Q-loop/lid; other site 439375004410 ABC transporter signature motif; other site 439375004411 Walker B; other site 439375004412 D-loop; other site 439375004413 H-loop/switch region; other site 439375004414 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375004415 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375004416 Walker A/P-loop; other site 439375004417 ATP binding site [chemical binding]; other site 439375004418 Q-loop/lid; other site 439375004419 ABC transporter signature motif; other site 439375004420 Walker B; other site 439375004421 D-loop; other site 439375004422 H-loop/switch region; other site 439375004423 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439375004424 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 439375004425 putative ligand binding site [chemical binding]; other site 439375004426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375004427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375004428 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375004429 dimerization interface [polypeptide binding]; other site 439375004430 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375004431 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 439375004432 AsnC family; Region: AsnC_trans_reg; pfam01037 439375004433 hypothetical protein; Provisional; Region: PRK06148 439375004434 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 439375004435 active site 439375004436 ATP binding site [chemical binding]; other site 439375004437 substrate binding site [chemical binding]; other site 439375004438 Peptidase family M23; Region: Peptidase_M23; pfam01551 439375004439 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375004440 inhibitor-cofactor binding pocket; inhibition site 439375004441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375004442 catalytic residue [active] 439375004443 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 439375004444 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375004445 substrate binding pocket [chemical binding]; other site 439375004446 membrane-bound complex binding site; other site 439375004447 hinge residues; other site 439375004448 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375004449 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375004450 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375004451 putative active site [active] 439375004452 benzoate transport; Region: 2A0115; TIGR00895 439375004453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375004454 putative substrate translocation pore; other site 439375004455 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375004456 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 439375004457 thiamine pyrophosphate protein; Validated; Region: PRK08199 439375004458 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439375004459 PYR/PP interface [polypeptide binding]; other site 439375004460 dimer interface [polypeptide binding]; other site 439375004461 TPP binding site [chemical binding]; other site 439375004462 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439375004463 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 439375004464 TPP-binding site [chemical binding]; other site 439375004465 Protein of unknown function DUF72; Region: DUF72; pfam01904 439375004466 D-aminopeptidase; Reviewed; Region: PRK13128 439375004467 Beta-lactamase; Region: Beta-lactamase; pfam00144 439375004468 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 439375004469 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 439375004470 OsmC-like protein; Region: OsmC; pfam02566 439375004471 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375004472 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375004473 DNA-binding site [nucleotide binding]; DNA binding site 439375004474 FCD domain; Region: FCD; pfam07729 439375004475 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375004476 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375004477 TM-ABC transporter signature motif; other site 439375004478 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375004479 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375004480 TM-ABC transporter signature motif; other site 439375004481 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375004482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375004483 Walker A/P-loop; other site 439375004484 ATP binding site [chemical binding]; other site 439375004485 Q-loop/lid; other site 439375004486 ABC transporter signature motif; other site 439375004487 Walker B; other site 439375004488 D-loop; other site 439375004489 H-loop/switch region; other site 439375004490 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375004491 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 439375004492 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375004493 putative ligand binding site [chemical binding]; other site 439375004494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 439375004495 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 439375004496 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375004497 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375004498 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 439375004499 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 439375004500 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 439375004501 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 439375004502 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 439375004503 active site 439375004504 intersubunit interface [polypeptide binding]; other site 439375004505 catalytic residue [active] 439375004506 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 439375004507 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 439375004508 putative ligand binding site [chemical binding]; other site 439375004509 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375004510 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375004511 Walker A/P-loop; other site 439375004512 ATP binding site [chemical binding]; other site 439375004513 Q-loop/lid; other site 439375004514 ABC transporter signature motif; other site 439375004515 Walker B; other site 439375004516 D-loop; other site 439375004517 H-loop/switch region; other site 439375004518 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375004519 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375004520 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375004521 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375004522 TM-ABC transporter signature motif; other site 439375004523 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439375004524 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 439375004525 homodimer interface [polypeptide binding]; other site 439375004526 substrate-cofactor binding pocket; other site 439375004527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375004528 catalytic residue [active] 439375004529 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375004530 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375004531 Walker A/P-loop; other site 439375004532 ATP binding site [chemical binding]; other site 439375004533 Q-loop/lid; other site 439375004534 ABC transporter signature motif; other site 439375004535 Walker B; other site 439375004536 D-loop; other site 439375004537 H-loop/switch region; other site 439375004538 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375004539 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004540 dimer interface [polypeptide binding]; other site 439375004541 conserved gate region; other site 439375004542 putative PBP binding loops; other site 439375004543 ABC-ATPase subunit interface; other site 439375004544 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 439375004545 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375004546 substrate binding pocket [chemical binding]; other site 439375004547 membrane-bound complex binding site; other site 439375004548 hinge residues; other site 439375004549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 439375004550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 439375004551 Nucleoside recognition; Region: Gate; pfam07670 439375004552 urocanate hydratase; Provisional; Region: PRK05414 439375004553 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 439375004554 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 439375004555 active sites [active] 439375004556 tetramer interface [polypeptide binding]; other site 439375004557 imidazolonepropionase; Validated; Region: PRK09356 439375004558 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 439375004559 active site 439375004560 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 439375004561 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 439375004562 active site 439375004563 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 439375004564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375004565 DNA-binding site [nucleotide binding]; DNA binding site 439375004566 UTRA domain; Region: UTRA; pfam07702 439375004567 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 439375004568 Predicted outer membrane protein [Function unknown]; Region: COG3652 439375004569 RNA polymerase sigma factor; Provisional; Region: PRK11922 439375004570 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375004571 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375004572 DNA binding residues [nucleotide binding] 439375004573 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 439375004574 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375004575 inhibitor-cofactor binding pocket; inhibition site 439375004576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375004577 catalytic residue [active] 439375004578 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 439375004579 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375004580 non-specific DNA binding site [nucleotide binding]; other site 439375004581 salt bridge; other site 439375004582 sequence-specific DNA binding site [nucleotide binding]; other site 439375004583 Cupin domain; Region: Cupin_2; pfam07883 439375004584 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 439375004585 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375004586 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375004587 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 439375004588 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 439375004589 active site 439375004590 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375004591 dimer interface [polypeptide binding]; other site 439375004592 substrate binding site [chemical binding]; other site 439375004593 catalytic residues [active] 439375004594 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375004595 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375004596 putative DNA binding site [nucleotide binding]; other site 439375004597 putative Zn2+ binding site [ion binding]; other site 439375004598 AsnC family; Region: AsnC_trans_reg; pfam01037 439375004599 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375004600 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 439375004601 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 439375004602 phosphate binding site [ion binding]; other site 439375004603 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 439375004604 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 439375004605 putative molybdopterin cofactor binding site [chemical binding]; other site 439375004606 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 439375004607 putative molybdopterin cofactor binding site; other site 439375004608 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375004609 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375004610 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375004611 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375004612 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375004613 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439375004614 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439375004615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375004616 DNA-binding site [nucleotide binding]; DNA binding site 439375004617 UTRA domain; Region: UTRA; pfam07702 439375004618 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 439375004619 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 439375004620 dimer interface [polypeptide binding]; other site 439375004621 active site 439375004622 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 439375004623 dimer interface [polypeptide binding]; other site 439375004624 active site 439375004625 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 439375004626 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 439375004627 active site 439375004628 dimer interface [polypeptide binding]; other site 439375004629 hypothetical protein; Provisional; Region: PRK02947 439375004630 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375004631 putative active site [active] 439375004632 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 439375004633 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 439375004634 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 439375004635 putative active site [active] 439375004636 putative substrate binding site [chemical binding]; other site 439375004637 putative cosubstrate binding site; other site 439375004638 catalytic site [active] 439375004639 aldehyde dehydrogenase family 7 member; Region: PLN02315 439375004640 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 439375004641 tetrameric interface [polypeptide binding]; other site 439375004642 NAD binding site [chemical binding]; other site 439375004643 catalytic residues [active] 439375004644 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 439375004645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 439375004646 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375004647 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375004648 putative Zn2+ binding site [ion binding]; other site 439375004649 putative DNA binding site [nucleotide binding]; other site 439375004650 dimerization interface [polypeptide binding]; other site 439375004651 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375004652 dimerization interface [polypeptide binding]; other site 439375004653 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375004654 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375004655 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439375004656 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375004657 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 439375004658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004659 putative PBP binding loops; other site 439375004660 ABC-ATPase subunit interface; other site 439375004661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004662 dimer interface [polypeptide binding]; other site 439375004663 conserved gate region; other site 439375004664 putative PBP binding loops; other site 439375004665 ABC-ATPase subunit interface; other site 439375004666 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375004667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375004668 Walker A/P-loop; other site 439375004669 ATP binding site [chemical binding]; other site 439375004670 Q-loop/lid; other site 439375004671 ABC transporter signature motif; other site 439375004672 Walker B; other site 439375004673 D-loop; other site 439375004674 H-loop/switch region; other site 439375004675 TOBE domain; Region: TOBE_2; pfam08402 439375004676 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 439375004677 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 439375004678 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 439375004679 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 439375004680 RNA binding site [nucleotide binding]; other site 439375004681 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375004682 dimerization interface [polypeptide binding]; other site 439375004683 putative DNA binding site [nucleotide binding]; other site 439375004684 putative Zn2+ binding site [ion binding]; other site 439375004685 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439375004686 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 439375004687 FMN binding site [chemical binding]; other site 439375004688 active site 439375004689 substrate binding site [chemical binding]; other site 439375004690 catalytic residue [active] 439375004691 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375004692 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 439375004693 AsnC family; Region: AsnC_trans_reg; pfam01037 439375004694 Arginase family; Region: Arginase; cd09989 439375004695 agmatinase; Region: agmatinase; TIGR01230 439375004696 active site 439375004697 Mn binding site [ion binding]; other site 439375004698 oligomer interface [polypeptide binding]; other site 439375004699 ornithine cyclodeaminase; Validated; Region: PRK07589 439375004700 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 439375004701 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 439375004702 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 439375004703 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 439375004704 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 439375004705 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 439375004706 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 439375004707 dimer interface [polypeptide binding]; other site 439375004708 motif 1; other site 439375004709 active site 439375004710 motif 2; other site 439375004711 motif 3; other site 439375004712 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439375004713 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439375004714 active site 439375004715 acyl carrier protein; Provisional; Region: PRK07081 439375004716 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 439375004717 apolar tunnel; other site 439375004718 heme binding site [chemical binding]; other site 439375004719 dimerization interface [polypeptide binding]; other site 439375004720 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 439375004721 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375004722 dimer interface [polypeptide binding]; other site 439375004723 putative metal binding site [ion binding]; other site 439375004724 Predicted chitinase [General function prediction only]; Region: COG3179 439375004725 catalytic residue [active] 439375004726 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375004727 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 439375004728 Phage Tail Protein X; Region: Phage_tail_X; cl02088 439375004729 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 439375004730 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 439375004731 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 439375004732 Phage tail tube protein FII; Region: Phage_tube; cl01390 439375004733 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 439375004734 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 439375004735 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 439375004736 Baseplate J-like protein; Region: Baseplate_J; cl01294 439375004737 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 439375004738 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 439375004739 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 439375004740 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 439375004741 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 439375004742 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 439375004743 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 439375004744 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439375004745 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375004746 S-adenosylmethionine binding site [chemical binding]; other site 439375004747 MlrC C-terminus; Region: MlrC_C; pfam07171 439375004748 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 439375004749 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 439375004750 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 439375004751 cofactor binding site; other site 439375004752 DNA binding site [nucleotide binding] 439375004753 substrate interaction site [chemical binding]; other site 439375004754 ParB-like nuclease domain; Region: ParBc; pfam02195 439375004755 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 439375004756 Protein of unknown function (DUF550); Region: DUF550; pfam04447 439375004757 WYL domain; Region: WYL; cl14852 439375004758 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 439375004759 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 439375004760 trimer interface [polypeptide binding]; other site 439375004761 active site 439375004762 Protein of unknown function (DUF982); Region: DUF982; pfam06169 439375004763 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 439375004764 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 439375004765 Protein of unknown function (DUF497); Region: DUF497; cl01108 439375004766 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 439375004767 active site 439375004768 metal binding site [ion binding]; metal-binding site 439375004769 interdomain interaction site; other site 439375004770 AAA domain; Region: AAA_25; pfam13481 439375004771 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375004772 Walker A motif; other site 439375004773 ATP binding site [chemical binding]; other site 439375004774 Walker B motif; other site 439375004775 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 439375004776 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 439375004777 dimer interface [polypeptide binding]; other site 439375004778 ssDNA binding site [nucleotide binding]; other site 439375004779 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439375004780 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375004781 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375004782 non-specific DNA binding site [nucleotide binding]; other site 439375004783 salt bridge; other site 439375004784 sequence-specific DNA binding site [nucleotide binding]; other site 439375004785 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 439375004786 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 439375004787 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 439375004788 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 439375004789 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 439375004790 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 439375004791 active site 439375004792 catalytic site [active] 439375004793 substrate binding site [chemical binding]; other site 439375004794 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 439375004795 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 439375004796 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375004797 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 439375004798 catalytic residues [active] 439375004799 catalytic nucleophile [active] 439375004800 Recombinase; Region: Recombinase; pfam07508 439375004801 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375004802 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375004803 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375004804 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 439375004805 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 439375004806 inhibitor-cofactor binding pocket; inhibition site 439375004807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375004808 catalytic residue [active] 439375004809 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 439375004810 dimer interface [polypeptide binding]; other site 439375004811 Putative ammonia monooxygenase; Region: AmoA; pfam05145 439375004812 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 439375004813 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 439375004814 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375004815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375004816 active site 439375004817 phosphorylation site [posttranslational modification] 439375004818 intermolecular recognition site; other site 439375004819 dimerization interface [polypeptide binding]; other site 439375004820 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375004821 DNA binding site [nucleotide binding] 439375004822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375004823 Response regulator receiver domain; Region: Response_reg; pfam00072 439375004824 active site 439375004825 phosphorylation site [posttranslational modification] 439375004826 intermolecular recognition site; other site 439375004827 dimerization interface [polypeptide binding]; other site 439375004828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 439375004829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 439375004830 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 439375004831 Predicted acetyltransferase [General function prediction only]; Region: COG2388 439375004832 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 439375004833 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 439375004834 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 439375004835 Ligand Binding Site [chemical binding]; other site 439375004836 EamA-like transporter family; Region: EamA; pfam00892 439375004837 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439375004838 EamA-like transporter family; Region: EamA; pfam00892 439375004839 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 439375004840 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 439375004841 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 439375004842 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375004843 dimerization interface [polypeptide binding]; other site 439375004844 putative DNA binding site [nucleotide binding]; other site 439375004845 putative Zn2+ binding site [ion binding]; other site 439375004846 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 439375004847 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 439375004848 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 439375004849 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375004850 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 439375004851 peptide binding site [polypeptide binding]; other site 439375004852 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375004853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004854 dimer interface [polypeptide binding]; other site 439375004855 conserved gate region; other site 439375004856 putative PBP binding loops; other site 439375004857 ABC-ATPase subunit interface; other site 439375004858 dipeptide transporter; Provisional; Region: PRK10913 439375004859 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 439375004860 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004861 dimer interface [polypeptide binding]; other site 439375004862 conserved gate region; other site 439375004863 putative PBP binding loops; other site 439375004864 ABC-ATPase subunit interface; other site 439375004865 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375004866 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375004867 Walker A/P-loop; other site 439375004868 ATP binding site [chemical binding]; other site 439375004869 Q-loop/lid; other site 439375004870 ABC transporter signature motif; other site 439375004871 Walker B; other site 439375004872 D-loop; other site 439375004873 H-loop/switch region; other site 439375004874 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375004875 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375004876 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375004877 Walker A/P-loop; other site 439375004878 ATP binding site [chemical binding]; other site 439375004879 Q-loop/lid; other site 439375004880 ABC transporter signature motif; other site 439375004881 Walker B; other site 439375004882 D-loop; other site 439375004883 H-loop/switch region; other site 439375004884 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375004885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375004886 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 439375004887 Walker A/P-loop; other site 439375004888 ATP binding site [chemical binding]; other site 439375004889 Q-loop/lid; other site 439375004890 ABC transporter signature motif; other site 439375004891 Walker B; other site 439375004892 D-loop; other site 439375004893 H-loop/switch region; other site 439375004894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375004895 dimer interface [polypeptide binding]; other site 439375004896 conserved gate region; other site 439375004897 putative PBP binding loops; other site 439375004898 ABC-ATPase subunit interface; other site 439375004899 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 439375004900 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 439375004901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 439375004902 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 439375004903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375004904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375004905 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375004906 dimerization interface [polypeptide binding]; other site 439375004907 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375004908 putative substrate translocation pore; other site 439375004909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375004910 MarR family; Region: MarR_2; cl17246 439375004911 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375004912 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 439375004913 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375004914 putative DNA binding site [nucleotide binding]; other site 439375004915 putative Zn2+ binding site [ion binding]; other site 439375004916 AsnC family; Region: AsnC_trans_reg; pfam01037 439375004917 anthranilate synthase; Provisional; Region: PRK13566 439375004918 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 439375004919 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 439375004920 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 439375004921 glutamine binding [chemical binding]; other site 439375004922 catalytic triad [active] 439375004923 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 439375004924 Cation efflux family; Region: Cation_efflux; pfam01545 439375004925 2-isopropylmalate synthase; Validated; Region: PRK03739 439375004926 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 439375004927 active site 439375004928 catalytic residues [active] 439375004929 metal binding site [ion binding]; metal-binding site 439375004930 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 439375004931 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439375004932 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375004933 active site 439375004934 metal binding site [ion binding]; metal-binding site 439375004935 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 439375004936 nudix motif; other site 439375004937 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 439375004938 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 439375004939 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 439375004940 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 439375004941 putative dimer interface [polypeptide binding]; other site 439375004942 N-terminal domain interface [polypeptide binding]; other site 439375004943 putative substrate binding pocket (H-site) [chemical binding]; other site 439375004944 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 439375004945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375004946 Coenzyme A binding pocket [chemical binding]; other site 439375004947 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 439375004948 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 439375004949 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 439375004950 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 439375004951 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 439375004952 Protein of unknown function DUF58; Region: DUF58; pfam01882 439375004953 MoxR-like ATPases [General function prediction only]; Region: COG0714 439375004954 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 439375004955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 439375004956 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 439375004957 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 439375004958 putative active site [active] 439375004959 putative CoA binding site [chemical binding]; other site 439375004960 nudix motif; other site 439375004961 metal binding site [ion binding]; metal-binding site 439375004962 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 439375004963 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 439375004964 active site 439375004965 NTP binding site [chemical binding]; other site 439375004966 metal binding triad [ion binding]; metal-binding site 439375004967 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 439375004968 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 439375004969 hypothetical protein; Provisional; Region: PRK13687 439375004970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375004971 Coenzyme A binding pocket [chemical binding]; other site 439375004972 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 439375004973 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 439375004974 outer membrane protease; Reviewed; Region: PRK10993 439375004975 Purine nucleoside permease (NUP); Region: NUP; cl17832 439375004976 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 439375004977 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439375004978 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375004979 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 439375004980 Walker A/P-loop; other site 439375004981 ATP binding site [chemical binding]; other site 439375004982 Q-loop/lid; other site 439375004983 ABC transporter signature motif; other site 439375004984 Walker B; other site 439375004985 D-loop; other site 439375004986 H-loop/switch region; other site 439375004987 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439375004988 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375004989 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 439375004990 Walker A/P-loop; other site 439375004991 ATP binding site [chemical binding]; other site 439375004992 Q-loop/lid; other site 439375004993 ABC transporter signature motif; other site 439375004994 Walker B; other site 439375004995 D-loop; other site 439375004996 H-loop/switch region; other site 439375004997 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 439375004998 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 439375004999 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 439375005000 [2Fe-2S] cluster binding site [ion binding]; other site 439375005001 cytochrome b; Provisional; Region: CYTB; MTH00191 439375005002 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 439375005003 Qi binding site; other site 439375005004 intrachain domain interface; other site 439375005005 interchain domain interface [polypeptide binding]; other site 439375005006 heme bH binding site [chemical binding]; other site 439375005007 heme bL binding site [chemical binding]; other site 439375005008 Qo binding site; other site 439375005009 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 439375005010 interchain domain interface [polypeptide binding]; other site 439375005011 intrachain domain interface; other site 439375005012 Qi binding site; other site 439375005013 Qo binding site; other site 439375005014 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 439375005015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375005016 active site 439375005017 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 439375005018 putative active site [active] 439375005019 putative catalytic site [active] 439375005020 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 439375005021 putative active site [active] 439375005022 putative catalytic site [active] 439375005023 GTP-binding protein YchF; Reviewed; Region: PRK09601 439375005024 YchF GTPase; Region: YchF; cd01900 439375005025 G1 box; other site 439375005026 GTP/Mg2+ binding site [chemical binding]; other site 439375005027 Switch I region; other site 439375005028 G2 box; other site 439375005029 Switch II region; other site 439375005030 G3 box; other site 439375005031 G4 box; other site 439375005032 G5 box; other site 439375005033 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 439375005034 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 439375005035 putative active site [active] 439375005036 catalytic residue [active] 439375005037 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 439375005038 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 439375005039 5S rRNA interface [nucleotide binding]; other site 439375005040 CTC domain interface [polypeptide binding]; other site 439375005041 L16 interface [polypeptide binding]; other site 439375005042 HerA helicase [Replication, recombination, and repair]; Region: COG0433 439375005043 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 439375005044 Chromate transporter; Region: Chromate_transp; pfam02417 439375005045 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 439375005046 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 439375005047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375005048 active site 439375005049 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439375005050 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439375005051 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 439375005052 active site 439375005053 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 439375005054 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 439375005055 Uncharacterized conserved protein [Function unknown]; Region: COG1565 439375005056 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 439375005057 Membrane fusogenic activity; Region: BMFP; pfam04380 439375005058 Uncharacterized conserved protein [Function unknown]; Region: COG5465 439375005059 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 439375005060 dimer interface [polypeptide binding]; other site 439375005061 putative tRNA-binding site [nucleotide binding]; other site 439375005062 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 439375005063 dimer interface [polypeptide binding]; other site 439375005064 phosphorylation site [posttranslational modification] 439375005065 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375005066 ATP binding site [chemical binding]; other site 439375005067 Mg2+ binding site [ion binding]; other site 439375005068 G-X-G motif; other site 439375005069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375005070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375005071 active site 439375005072 phosphorylation site [posttranslational modification] 439375005073 intermolecular recognition site; other site 439375005074 dimerization interface [polypeptide binding]; other site 439375005075 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375005076 DNA binding site [nucleotide binding] 439375005077 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375005078 MarR family; Region: MarR_2; pfam12802 439375005079 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439375005080 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 439375005081 homodimer interface [polypeptide binding]; other site 439375005082 substrate-cofactor binding pocket; other site 439375005083 catalytic residue [active] 439375005084 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 439375005085 BA14K-like protein; Region: BA14K; pfam07886 439375005086 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 439375005087 DNA-binding site [nucleotide binding]; DNA binding site 439375005088 RNA-binding motif; other site 439375005089 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375005090 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375005091 catalytic residue [active] 439375005092 Sporulation related domain; Region: SPOR; pfam05036 439375005093 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cl00097 439375005094 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cd00104 439375005095 excinuclease ABC subunit B; Provisional; Region: PRK05298 439375005096 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 439375005097 ATP binding site [chemical binding]; other site 439375005098 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375005099 nucleotide binding region [chemical binding]; other site 439375005100 ATP-binding site [chemical binding]; other site 439375005101 Ultra-violet resistance protein B; Region: UvrB; pfam12344 439375005102 UvrB/uvrC motif; Region: UVR; pfam02151 439375005103 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 439375005104 Bacterial SH3 domain; Region: SH3_3; pfam08239 439375005105 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 439375005106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 439375005107 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 439375005108 Protein of unknown function, DUF486; Region: DUF486; cl01236 439375005109 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439375005110 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 439375005111 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 439375005112 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 439375005113 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 439375005114 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439375005115 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375005116 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375005117 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375005118 putative DNA binding site [nucleotide binding]; other site 439375005119 putative Zn2+ binding site [ion binding]; other site 439375005120 AsnC family; Region: AsnC_trans_reg; pfam01037 439375005121 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 439375005122 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 439375005123 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 439375005124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375005125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375005126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375005127 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 439375005128 putative effector binding pocket; other site 439375005129 dimerization interface [polypeptide binding]; other site 439375005130 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375005131 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375005132 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375005133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005134 dimer interface [polypeptide binding]; other site 439375005135 conserved gate region; other site 439375005136 putative PBP binding loops; other site 439375005137 ABC-ATPase subunit interface; other site 439375005138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005139 dimer interface [polypeptide binding]; other site 439375005140 conserved gate region; other site 439375005141 putative PBP binding loops; other site 439375005142 ABC-ATPase subunit interface; other site 439375005143 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375005144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375005145 Walker A/P-loop; other site 439375005146 ATP binding site [chemical binding]; other site 439375005147 Q-loop/lid; other site 439375005148 ABC transporter signature motif; other site 439375005149 Walker B; other site 439375005150 D-loop; other site 439375005151 H-loop/switch region; other site 439375005152 TOBE domain; Region: TOBE_2; pfam08402 439375005153 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 439375005154 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439375005155 active site 439375005156 metal binding site [ion binding]; metal-binding site 439375005157 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375005158 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439375005159 putative active site [active] 439375005160 putative NTP binding site [chemical binding]; other site 439375005161 putative nucleic acid binding site [nucleotide binding]; other site 439375005162 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375005163 aspartate aminotransferase; Provisional; Region: PRK05764 439375005164 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375005165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375005166 homodimer interface [polypeptide binding]; other site 439375005167 catalytic residue [active] 439375005168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375005169 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375005170 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 439375005171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375005172 NAD(P) binding site [chemical binding]; other site 439375005173 active site 439375005174 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 439375005175 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 439375005176 DNA-binding site [nucleotide binding]; DNA binding site 439375005177 RNA-binding motif; other site 439375005178 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 439375005179 nudix motif; other site 439375005180 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 439375005181 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 439375005182 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 439375005183 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 439375005184 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375005185 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439375005186 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 439375005187 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375005188 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439375005189 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 439375005190 IMP binding site; other site 439375005191 dimer interface [polypeptide binding]; other site 439375005192 partial ornithine binding site; other site 439375005193 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 439375005194 Predicted metalloprotease [General function prediction only]; Region: COG2321 439375005195 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 439375005196 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375005197 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375005198 putative substrate translocation pore; other site 439375005199 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 439375005200 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 439375005201 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 439375005202 catalytic site [active] 439375005203 subunit interface [polypeptide binding]; other site 439375005204 Uncharacterized conserved protein [Function unknown]; Region: COG1610 439375005205 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 439375005206 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 439375005207 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 439375005208 PhoU domain; Region: PhoU; pfam01895 439375005209 PhoU domain; Region: PhoU; pfam01895 439375005210 DNA primase; Validated; Region: dnaG; PRK05667 439375005211 CHC2 zinc finger; Region: zf-CHC2; cl17510 439375005212 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 439375005213 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 439375005214 active site 439375005215 metal binding site [ion binding]; metal-binding site 439375005216 interdomain interaction site; other site 439375005217 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 439375005218 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 439375005219 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 439375005220 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 439375005221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375005222 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 439375005223 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375005224 DNA binding residues [nucleotide binding] 439375005225 Uncharacterized conserved protein [Function unknown]; Region: COG5453 439375005226 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 439375005227 hypothetical protein; Provisional; Region: PRK05170 439375005228 Uncharacterized conserved protein [Function unknown]; Region: COG2968 439375005229 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 439375005230 RNA polymerase sigma factor; Provisional; Region: PRK12514 439375005231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375005232 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375005233 DNA binding residues [nucleotide binding] 439375005234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 439375005235 Anti-sigma-K factor rskA; Region: RskA; pfam10099 439375005236 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 439375005237 Fasciclin domain; Region: Fasciclin; pfam02469 439375005238 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 439375005239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 439375005240 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 439375005241 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 439375005242 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 439375005243 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 439375005244 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 439375005245 active site 439375005246 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375005247 non-specific DNA binding site [nucleotide binding]; other site 439375005248 salt bridge; other site 439375005249 sequence-specific DNA binding site [nucleotide binding]; other site 439375005250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 439375005251 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375005252 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439375005253 putative active site [active] 439375005254 putative NTP binding site [chemical binding]; other site 439375005255 putative nucleic acid binding site [nucleotide binding]; other site 439375005256 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375005257 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 439375005258 Isochorismatase family; Region: Isochorismatase; pfam00857 439375005259 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 439375005260 catalytic triad [active] 439375005261 metal binding site [ion binding]; metal-binding site 439375005262 conserved cis-peptide bond; other site 439375005263 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 439375005264 PhnA protein; Region: PhnA; pfam03831 439375005265 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 439375005266 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 439375005267 FAD binding pocket [chemical binding]; other site 439375005268 FAD binding motif [chemical binding]; other site 439375005269 phosphate binding motif [ion binding]; other site 439375005270 beta-alpha-beta structure motif; other site 439375005271 NAD binding pocket [chemical binding]; other site 439375005272 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 439375005273 catalytic loop [active] 439375005274 iron binding site [ion binding]; other site 439375005275 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 439375005276 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 439375005277 [2Fe-2S] cluster binding site [ion binding]; other site 439375005278 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 439375005279 putative alpha subunit interface [polypeptide binding]; other site 439375005280 putative active site [active] 439375005281 putative substrate binding site [chemical binding]; other site 439375005282 Fe binding site [ion binding]; other site 439375005283 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 439375005284 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 439375005285 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375005286 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 439375005287 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 439375005288 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 439375005289 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439375005290 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439375005291 Ligand binding site; other site 439375005292 Putative Catalytic site; other site 439375005293 DXD motif; other site 439375005294 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 439375005295 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439375005296 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 439375005297 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375005298 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375005299 ABC transporter; Region: ABC_tran_2; pfam12848 439375005300 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375005301 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 439375005302 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375005303 S-adenosylmethionine binding site [chemical binding]; other site 439375005304 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 439375005305 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375005306 putative substrate translocation pore; other site 439375005307 Uncharacterized conserved protein [Function unknown]; Region: COG5586 439375005308 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375005309 putative DNA binding site [nucleotide binding]; other site 439375005310 dimerization interface [polypeptide binding]; other site 439375005311 putative Zn2+ binding site [ion binding]; other site 439375005312 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375005313 S-adenosylmethionine binding site [chemical binding]; other site 439375005314 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 439375005315 FAD binding site [chemical binding]; other site 439375005316 Predicted permeases [General function prediction only]; Region: COG0679 439375005317 Transglycosylase SLT domain; Region: SLT_2; pfam13406 439375005318 murein hydrolase B; Provisional; Region: PRK10760; cl17906 439375005319 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 439375005320 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375005321 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 439375005322 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 439375005323 active site 439375005324 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375005325 S-adenosylmethionine binding site [chemical binding]; other site 439375005326 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 439375005327 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 439375005328 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 439375005329 putative metal binding site [ion binding]; other site 439375005330 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 439375005331 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 439375005332 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 439375005333 amidase catalytic site [active] 439375005334 Zn binding residues [ion binding]; other site 439375005335 substrate binding site [chemical binding]; other site 439375005336 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375005337 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375005338 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375005339 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375005340 catalytic residue [active] 439375005341 short chain dehydrogenase; Provisional; Region: PRK07478 439375005342 classical (c) SDRs; Region: SDR_c; cd05233 439375005343 NAD(P) binding site [chemical binding]; other site 439375005344 active site 439375005345 manganese transport protein MntH; Reviewed; Region: PRK00701 439375005346 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 439375005347 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 439375005348 MraW methylase family; Region: Methyltransf_5; cl17771 439375005349 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 439375005350 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 439375005351 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 439375005352 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 439375005353 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 439375005354 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439375005355 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439375005356 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439375005357 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 439375005358 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439375005359 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439375005360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439375005361 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 439375005362 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 439375005363 Mg++ binding site [ion binding]; other site 439375005364 putative catalytic motif [active] 439375005365 putative substrate binding site [chemical binding]; other site 439375005366 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 439375005367 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439375005368 cell division protein FtsW; Region: ftsW; TIGR02614 439375005369 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 439375005370 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 439375005371 active site 439375005372 homodimer interface [polypeptide binding]; other site 439375005373 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 439375005374 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439375005375 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439375005376 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439375005377 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 439375005378 FAD binding domain; Region: FAD_binding_4; pfam01565 439375005379 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 439375005380 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 439375005381 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 439375005382 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439375005383 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 439375005384 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 439375005385 Cell division protein FtsQ; Region: FtsQ; pfam03799 439375005386 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 439375005387 Cell division protein FtsA; Region: FtsA; smart00842 439375005388 Cell division protein FtsA; Region: FtsA; pfam14450 439375005389 cell division protein FtsZ; Validated; Region: PRK09330 439375005390 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 439375005391 nucleotide binding site [chemical binding]; other site 439375005392 SulA interaction site; other site 439375005393 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 439375005394 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 439375005395 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 439375005396 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 439375005397 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 439375005398 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 439375005399 Walker A/P-loop; other site 439375005400 ATP binding site [chemical binding]; other site 439375005401 Q-loop/lid; other site 439375005402 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 439375005403 ABC transporter signature motif; other site 439375005404 Walker B; other site 439375005405 D-loop; other site 439375005406 H-loop/switch region; other site 439375005407 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 439375005408 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 439375005409 nucleotide binding pocket [chemical binding]; other site 439375005410 K-X-D-G motif; other site 439375005411 catalytic site [active] 439375005412 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 439375005413 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 439375005414 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 439375005415 Dimer interface [polypeptide binding]; other site 439375005416 BRCT sequence motif; other site 439375005417 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 439375005418 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 439375005419 Predicted membrane protein [Function unknown]; Region: COG4541 439375005420 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439375005421 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439375005422 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 439375005423 active site 439375005424 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 439375005425 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375005426 S-adenosylmethionine binding site [chemical binding]; other site 439375005427 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 439375005428 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 439375005429 Cu(I) binding site [ion binding]; other site 439375005430 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 439375005431 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 439375005432 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 439375005433 trimer interface [polypeptide binding]; other site 439375005434 active site 439375005435 substrate binding site [chemical binding]; other site 439375005436 CoA binding site [chemical binding]; other site 439375005437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 439375005438 CreA protein; Region: CreA; pfam05981 439375005439 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 439375005440 Part of AAA domain; Region: AAA_19; pfam13245 439375005441 Family description; Region: UvrD_C_2; pfam13538 439375005442 serine/threonine protein kinase; Provisional; Region: PRK09188 439375005443 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 439375005444 active site 439375005445 ATP binding site [chemical binding]; other site 439375005446 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439375005447 Domain of unknown function (DUF336); Region: DUF336; cl01249 439375005448 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439375005449 FAD binding domain; Region: FAD_binding_4; pfam01565 439375005450 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 439375005451 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 439375005452 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 439375005453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 439375005454 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375005455 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375005456 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 439375005457 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 439375005458 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375005459 putative substrate translocation pore; other site 439375005460 Helix-turn-helix domain; Region: HTH_36; pfam13730 439375005461 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 439375005462 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 439375005463 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375005464 non-specific DNA binding site [nucleotide binding]; other site 439375005465 salt bridge; other site 439375005466 sequence-specific DNA binding site [nucleotide binding]; other site 439375005467 Phage endonuclease I; Region: Phage_endo_I; cl11622 439375005468 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439375005469 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439375005470 DNA binding residues [nucleotide binding] 439375005471 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 439375005472 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 439375005473 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 439375005474 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 439375005475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375005476 Homeodomain-like domain; Region: HTH_23; pfam13384 439375005477 Homeodomain-like domain; Region: HTH_32; pfam13565 439375005478 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375005479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375005480 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375005481 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 439375005482 active site 439375005483 catalytic residues [active] 439375005484 DNA binding site [nucleotide binding] 439375005485 Int/Topo IB signature motif; other site 439375005486 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 439375005487 thymidylate synthase; Reviewed; Region: thyA; PRK01827 439375005488 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 439375005489 dimerization interface [polypeptide binding]; other site 439375005490 active site 439375005491 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 439375005492 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 439375005493 folate binding site [chemical binding]; other site 439375005494 NADP+ binding site [chemical binding]; other site 439375005495 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 439375005496 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 439375005497 HflK protein; Region: hflK; TIGR01933 439375005498 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 439375005499 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 439375005500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 439375005501 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 439375005502 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439375005503 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 439375005504 protein binding site [polypeptide binding]; other site 439375005505 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 439375005506 protein binding site [polypeptide binding]; other site 439375005507 Predicted flavoproteins [General function prediction only]; Region: COG2081 439375005508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375005509 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439375005510 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 439375005511 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 439375005512 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375005513 motif II; other site 439375005514 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 439375005515 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 439375005516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375005517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375005518 metal binding site [ion binding]; metal-binding site 439375005519 active site 439375005520 I-site; other site 439375005521 Domain of unknown function DUF87; Region: DUF87; pfam01935 439375005522 AAA-like domain; Region: AAA_10; pfam12846 439375005523 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 439375005524 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439375005525 PYR/PP interface [polypeptide binding]; other site 439375005526 dimer interface [polypeptide binding]; other site 439375005527 TPP binding site [chemical binding]; other site 439375005528 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439375005529 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 439375005530 TPP-binding site [chemical binding]; other site 439375005531 dimer interface [polypeptide binding]; other site 439375005532 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 439375005533 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 439375005534 putative valine binding site [chemical binding]; other site 439375005535 dimer interface [polypeptide binding]; other site 439375005536 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 439375005537 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375005538 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 439375005539 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 439375005540 tetramer interface [polypeptide binding]; other site 439375005541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375005542 catalytic residue [active] 439375005543 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 439375005544 AAA domain; Region: AAA_30; pfam13604 439375005545 Family description; Region: UvrD_C_2; pfam13538 439375005546 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 439375005547 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 439375005548 active site 439375005549 hydrophilic channel; other site 439375005550 dimerization interface [polypeptide binding]; other site 439375005551 catalytic residues [active] 439375005552 active site lid [active] 439375005553 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 439375005554 potassium uptake protein; Region: kup; TIGR00794 439375005555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375005556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375005557 ketol-acid reductoisomerase; Provisional; Region: PRK05479 439375005558 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 439375005559 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 439375005560 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 439375005561 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375005562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375005563 homodimer interface [polypeptide binding]; other site 439375005564 catalytic residue [active] 439375005565 BA14K-like protein; Region: BA14K; pfam07886 439375005566 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 439375005567 putative catalytic site [active] 439375005568 putative metal binding site [ion binding]; other site 439375005569 putative phosphate binding site [ion binding]; other site 439375005570 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 439375005571 putative catalytic site [active] 439375005572 putative phosphate binding site [ion binding]; other site 439375005573 putative metal binding site [ion binding]; other site 439375005574 NUDIX domain; Region: NUDIX; pfam00293 439375005575 nudix motif; other site 439375005576 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 439375005577 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 439375005578 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 439375005579 Ligand Binding Site [chemical binding]; other site 439375005580 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 439375005581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 439375005582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375005583 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375005584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375005585 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375005586 Walker A/P-loop; other site 439375005587 ATP binding site [chemical binding]; other site 439375005588 Q-loop/lid; other site 439375005589 ABC transporter signature motif; other site 439375005590 Walker B; other site 439375005591 D-loop; other site 439375005592 H-loop/switch region; other site 439375005593 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439375005594 Walker A/P-loop; other site 439375005595 ATP binding site [chemical binding]; other site 439375005596 Q-loop/lid; other site 439375005597 ABC transporter signature motif; other site 439375005598 Walker B; other site 439375005599 D-loop; other site 439375005600 H-loop/switch region; other site 439375005601 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 439375005602 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439375005603 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 439375005604 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439375005605 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439375005606 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 439375005607 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375005608 N-terminal plug; other site 439375005609 ligand-binding site [chemical binding]; other site 439375005610 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 439375005611 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 439375005612 intersubunit interface [polypeptide binding]; other site 439375005613 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439375005614 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375005615 ABC-ATPase subunit interface; other site 439375005616 dimer interface [polypeptide binding]; other site 439375005617 putative PBP binding regions; other site 439375005618 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439375005619 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375005620 Walker A/P-loop; other site 439375005621 ATP binding site [chemical binding]; other site 439375005622 Q-loop/lid; other site 439375005623 ABC transporter signature motif; other site 439375005624 Walker B; other site 439375005625 D-loop; other site 439375005626 H-loop/switch region; other site 439375005627 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375005628 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375005629 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375005630 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 439375005631 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375005632 putative ligand binding site [chemical binding]; other site 439375005633 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375005634 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375005635 TM-ABC transporter signature motif; other site 439375005636 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375005637 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375005638 Walker A/P-loop; other site 439375005639 ATP binding site [chemical binding]; other site 439375005640 Q-loop/lid; other site 439375005641 ABC transporter signature motif; other site 439375005642 Walker B; other site 439375005643 D-loop; other site 439375005644 H-loop/switch region; other site 439375005645 short chain dehydrogenase; Provisional; Region: PRK06198 439375005646 classical (c) SDRs; Region: SDR_c; cd05233 439375005647 NAD(P) binding site [chemical binding]; other site 439375005648 active site 439375005649 Sulfatase; Region: Sulfatase; cl17466 439375005650 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 439375005651 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375005652 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 439375005653 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439375005654 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375005655 Walker A/P-loop; other site 439375005656 ATP binding site [chemical binding]; other site 439375005657 Q-loop/lid; other site 439375005658 ABC transporter signature motif; other site 439375005659 Walker B; other site 439375005660 D-loop; other site 439375005661 H-loop/switch region; other site 439375005662 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375005663 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 439375005664 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375005665 Walker A/P-loop; other site 439375005666 ATP binding site [chemical binding]; other site 439375005667 Q-loop/lid; other site 439375005668 ABC transporter signature motif; other site 439375005669 Walker B; other site 439375005670 D-loop; other site 439375005671 H-loop/switch region; other site 439375005672 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439375005673 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375005674 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005675 dimer interface [polypeptide binding]; other site 439375005676 conserved gate region; other site 439375005677 putative PBP binding loops; other site 439375005678 ABC-ATPase subunit interface; other site 439375005679 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375005680 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005681 dimer interface [polypeptide binding]; other site 439375005682 conserved gate region; other site 439375005683 ABC-ATPase subunit interface; other site 439375005684 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 439375005685 EF-hand domain pair; Region: EF_hand_5; pfam13499 439375005686 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 439375005687 Ca2+ binding site [ion binding]; other site 439375005688 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 439375005689 Ca2+ binding site [ion binding]; other site 439375005690 integrase; Provisional; Region: PRK09692 439375005691 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 439375005692 active site 439375005693 Int/Topo IB signature motif; other site 439375005694 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375005695 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375005696 non-specific DNA binding site [nucleotide binding]; other site 439375005697 salt bridge; other site 439375005698 sequence-specific DNA binding site [nucleotide binding]; other site 439375005699 Predicted periplasmic protein [Function unknown]; Region: COG3904 439375005700 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 439375005701 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 439375005702 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 439375005703 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 439375005704 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 439375005705 Transporter associated domain; Region: CorC_HlyC; smart01091 439375005706 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 439375005707 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 439375005708 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 439375005709 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005710 dimer interface [polypeptide binding]; other site 439375005711 conserved gate region; other site 439375005712 putative PBP binding loops; other site 439375005713 ABC-ATPase subunit interface; other site 439375005714 sulfate transport protein; Provisional; Region: cysT; CHL00187 439375005715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005716 dimer interface [polypeptide binding]; other site 439375005717 conserved gate region; other site 439375005718 putative PBP binding loops; other site 439375005719 ABC-ATPase subunit interface; other site 439375005720 Serine hydrolase; Region: Ser_hydrolase; pfam06821 439375005721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375005722 Predicted integral membrane protein [Function unknown]; Region: COG0392 439375005723 putative cation:proton antiport protein; Provisional; Region: PRK10669 439375005724 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 439375005725 TrkA-N domain; Region: TrkA_N; pfam02254 439375005726 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 439375005727 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 439375005728 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 439375005729 Protein export membrane protein; Region: SecD_SecF; pfam02355 439375005730 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 439375005731 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439375005732 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375005733 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375005734 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 439375005735 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 439375005736 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 439375005737 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 439375005738 conserved cys residue [active] 439375005739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375005740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375005741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375005742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375005743 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375005744 dimerization interface [polypeptide binding]; other site 439375005745 Predicted small secreted protein [Function unknown]; Region: COG5510 439375005746 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 439375005747 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439375005748 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 439375005749 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439375005750 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 439375005751 substrate binding pocket [chemical binding]; other site 439375005752 FAD binding site [chemical binding]; other site 439375005753 catalytic base [active] 439375005754 cobyric acid synthase; Provisional; Region: PRK00784 439375005755 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 439375005756 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 439375005757 catalytic triad [active] 439375005758 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 439375005759 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 439375005760 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 439375005761 homotrimer interface [polypeptide binding]; other site 439375005762 Walker A motif; other site 439375005763 GTP binding site [chemical binding]; other site 439375005764 Walker B motif; other site 439375005765 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 439375005766 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 439375005767 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 439375005768 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 439375005769 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439375005770 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439375005771 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 439375005772 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 439375005773 homodimer interface [polypeptide binding]; other site 439375005774 Walker A motif; other site 439375005775 ATP binding site [chemical binding]; other site 439375005776 hydroxycobalamin binding site [chemical binding]; other site 439375005777 Walker B motif; other site 439375005778 Predicted membrane protein [Function unknown]; Region: COG2510 439375005779 hypothetical protein; Provisional; Region: PRK10621 439375005780 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375005781 tellurium resistance terB-like protein; Region: terB_like; cd07177 439375005782 metal binding site [ion binding]; metal-binding site 439375005783 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 439375005784 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 439375005785 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 439375005786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375005787 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375005788 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375005789 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375005790 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 439375005791 active site 439375005792 SAM binding site [chemical binding]; other site 439375005793 homodimer interface [polypeptide binding]; other site 439375005794 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 439375005795 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 439375005796 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 439375005797 active site 439375005798 SAM binding site [chemical binding]; other site 439375005799 homodimer interface [polypeptide binding]; other site 439375005800 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 439375005801 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 439375005802 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 439375005803 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 439375005804 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375005805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375005806 homodimer interface [polypeptide binding]; other site 439375005807 catalytic residue [active] 439375005808 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 439375005809 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439375005810 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 439375005811 ligand binding site [chemical binding]; other site 439375005812 Flavin Reductases; Region: FlaRed; cl00801 439375005813 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439375005814 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 439375005815 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 439375005816 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 439375005817 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 439375005818 active site 439375005819 SAM binding site [chemical binding]; other site 439375005820 homodimer interface [polypeptide binding]; other site 439375005821 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 439375005822 active site 439375005823 SAM binding site [chemical binding]; other site 439375005824 homodimer interface [polypeptide binding]; other site 439375005825 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 439375005826 Precorrin-8X methylmutase; Region: CbiC; pfam02570 439375005827 precorrin-3B synthase; Region: CobG; TIGR02435 439375005828 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 439375005829 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 439375005830 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 439375005831 active site 439375005832 putative homodimer interface [polypeptide binding]; other site 439375005833 SAM binding site [chemical binding]; other site 439375005834 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 439375005835 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375005836 S-adenosylmethionine binding site [chemical binding]; other site 439375005837 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 439375005838 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 439375005839 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 439375005840 FAD binding pocket [chemical binding]; other site 439375005841 FAD binding motif [chemical binding]; other site 439375005842 phosphate binding motif [ion binding]; other site 439375005843 NAD binding pocket [chemical binding]; other site 439375005844 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375005845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375005846 Walker A/P-loop; other site 439375005847 ATP binding site [chemical binding]; other site 439375005848 Q-loop/lid; other site 439375005849 ABC transporter signature motif; other site 439375005850 Walker B; other site 439375005851 D-loop; other site 439375005852 H-loop/switch region; other site 439375005853 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375005854 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375005855 Walker A/P-loop; other site 439375005856 ATP binding site [chemical binding]; other site 439375005857 Q-loop/lid; other site 439375005858 ABC transporter signature motif; other site 439375005859 Walker B; other site 439375005860 D-loop; other site 439375005861 H-loop/switch region; other site 439375005862 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375005863 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375005864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005865 dimer interface [polypeptide binding]; other site 439375005866 conserved gate region; other site 439375005867 ABC-ATPase subunit interface; other site 439375005868 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375005869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375005870 dimer interface [polypeptide binding]; other site 439375005871 conserved gate region; other site 439375005872 putative PBP binding loops; other site 439375005873 ABC-ATPase subunit interface; other site 439375005874 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375005875 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 439375005876 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 439375005877 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 439375005878 active site 439375005879 dimer interface [polypeptide binding]; other site 439375005880 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375005881 hypothetical protein; Reviewed; Region: PRK00024 439375005882 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 439375005883 MPN+ (JAMM) motif; other site 439375005884 Zinc-binding site [ion binding]; other site 439375005885 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 439375005886 active site 439375005887 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 439375005888 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 439375005889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 439375005890 Peptidase M15; Region: Peptidase_M15_3; cl01194 439375005891 aminotransferase; Validated; Region: PRK09148 439375005892 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375005893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375005894 homodimer interface [polypeptide binding]; other site 439375005895 catalytic residue [active] 439375005896 homoserine dehydrogenase; Provisional; Region: PRK06349 439375005897 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 439375005898 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 439375005899 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 439375005900 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439375005901 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375005902 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375005903 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 439375005904 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 439375005905 putative active site [active] 439375005906 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 439375005907 DHH family; Region: DHH; pfam01368 439375005908 DHHA1 domain; Region: DHHA1; pfam02272 439375005909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 439375005910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375005911 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 439375005912 dimer interface [polypeptide binding]; other site 439375005913 active site 439375005914 metal binding site [ion binding]; metal-binding site 439375005915 glutathione binding site [chemical binding]; other site 439375005916 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 439375005917 DNA-binding site [nucleotide binding]; DNA binding site 439375005918 RNA-binding motif; other site 439375005919 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 439375005920 DNA-binding site [nucleotide binding]; DNA binding site 439375005921 RNA-binding motif; other site 439375005922 Uncharacterized conserved protein [Function unknown]; Region: COG1430 439375005923 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439375005924 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439375005925 serine acetyltransferase; Provisional; Region: cysE; PRK11132 439375005926 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 439375005927 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 439375005928 trimer interface [polypeptide binding]; other site 439375005929 active site 439375005930 substrate binding site [chemical binding]; other site 439375005931 CoA binding site [chemical binding]; other site 439375005932 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 439375005933 tetracycline repressor protein TetR; Provisional; Region: PRK13756 439375005934 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375005935 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 439375005936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375005937 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375005938 putative substrate translocation pore; other site 439375005939 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 439375005940 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 439375005941 trimer interface [polypeptide binding]; other site 439375005942 putative metal binding site [ion binding]; other site 439375005943 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 439375005944 PilZ domain; Region: PilZ; pfam07238 439375005945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 439375005946 PAS domain; Region: PAS_5; pfam07310 439375005947 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 439375005948 FOG: CBS domain [General function prediction only]; Region: COG0517 439375005949 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 439375005950 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 439375005951 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 439375005952 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 439375005953 elongation factor Tu; Reviewed; Region: PRK00049 439375005954 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 439375005955 G1 box; other site 439375005956 GEF interaction site [polypeptide binding]; other site 439375005957 GTP/Mg2+ binding site [chemical binding]; other site 439375005958 Switch I region; other site 439375005959 G2 box; other site 439375005960 G3 box; other site 439375005961 Switch II region; other site 439375005962 G4 box; other site 439375005963 G5 box; other site 439375005964 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 439375005965 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 439375005966 Antibiotic Binding Site [chemical binding]; other site 439375005967 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 439375005968 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 439375005969 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 439375005970 putative homodimer interface [polypeptide binding]; other site 439375005971 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 439375005972 heterodimer interface [polypeptide binding]; other site 439375005973 homodimer interface [polypeptide binding]; other site 439375005974 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 439375005975 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 439375005976 23S rRNA interface [nucleotide binding]; other site 439375005977 L7/L12 interface [polypeptide binding]; other site 439375005978 putative thiostrepton binding site; other site 439375005979 L25 interface [polypeptide binding]; other site 439375005980 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 439375005981 mRNA/rRNA interface [nucleotide binding]; other site 439375005982 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 439375005983 23S rRNA interface [nucleotide binding]; other site 439375005984 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 439375005985 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 439375005986 L11 interface [polypeptide binding]; other site 439375005987 putative EF-Tu interaction site [polypeptide binding]; other site 439375005988 putative EF-G interaction site [polypeptide binding]; other site 439375005989 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 439375005990 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 439375005991 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 439375005992 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 439375005993 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 439375005994 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 439375005995 RPB1 interaction site [polypeptide binding]; other site 439375005996 RPB11 interaction site [polypeptide binding]; other site 439375005997 RPB10 interaction site [polypeptide binding]; other site 439375005998 RPB3 interaction site [polypeptide binding]; other site 439375005999 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 439375006000 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 439375006001 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 439375006002 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 439375006003 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 439375006004 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 439375006005 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 439375006006 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 439375006007 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 439375006008 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 439375006009 DNA binding site [nucleotide binding] 439375006010 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 439375006011 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 439375006012 S17 interaction site [polypeptide binding]; other site 439375006013 S8 interaction site; other site 439375006014 16S rRNA interaction site [nucleotide binding]; other site 439375006015 streptomycin interaction site [chemical binding]; other site 439375006016 23S rRNA interaction site [nucleotide binding]; other site 439375006017 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 439375006018 30S ribosomal protein S7; Validated; Region: PRK05302 439375006019 elongation factor G; Reviewed; Region: PRK00007 439375006020 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 439375006021 G1 box; other site 439375006022 putative GEF interaction site [polypeptide binding]; other site 439375006023 GTP/Mg2+ binding site [chemical binding]; other site 439375006024 Switch I region; other site 439375006025 G2 box; other site 439375006026 G3 box; other site 439375006027 Switch II region; other site 439375006028 G4 box; other site 439375006029 G5 box; other site 439375006030 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 439375006031 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 439375006032 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 439375006033 elongation factor Tu; Reviewed; Region: PRK00049 439375006034 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 439375006035 G1 box; other site 439375006036 GEF interaction site [polypeptide binding]; other site 439375006037 GTP/Mg2+ binding site [chemical binding]; other site 439375006038 Switch I region; other site 439375006039 G2 box; other site 439375006040 G3 box; other site 439375006041 Switch II region; other site 439375006042 G4 box; other site 439375006043 G5 box; other site 439375006044 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 439375006045 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 439375006046 Antibiotic Binding Site [chemical binding]; other site 439375006047 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 439375006048 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 439375006049 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 439375006050 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 439375006051 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 439375006052 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 439375006053 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 439375006054 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 439375006055 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 439375006056 putative translocon binding site; other site 439375006057 protein-rRNA interface [nucleotide binding]; other site 439375006058 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 439375006059 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 439375006060 G-X-X-G motif; other site 439375006061 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 439375006062 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 439375006063 23S rRNA interface [nucleotide binding]; other site 439375006064 5S rRNA interface [nucleotide binding]; other site 439375006065 putative antibiotic binding site [chemical binding]; other site 439375006066 L25 interface [polypeptide binding]; other site 439375006067 L27 interface [polypeptide binding]; other site 439375006068 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 439375006069 23S rRNA interface [nucleotide binding]; other site 439375006070 putative translocon interaction site; other site 439375006071 signal recognition particle (SRP54) interaction site; other site 439375006072 L23 interface [polypeptide binding]; other site 439375006073 trigger factor interaction site; other site 439375006074 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 439375006075 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 439375006076 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 439375006077 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 439375006078 RNA binding site [nucleotide binding]; other site 439375006079 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 439375006080 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 439375006081 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 439375006082 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 439375006083 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 439375006084 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 439375006085 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 439375006086 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 439375006087 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 439375006088 5S rRNA interface [nucleotide binding]; other site 439375006089 23S rRNA interface [nucleotide binding]; other site 439375006090 L5 interface [polypeptide binding]; other site 439375006091 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 439375006092 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 439375006093 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 439375006094 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 439375006095 23S rRNA binding site [nucleotide binding]; other site 439375006096 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 439375006097 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 439375006098 SecY translocase; Region: SecY; pfam00344 439375006099 adenylate kinase; Reviewed; Region: adk; PRK00279 439375006100 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 439375006101 AMP-binding site [chemical binding]; other site 439375006102 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 439375006103 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 439375006104 30S ribosomal protein S13; Region: bact_S13; TIGR03631 439375006105 30S ribosomal protein S11; Validated; Region: PRK05309 439375006106 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 439375006107 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 439375006108 alphaNTD homodimer interface [polypeptide binding]; other site 439375006109 alphaNTD - beta interaction site [polypeptide binding]; other site 439375006110 alphaNTD - beta' interaction site [polypeptide binding]; other site 439375006111 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 439375006112 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 439375006113 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 439375006114 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439375006115 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 439375006116 protein binding site [polypeptide binding]; other site 439375006117 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 439375006118 protein binding site [polypeptide binding]; other site 439375006119 recombination factor protein RarA; Reviewed; Region: PRK13342 439375006120 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006121 Walker A motif; other site 439375006122 ATP binding site [chemical binding]; other site 439375006123 Walker B motif; other site 439375006124 arginine finger; other site 439375006125 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 439375006126 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375006127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375006128 catalytic residue [active] 439375006129 putative outer membrane lipoprotein; Provisional; Region: PRK10510 439375006130 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439375006131 ligand binding site [chemical binding]; other site 439375006132 recombinase A; Provisional; Region: recA; PRK09354 439375006133 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 439375006134 hexamer interface [polypeptide binding]; other site 439375006135 Walker A motif; other site 439375006136 ATP binding site [chemical binding]; other site 439375006137 Walker B motif; other site 439375006138 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 439375006139 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 439375006140 motif 1; other site 439375006141 active site 439375006142 motif 2; other site 439375006143 motif 3; other site 439375006144 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 439375006145 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 439375006146 NIPSNAP; Region: NIPSNAP; pfam07978 439375006147 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375006148 dimerization interface [polypeptide binding]; other site 439375006149 putative DNA binding site [nucleotide binding]; other site 439375006150 putative Zn2+ binding site [ion binding]; other site 439375006151 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375006152 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 439375006153 putative C-terminal domain interface [polypeptide binding]; other site 439375006154 putative GSH binding site (G-site) [chemical binding]; other site 439375006155 putative dimer interface [polypeptide binding]; other site 439375006156 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 439375006157 dimer interface [polypeptide binding]; other site 439375006158 N-terminal domain interface [polypeptide binding]; other site 439375006159 putative substrate binding pocket (H-site) [chemical binding]; other site 439375006160 isocitrate dehydrogenase; Validated; Region: PRK08299 439375006161 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 439375006162 intracellular protease, PfpI family; Region: PfpI; TIGR01382 439375006163 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 439375006164 conserved cys residue [active] 439375006165 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 439375006166 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 439375006167 glutamate racemase; Provisional; Region: PRK00865 439375006168 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375006169 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375006170 active site 439375006171 catalytic tetrad [active] 439375006172 Low affinity iron permease; Region: Iron_permease; cl12096 439375006173 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 439375006174 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 439375006175 active site 439375006176 substrate binding site [chemical binding]; other site 439375006177 coenzyme B12 binding site [chemical binding]; other site 439375006178 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 439375006179 B12 binding site [chemical binding]; other site 439375006180 cobalt ligand [ion binding]; other site 439375006181 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 439375006182 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375006183 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 439375006184 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439375006185 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 439375006186 carboxyltransferase (CT) interaction site; other site 439375006187 biotinylation site [posttranslational modification]; other site 439375006188 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439375006189 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439375006190 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439375006191 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375006192 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375006193 non-specific DNA binding site [nucleotide binding]; other site 439375006194 salt bridge; other site 439375006195 sequence-specific DNA binding site [nucleotide binding]; other site 439375006196 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 439375006197 Domain of unknown function (DUF955); Region: DUF955; pfam06114 439375006198 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 439375006199 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 439375006200 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 439375006201 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 439375006202 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 439375006203 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 439375006204 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 439375006205 DNA binding residues [nucleotide binding] 439375006206 putative dimer interface [polypeptide binding]; other site 439375006207 Predicted membrane protein [Function unknown]; Region: COG3503 439375006208 Uncharacterized conserved protein [Function unknown]; Region: COG1434 439375006209 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 439375006210 putative active site [active] 439375006211 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 439375006212 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 439375006213 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 439375006214 Uncharacterized conserved protein [Function unknown]; Region: COG5458 439375006215 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 439375006216 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 439375006217 Sporulation related domain; Region: SPOR; pfam05036 439375006218 Uncharacterized conserved protein [Function unknown]; Region: COG2127 439375006219 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 439375006220 Clp amino terminal domain; Region: Clp_N; pfam02861 439375006221 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006222 Walker A motif; other site 439375006223 ATP binding site [chemical binding]; other site 439375006224 Walker B motif; other site 439375006225 arginine finger; other site 439375006226 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006227 Walker A motif; other site 439375006228 ATP binding site [chemical binding]; other site 439375006229 Walker B motif; other site 439375006230 arginine finger; other site 439375006231 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 439375006232 AzlC protein; Region: AzlC; pfam03591 439375006233 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 439375006234 HIT family signature motif; other site 439375006235 catalytic residue [active] 439375006236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 439375006237 Protein of unknown function, DUF482; Region: DUF482; pfam04339 439375006238 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 439375006239 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 439375006240 putative active site [active] 439375006241 catalytic site [active] 439375006242 putative metal binding site [ion binding]; other site 439375006243 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 439375006244 homotrimer interaction site [polypeptide binding]; other site 439375006245 putative active site [active] 439375006246 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 439375006247 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 439375006248 rRNA interaction site [nucleotide binding]; other site 439375006249 S8 interaction site; other site 439375006250 putative laminin-1 binding site; other site 439375006251 elongation factor Ts; Provisional; Region: tsf; PRK09377 439375006252 UBA/TS-N domain; Region: UBA; pfam00627 439375006253 Elongation factor TS; Region: EF_TS; pfam00889 439375006254 Elongation factor TS; Region: EF_TS; pfam00889 439375006255 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 439375006256 putative nucleotide binding site [chemical binding]; other site 439375006257 uridine monophosphate binding site [chemical binding]; other site 439375006258 homohexameric interface [polypeptide binding]; other site 439375006259 ribosome recycling factor; Reviewed; Region: frr; PRK00083 439375006260 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 439375006261 hinge region; other site 439375006262 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 439375006263 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 439375006264 catalytic residue [active] 439375006265 putative FPP diphosphate binding site; other site 439375006266 putative FPP binding hydrophobic cleft; other site 439375006267 dimer interface [polypeptide binding]; other site 439375006268 putative IPP diphosphate binding site; other site 439375006269 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 439375006270 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 439375006271 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 439375006272 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 439375006273 active site 439375006274 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 439375006275 protein binding site [polypeptide binding]; other site 439375006276 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 439375006277 putative substrate binding region [chemical binding]; other site 439375006278 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 439375006279 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 439375006280 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439375006281 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439375006282 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439375006283 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439375006284 Surface antigen; Region: Bac_surface_Ag; pfam01103 439375006285 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 439375006286 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 439375006287 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 439375006288 trimer interface [polypeptide binding]; other site 439375006289 active site 439375006290 UDP-GlcNAc binding site [chemical binding]; other site 439375006291 lipid binding site [chemical binding]; lipid-binding site 439375006292 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 439375006293 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 439375006294 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 439375006295 active site 439375006296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 439375006297 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 439375006298 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 439375006299 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 439375006300 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 439375006301 dimer interface [polypeptide binding]; other site 439375006302 active site 439375006303 citrylCoA binding site [chemical binding]; other site 439375006304 NADH binding [chemical binding]; other site 439375006305 cationic pore residues; other site 439375006306 oxalacetate/citrate binding site [chemical binding]; other site 439375006307 coenzyme A binding site [chemical binding]; other site 439375006308 catalytic triad [active] 439375006309 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 439375006310 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375006311 active site 439375006312 HIGH motif; other site 439375006313 nucleotide binding site [chemical binding]; other site 439375006314 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 439375006315 active site 439375006316 KMSKS motif; other site 439375006317 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 439375006318 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 439375006319 Competence protein; Region: Competence; pfam03772 439375006320 LexA repressor; Validated; Region: PRK00215 439375006321 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 439375006322 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 439375006323 Catalytic site [active] 439375006324 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 439375006325 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 439375006326 dimer interface [polypeptide binding]; other site 439375006327 putative functional site; other site 439375006328 putative MPT binding site; other site 439375006329 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 439375006330 trimer interface [polypeptide binding]; other site 439375006331 dimer interface [polypeptide binding]; other site 439375006332 putative active site [active] 439375006333 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 439375006334 active site 439375006335 ribulose/triose binding site [chemical binding]; other site 439375006336 phosphate binding site [ion binding]; other site 439375006337 substrate (anthranilate) binding pocket [chemical binding]; other site 439375006338 product (indole) binding pocket [chemical binding]; other site 439375006339 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 439375006340 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 439375006341 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 439375006342 SurA N-terminal domain; Region: SurA_N_3; cl07813 439375006343 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 439375006344 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 439375006345 triosephosphate isomerase; Provisional; Region: PRK14565 439375006346 substrate binding site [chemical binding]; other site 439375006347 dimer interface [polypeptide binding]; other site 439375006348 catalytic triad [active] 439375006349 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 439375006350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375006351 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375006352 CTP synthetase; Validated; Region: pyrG; PRK05380 439375006353 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 439375006354 Catalytic site [active] 439375006355 active site 439375006356 UTP binding site [chemical binding]; other site 439375006357 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 439375006358 active site 439375006359 putative oxyanion hole; other site 439375006360 catalytic triad [active] 439375006361 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 439375006362 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 439375006363 enolase; Provisional; Region: eno; PRK00077 439375006364 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 439375006365 dimer interface [polypeptide binding]; other site 439375006366 metal binding site [ion binding]; metal-binding site 439375006367 substrate binding pocket [chemical binding]; other site 439375006368 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 439375006369 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 439375006370 Septum formation initiator; Region: DivIC; pfam04977 439375006371 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 439375006372 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 439375006373 tetramer interface [polypeptide binding]; other site 439375006374 TPP-binding site [chemical binding]; other site 439375006375 heterodimer interface [polypeptide binding]; other site 439375006376 phosphorylation loop region [posttranslational modification] 439375006377 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 439375006378 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375006379 E3 interaction surface; other site 439375006380 lipoyl attachment site [posttranslational modification]; other site 439375006381 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 439375006382 alpha subunit interface [polypeptide binding]; other site 439375006383 TPP binding site [chemical binding]; other site 439375006384 heterodimer interface [polypeptide binding]; other site 439375006385 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375006386 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375006387 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 439375006388 E3 interaction surface; other site 439375006389 lipoyl attachment site [posttranslational modification]; other site 439375006390 e3 binding domain; Region: E3_binding; pfam02817 439375006391 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 439375006392 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 439375006393 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439375006394 Coenzyme A binding pocket [chemical binding]; other site 439375006395 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 439375006396 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 439375006397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375006398 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439375006399 lipoyl synthase; Provisional; Region: PRK05481 439375006400 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375006401 FeS/SAM binding site; other site 439375006402 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 439375006403 putative coenzyme Q binding site [chemical binding]; other site 439375006404 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 439375006405 classical (c) SDRs; Region: SDR_c; cd05233 439375006406 NAD(P) binding site [chemical binding]; other site 439375006407 active site 439375006408 Competence-damaged protein; Region: CinA; pfam02464 439375006409 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 439375006410 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 439375006411 substrate binding site; other site 439375006412 dimer interface; other site 439375006413 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 439375006414 homotrimer interaction site [polypeptide binding]; other site 439375006415 zinc binding site [ion binding]; other site 439375006416 CDP-binding sites; other site 439375006417 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 439375006418 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 439375006419 FMN binding site [chemical binding]; other site 439375006420 active site 439375006421 catalytic residues [active] 439375006422 substrate binding site [chemical binding]; other site 439375006423 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439375006424 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375006425 dimer interface [polypeptide binding]; other site 439375006426 phosphorylation site [posttranslational modification] 439375006427 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375006428 ATP binding site [chemical binding]; other site 439375006429 Mg2+ binding site [ion binding]; other site 439375006430 G-X-G motif; other site 439375006431 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 439375006432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375006433 active site 439375006434 phosphorylation site [posttranslational modification] 439375006435 intermolecular recognition site; other site 439375006436 dimerization interface [polypeptide binding]; other site 439375006437 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006438 Walker A motif; other site 439375006439 ATP binding site [chemical binding]; other site 439375006440 Walker B motif; other site 439375006441 arginine finger; other site 439375006442 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 439375006443 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 439375006444 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 439375006445 putative lipid kinase; Reviewed; Region: PRK13057 439375006446 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 439375006447 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 439375006448 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 439375006449 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 439375006450 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 439375006451 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 439375006452 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 439375006453 TMP-binding site; other site 439375006454 ATP-binding site [chemical binding]; other site 439375006455 DNA polymerase III subunit delta'; Validated; Region: PRK09112 439375006456 DNA polymerase III subunit delta'; Validated; Region: PRK08485 439375006457 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 439375006458 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 439375006459 active site 439375006460 HIGH motif; other site 439375006461 KMSKS motif; other site 439375006462 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 439375006463 tRNA binding surface [nucleotide binding]; other site 439375006464 anticodon binding site; other site 439375006465 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 439375006466 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 439375006467 active site 439375006468 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 439375006469 putative hydrolase; Provisional; Region: PRK02113 439375006470 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 439375006471 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375006472 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 439375006473 Walker A/P-loop; other site 439375006474 ATP binding site [chemical binding]; other site 439375006475 Q-loop/lid; other site 439375006476 ABC transporter signature motif; other site 439375006477 Walker B; other site 439375006478 D-loop; other site 439375006479 H-loop/switch region; other site 439375006480 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 439375006481 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 439375006482 active site 439375006483 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375006484 EamA-like transporter family; Region: EamA; pfam00892 439375006485 EamA-like transporter family; Region: EamA; pfam00892 439375006486 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 439375006487 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375006488 motif II; other site 439375006489 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 439375006490 glutamine synthetase; Provisional; Region: glnA; PRK09469 439375006491 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 439375006492 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 439375006493 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 439375006494 Nitrogen regulatory protein P-II; Region: P-II; smart00938 439375006495 Uncharacterized conserved protein [Function unknown]; Region: COG0062 439375006496 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 439375006497 putative substrate binding site [chemical binding]; other site 439375006498 putative ATP binding site [chemical binding]; other site 439375006499 phosphoglycolate phosphatase; Provisional; Region: PRK13222 439375006500 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375006501 motif II; other site 439375006502 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 439375006503 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439375006504 active site 439375006505 dimer interface [polypeptide binding]; other site 439375006506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 439375006507 glutathione reductase; Validated; Region: PRK06116 439375006508 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375006509 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439375006510 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 439375006511 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 439375006512 NAD synthetase; Provisional; Region: PRK13981 439375006513 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 439375006514 multimer interface [polypeptide binding]; other site 439375006515 active site 439375006516 catalytic triad [active] 439375006517 protein interface 1 [polypeptide binding]; other site 439375006518 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 439375006519 homodimer interface [polypeptide binding]; other site 439375006520 NAD binding pocket [chemical binding]; other site 439375006521 ATP binding pocket [chemical binding]; other site 439375006522 Mg binding site [ion binding]; other site 439375006523 active-site loop [active] 439375006524 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 439375006525 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375006526 active site 439375006527 HIGH motif; other site 439375006528 nucleotide binding site [chemical binding]; other site 439375006529 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 439375006530 active site 439375006531 KMSKS motif; other site 439375006532 malic enzyme; Reviewed; Region: PRK12862 439375006533 Malic enzyme, N-terminal domain; Region: malic; pfam00390 439375006534 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 439375006535 putative NAD(P) binding site [chemical binding]; other site 439375006536 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 439375006537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 439375006538 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 439375006539 putative NAD(P) binding site [chemical binding]; other site 439375006540 putative active site [active] 439375006541 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 439375006542 dimer interface [polypeptide binding]; other site 439375006543 active site 439375006544 coenzyme A binding site [chemical binding]; other site 439375006545 citrylCoA binding site [chemical binding]; other site 439375006546 oxalacetate/citrate binding site [chemical binding]; other site 439375006547 catalytic triad [active] 439375006548 Bacillus subtilis (Bs) citrate synthase CS-I_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 439375006549 dimer interface [polypeptide binding]; other site 439375006550 Citrate synthase; Region: Citrate_synt; pfam00285 439375006551 active site 439375006552 citrylCoA binding site [chemical binding]; other site 439375006553 oxalacetate/citrate binding site [chemical binding]; other site 439375006554 coenzyme A binding site [chemical binding]; other site 439375006555 catalytic triad [active] 439375006556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375006557 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 439375006558 putative active site [active] 439375006559 putative metal binding site [ion binding]; other site 439375006560 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 439375006561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375006562 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 439375006563 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 439375006564 active site 439375006565 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 439375006566 anti sigma factor interaction site; other site 439375006567 regulatory phosphorylation site [posttranslational modification]; other site 439375006568 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 439375006569 Permease; Region: Permease; pfam02405 439375006570 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 439375006571 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 439375006572 Walker A/P-loop; other site 439375006573 ATP binding site [chemical binding]; other site 439375006574 Q-loop/lid; other site 439375006575 ABC transporter signature motif; other site 439375006576 Walker B; other site 439375006577 D-loop; other site 439375006578 H-loop/switch region; other site 439375006579 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 439375006580 mce related protein; Region: MCE; pfam02470 439375006581 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 439375006582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 439375006583 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 439375006584 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 439375006585 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 439375006586 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 439375006587 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 439375006588 catalytic loop [active] 439375006589 iron binding site [ion binding]; other site 439375006590 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 439375006591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375006592 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 439375006593 dihydropteroate synthase; Region: DHPS; TIGR01496 439375006594 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 439375006595 substrate binding pocket [chemical binding]; other site 439375006596 dimer interface [polypeptide binding]; other site 439375006597 inhibitor binding site; inhibition site 439375006598 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 439375006599 homooctamer interface [polypeptide binding]; other site 439375006600 active site 439375006601 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 439375006602 catalytic center binding site [active] 439375006603 ATP binding site [chemical binding]; other site 439375006604 Domain of unknown function (DUF697); Region: DUF697; cl12064 439375006605 YcjX-like family, DUF463; Region: DUF463; cl01193 439375006606 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 439375006607 catalytic core [active] 439375006608 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 439375006609 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 439375006610 PAS domain; Region: PAS_9; pfam13426 439375006611 PAS domain; Region: PAS; smart00091 439375006612 PAS fold; Region: PAS_4; pfam08448 439375006613 putative active site [active] 439375006614 heme pocket [chemical binding]; other site 439375006615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375006616 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375006617 dimer interface [polypeptide binding]; other site 439375006618 phosphorylation site [posttranslational modification] 439375006619 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375006620 ATP binding site [chemical binding]; other site 439375006621 Mg2+ binding site [ion binding]; other site 439375006622 G-X-G motif; other site 439375006623 Response regulator receiver domain; Region: Response_reg; pfam00072 439375006624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375006625 active site 439375006626 phosphorylation site [posttranslational modification] 439375006627 intermolecular recognition site; other site 439375006628 dimerization interface [polypeptide binding]; other site 439375006629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375006630 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 439375006631 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 439375006632 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 439375006633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 439375006634 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439375006635 Beta-lactamase; Region: Beta-lactamase; pfam00144 439375006636 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 439375006637 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439375006638 PRC-barrel domain; Region: PRC; pfam05239 439375006639 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 439375006640 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 439375006641 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439375006642 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 439375006643 active site 439375006644 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439375006645 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439375006646 TSCPD domain; Region: TSCPD; pfam12637 439375006647 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 439375006648 nudix motif; other site 439375006649 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375006650 active site 439375006651 Universal stress protein family; Region: Usp; pfam00582 439375006652 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 439375006653 Ligand Binding Site [chemical binding]; other site 439375006654 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 439375006655 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 439375006656 putative MPT binding site; other site 439375006657 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 439375006658 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439375006659 mechanosensitive channel MscS; Provisional; Region: PRK10334 439375006660 Conserved TM helix; Region: TM_helix; pfam05552 439375006661 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439375006662 threonine dehydratase; Validated; Region: PRK08639 439375006663 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 439375006664 tetramer interface [polypeptide binding]; other site 439375006665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375006666 catalytic residue [active] 439375006667 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 439375006668 putative Ile/Val binding site [chemical binding]; other site 439375006669 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 439375006670 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 439375006671 ATP binding site [chemical binding]; other site 439375006672 Mg++ binding site [ion binding]; other site 439375006673 motif III; other site 439375006674 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375006675 nucleotide binding region [chemical binding]; other site 439375006676 ATP-binding site [chemical binding]; other site 439375006677 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 439375006678 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 439375006679 dimer interface [polypeptide binding]; other site 439375006680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375006681 catalytic residue [active] 439375006682 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 439375006683 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 439375006684 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 439375006685 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 439375006686 active site residue [active] 439375006687 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 439375006688 active site residue [active] 439375006689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375006690 Coenzyme A binding pocket [chemical binding]; other site 439375006691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375006692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375006693 metal binding site [ion binding]; metal-binding site 439375006694 active site 439375006695 I-site; other site 439375006696 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 439375006697 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 439375006698 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439375006699 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 439375006700 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375006701 S-adenosylmethionine binding site [chemical binding]; other site 439375006702 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 439375006703 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 439375006704 UDP-glucose 4-epimerase; Region: PLN02240 439375006705 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 439375006706 NAD binding site [chemical binding]; other site 439375006707 homodimer interface [polypeptide binding]; other site 439375006708 active site 439375006709 substrate binding site [chemical binding]; other site 439375006710 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 439375006711 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 439375006712 homodimer interface [polypeptide binding]; other site 439375006713 metal binding site [ion binding]; metal-binding site 439375006714 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 439375006715 homodimer interface [polypeptide binding]; other site 439375006716 active site 439375006717 putative chemical substrate binding site [chemical binding]; other site 439375006718 metal binding site [ion binding]; metal-binding site 439375006719 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 439375006720 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 439375006721 putative FMN binding site [chemical binding]; other site 439375006722 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 439375006723 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 439375006724 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 439375006725 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 439375006726 active site 439375006727 dimer interface [polypeptide binding]; other site 439375006728 motif 1; other site 439375006729 motif 2; other site 439375006730 motif 3; other site 439375006731 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 439375006732 anticodon binding site; other site 439375006733 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 439375006734 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 439375006735 Sporulation related domain; Region: SPOR; pfam05036 439375006736 hypothetical protein; Validated; Region: PRK00041 439375006737 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 439375006738 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 439375006739 trimerization site [polypeptide binding]; other site 439375006740 active site 439375006741 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 439375006742 GTP cyclohydrolase I; Provisional; Region: PLN03044 439375006743 active site 439375006744 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 439375006745 hypothetical protein; Provisional; Region: PRK10279 439375006746 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 439375006747 nucleophile elbow; other site 439375006748 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 439375006749 active site 439375006750 catalytic residues [active] 439375006751 DNA binding site [nucleotide binding] 439375006752 Int/Topo IB signature motif; other site 439375006753 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 439375006754 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375006755 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 439375006756 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 439375006757 putative active site [active] 439375006758 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375006759 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 439375006760 Walker A/P-loop; other site 439375006761 ATP binding site [chemical binding]; other site 439375006762 Q-loop/lid; other site 439375006763 ABC transporter signature motif; other site 439375006764 Walker B; other site 439375006765 D-loop; other site 439375006766 H-loop/switch region; other site 439375006767 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 439375006768 CoA-transferase family III; Region: CoA_transf_3; pfam02515 439375006769 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 439375006770 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439375006771 FAD binding site [chemical binding]; other site 439375006772 substrate binding pocket [chemical binding]; other site 439375006773 catalytic base [active] 439375006774 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375006775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375006776 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 439375006777 dimerization interface [polypeptide binding]; other site 439375006778 substrate binding pocket [chemical binding]; other site 439375006779 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 439375006780 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 439375006781 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 439375006782 multidrug efflux protein; Reviewed; Region: PRK09579 439375006783 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375006784 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375006785 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375006786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375006787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375006788 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 439375006789 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 439375006790 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 439375006791 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 439375006792 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 439375006793 active site 439375006794 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 439375006795 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 439375006796 active site 439375006797 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 439375006798 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 439375006799 active site 439375006800 (T/H)XGH motif; other site 439375006801 DNA gyrase subunit A; Validated; Region: PRK05560 439375006802 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 439375006803 CAP-like domain; other site 439375006804 active site 439375006805 primary dimer interface [polypeptide binding]; other site 439375006806 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439375006807 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439375006808 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439375006809 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439375006810 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439375006811 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 439375006812 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 439375006813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375006814 dimer interface [polypeptide binding]; other site 439375006815 conserved gate region; other site 439375006816 ABC-ATPase subunit interface; other site 439375006817 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 439375006818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375006819 dimer interface [polypeptide binding]; other site 439375006820 conserved gate region; other site 439375006821 putative PBP binding loops; other site 439375006822 ABC-ATPase subunit interface; other site 439375006823 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 439375006824 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375006825 substrate binding pocket [chemical binding]; other site 439375006826 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 439375006827 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 439375006828 Walker A/P-loop; other site 439375006829 ATP binding site [chemical binding]; other site 439375006830 Q-loop/lid; other site 439375006831 ABC transporter signature motif; other site 439375006832 Walker B; other site 439375006833 D-loop; other site 439375006834 H-loop/switch region; other site 439375006835 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 439375006836 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 439375006837 active site 439375006838 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 439375006839 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 439375006840 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 439375006841 active site 439375006842 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 439375006843 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 439375006844 trimer interface [polypeptide binding]; other site 439375006845 active site 439375006846 substrate binding site [chemical binding]; other site 439375006847 CoA binding site [chemical binding]; other site 439375006848 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 439375006849 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375006850 Walker A/P-loop; other site 439375006851 ATP binding site [chemical binding]; other site 439375006852 Q-loop/lid; other site 439375006853 ABC transporter signature motif; other site 439375006854 Walker B; other site 439375006855 D-loop; other site 439375006856 H-loop/switch region; other site 439375006857 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 439375006858 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375006859 Walker A/P-loop; other site 439375006860 ATP binding site [chemical binding]; other site 439375006861 Q-loop/lid; other site 439375006862 ABC transporter signature motif; other site 439375006863 Walker B; other site 439375006864 D-loop; other site 439375006865 H-loop/switch region; other site 439375006866 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375006867 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 439375006868 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 439375006869 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 439375006870 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 439375006871 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 439375006872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375006873 DNA-binding site [nucleotide binding]; DNA binding site 439375006874 UTRA domain; Region: UTRA; pfam07702 439375006875 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 439375006876 ArsC family; Region: ArsC; pfam03960 439375006877 catalytic residues [active] 439375006878 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 439375006879 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 439375006880 dimer interface [polypeptide binding]; other site 439375006881 ssDNA binding site [nucleotide binding]; other site 439375006882 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439375006883 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 439375006884 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 439375006885 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 439375006886 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 439375006887 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375006888 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 439375006889 dimer interface [polypeptide binding]; other site 439375006890 active site 439375006891 catalytic residue [active] 439375006892 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 439375006893 IHF dimer interface [polypeptide binding]; other site 439375006894 IHF - DNA interface [nucleotide binding]; other site 439375006895 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 439375006896 Found in ATP-dependent protease La (LON); Region: LON; smart00464 439375006897 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006898 Walker A motif; other site 439375006899 ATP binding site [chemical binding]; other site 439375006900 Walker B motif; other site 439375006901 arginine finger; other site 439375006902 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 439375006903 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 439375006904 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 439375006905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006906 Walker A motif; other site 439375006907 ATP binding site [chemical binding]; other site 439375006908 Walker B motif; other site 439375006909 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439375006910 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 439375006911 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 439375006912 oligomer interface [polypeptide binding]; other site 439375006913 active site residues [active] 439375006914 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 439375006915 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 439375006916 HflX GTPase family; Region: HflX; cd01878 439375006917 G1 box; other site 439375006918 GTP/Mg2+ binding site [chemical binding]; other site 439375006919 Switch I region; other site 439375006920 G2 box; other site 439375006921 G3 box; other site 439375006922 Switch II region; other site 439375006923 G4 box; other site 439375006924 G5 box; other site 439375006925 bacterial Hfq-like; Region: Hfq; cd01716 439375006926 hexamer interface [polypeptide binding]; other site 439375006927 Sm1 motif; other site 439375006928 RNA binding site [nucleotide binding]; other site 439375006929 Sm2 motif; other site 439375006930 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 439375006931 TrkA-N domain; Region: TrkA_N; pfam02254 439375006932 TrkA-C domain; Region: TrkA_C; pfam02080 439375006933 TrkA-N domain; Region: TrkA_N; pfam02254 439375006934 TrkA-C domain; Region: TrkA_C; pfam02080 439375006935 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439375006936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375006937 active site 439375006938 phosphorylation site [posttranslational modification] 439375006939 intermolecular recognition site; other site 439375006940 dimerization interface [polypeptide binding]; other site 439375006941 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375006942 Walker A motif; other site 439375006943 ATP binding site [chemical binding]; other site 439375006944 Walker B motif; other site 439375006945 arginine finger; other site 439375006946 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439375006947 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 439375006948 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 439375006949 dimerization interface [polypeptide binding]; other site 439375006950 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375006951 dimer interface [polypeptide binding]; other site 439375006952 phosphorylation site [posttranslational modification] 439375006953 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375006954 ATP binding site [chemical binding]; other site 439375006955 Mg2+ binding site [ion binding]; other site 439375006956 G-X-G motif; other site 439375006957 putative acetyltransferase YhhY; Provisional; Region: PRK10140 439375006958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375006959 Coenzyme A binding pocket [chemical binding]; other site 439375006960 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 439375006961 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375006962 substrate binding pocket [chemical binding]; other site 439375006963 membrane-bound complex binding site; other site 439375006964 hinge residues; other site 439375006965 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 439375006966 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439375006967 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 439375006968 active site 439375006969 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439375006970 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375006971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375006972 Walker A/P-loop; other site 439375006973 ATP binding site [chemical binding]; other site 439375006974 Q-loop/lid; other site 439375006975 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375006976 ABC transporter signature motif; other site 439375006977 Walker B; other site 439375006978 D-loop; other site 439375006979 ABC transporter; Region: ABC_tran_2; pfam12848 439375006980 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375006981 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 439375006982 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439375006983 GAF domain; Region: GAF; pfam01590 439375006984 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375006985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375006986 metal binding site [ion binding]; metal-binding site 439375006987 active site 439375006988 I-site; other site 439375006989 Porin subfamily; Region: Porin_2; pfam02530 439375006990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 439375006991 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375006992 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375006993 fumarate hydratase; Provisional; Region: PRK15389 439375006994 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 439375006995 Fumarase C-terminus; Region: Fumerase_C; pfam05683 439375006996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375006997 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 439375006998 NAD(P) binding site [chemical binding]; other site 439375006999 active site 439375007000 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375007001 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375007002 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375007003 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375007004 MarR family; Region: MarR_2; pfam12802 439375007005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 439375007006 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 439375007007 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375007008 FeS/SAM binding site; other site 439375007009 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 439375007010 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375007011 EamA-like transporter family; Region: EamA; pfam00892 439375007012 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 439375007013 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 439375007014 GTP binding site; other site 439375007015 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 439375007016 Walker A motif; other site 439375007017 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375007018 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375007019 substrate binding pocket [chemical binding]; other site 439375007020 membrane-bound complex binding site; other site 439375007021 hinge residues; other site 439375007022 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375007023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007024 dimer interface [polypeptide binding]; other site 439375007025 conserved gate region; other site 439375007026 putative PBP binding loops; other site 439375007027 ABC-ATPase subunit interface; other site 439375007028 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375007029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007030 dimer interface [polypeptide binding]; other site 439375007031 conserved gate region; other site 439375007032 putative PBP binding loops; other site 439375007033 ABC-ATPase subunit interface; other site 439375007034 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375007035 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 439375007036 putative C-terminal domain interface [polypeptide binding]; other site 439375007037 putative GSH binding site (G-site) [chemical binding]; other site 439375007038 putative dimer interface [polypeptide binding]; other site 439375007039 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 439375007040 putative N-terminal domain interface [polypeptide binding]; other site 439375007041 putative dimer interface [polypeptide binding]; other site 439375007042 putative substrate binding pocket (H-site) [chemical binding]; other site 439375007043 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 439375007044 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439375007045 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 439375007046 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 439375007047 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 439375007048 HIGH motif; other site 439375007049 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 439375007050 active site 439375007051 KMSKS motif; other site 439375007052 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 439375007053 tRNA binding surface [nucleotide binding]; other site 439375007054 anticodon binding site; other site 439375007055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 439375007056 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 439375007057 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 439375007058 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375007059 S-adenosylmethionine binding site [chemical binding]; other site 439375007060 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375007061 metal-binding site [ion binding] 439375007062 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 439375007063 TfoX N-terminal domain; Region: TfoX_N; pfam04993 439375007064 helicase 45; Provisional; Region: PTZ00424 439375007065 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 439375007066 ATP binding site [chemical binding]; other site 439375007067 Mg++ binding site [ion binding]; other site 439375007068 motif III; other site 439375007069 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375007070 nucleotide binding region [chemical binding]; other site 439375007071 ATP-binding site [chemical binding]; other site 439375007072 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 439375007073 ATP-NAD kinase; Region: NAD_kinase; pfam01513 439375007074 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 439375007075 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 439375007076 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 439375007077 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375007078 catalytic residue [active] 439375007079 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 439375007080 FeS assembly protein SufD; Region: sufD; TIGR01981 439375007081 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 439375007082 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 439375007083 Walker A/P-loop; other site 439375007084 ATP binding site [chemical binding]; other site 439375007085 Q-loop/lid; other site 439375007086 ABC transporter signature motif; other site 439375007087 Walker B; other site 439375007088 D-loop; other site 439375007089 H-loop/switch region; other site 439375007090 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 439375007091 putative ABC transporter; Region: ycf24; CHL00085 439375007092 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 439375007093 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 439375007094 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375007095 catalytic residue [active] 439375007096 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 439375007097 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 439375007098 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 439375007099 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 439375007100 active site 439375007101 HIGH motif; other site 439375007102 dimer interface [polypeptide binding]; other site 439375007103 KMSKS motif; other site 439375007104 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 439375007105 RNA binding surface [nucleotide binding]; other site 439375007106 AsmA family; Region: AsmA; pfam05170 439375007107 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 439375007108 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 439375007109 catalytic triad [active] 439375007110 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 439375007111 dinuclear metal binding motif [ion binding]; other site 439375007112 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 439375007113 Peptidase family M23; Region: Peptidase_M23; pfam01551 439375007114 peptide chain release factor 2; Provisional; Region: PRK07342 439375007115 This domain is found in peptide chain release factors; Region: PCRF; smart00937 439375007116 RF-1 domain; Region: RF-1; pfam00472 439375007117 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 439375007118 Transglycosylase; Region: Transgly; pfam00912 439375007119 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 439375007120 AMIN domain; Region: AMIN; pfam11741 439375007121 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 439375007122 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 439375007123 active site 439375007124 metal binding site [ion binding]; metal-binding site 439375007125 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 439375007126 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 439375007127 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 439375007128 aspartate aminotransferase; Provisional; Region: PRK05764 439375007129 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375007130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375007131 homodimer interface [polypeptide binding]; other site 439375007132 catalytic residue [active] 439375007133 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 439375007134 Peptidase family M48; Region: Peptidase_M48; cl12018 439375007135 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 439375007136 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 439375007137 catalytic residues [active] 439375007138 Dehydroquinase class II; Region: DHquinase_II; pfam01220 439375007139 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 439375007140 trimer interface [polypeptide binding]; other site 439375007141 active site 439375007142 dimer interface [polypeptide binding]; other site 439375007143 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 439375007144 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 439375007145 carboxyltransferase (CT) interaction site; other site 439375007146 biotinylation site [posttranslational modification]; other site 439375007147 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 439375007148 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375007149 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 439375007150 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439375007151 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 439375007152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 439375007153 NADH dehydrogenase; Validated; Region: PRK08183 439375007154 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 439375007155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375007156 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439375007157 Coenzyme A binding pocket [chemical binding]; other site 439375007158 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 439375007159 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 439375007160 GatB domain; Region: GatB_Yqey; smart00845 439375007161 trigger factor; Provisional; Region: tig; PRK01490 439375007162 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 439375007163 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 439375007164 DNA polymerase IV; Reviewed; Region: PRK03103 439375007165 Y-family of DNA polymerases; Region: PolY; cd00424 439375007166 active site 439375007167 DNA binding site [nucleotide binding] 439375007168 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 439375007169 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 439375007170 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 439375007171 catalytic residue [active] 439375007172 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 439375007173 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 439375007174 Phage Tail Protein X; Region: Phage_tail_X; cl02088 439375007175 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 439375007176 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 439375007177 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 439375007178 Phage tail tube protein FII; Region: Phage_tube; pfam04985 439375007179 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 439375007180 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 439375007181 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 439375007182 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 439375007183 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 439375007184 Baseplate J-like protein; Region: Baseplate_J; cl01294 439375007185 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 439375007186 PAAR motif; Region: PAAR_motif; pfam05488 439375007187 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 439375007188 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 439375007189 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 439375007190 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 439375007191 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 439375007192 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 439375007193 Homeodomain-like domain; Region: HTH_23; cl17451 439375007194 Phage DNA packaging protein, Nu1 subunit of terminase [DNA replication, recombination, and repair]; Region: COG4220 439375007195 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cd08000 439375007196 Transcription antiterminator [Transcription]; Region: NusG; COG0250 439375007197 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 439375007198 heterodimer interface [polypeptide binding]; other site 439375007199 homodimer interface [polypeptide binding]; other site 439375007200 Helix-turn-helix domain; Region: HTH_36; pfam13730 439375007201 ParB-like nuclease domain; Region: ParBc; pfam02195 439375007202 MT-A70; Region: MT-A70; cl01947 439375007203 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375007204 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375007205 non-specific DNA binding site [nucleotide binding]; other site 439375007206 salt bridge; other site 439375007207 sequence-specific DNA binding site [nucleotide binding]; other site 439375007208 Predicted transcriptional regulator [Transcription]; Region: COG2932 439375007209 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 439375007210 Catalytic site [active] 439375007211 hypothetical protein; Provisional; Region: PRK09946 439375007212 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 439375007213 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 439375007214 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375007215 active site 439375007216 DNA binding site [nucleotide binding] 439375007217 Int/Topo IB signature motif; other site 439375007218 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 439375007219 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 439375007220 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 439375007221 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 439375007222 Glucose inhibited division protein A; Region: GIDA; pfam01134 439375007223 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 439375007224 substrate binding pocket [chemical binding]; other site 439375007225 substrate-Mg2+ binding site; other site 439375007226 aspartate-rich region 1; other site 439375007227 aspartate-rich region 2; other site 439375007228 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 439375007229 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 439375007230 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 439375007231 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 439375007232 Protein export membrane protein; Region: SecD_SecF; pfam02355 439375007233 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 439375007234 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 439375007235 Protein of unknown function (DUF815); Region: DUF815; pfam05673 439375007236 Walker A motif; other site 439375007237 ATP binding site [chemical binding]; other site 439375007238 Walker B motif; other site 439375007239 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 439375007240 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439375007241 Peptidase family M23; Region: Peptidase_M23; pfam01551 439375007242 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 439375007243 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375007244 S-adenosylmethionine binding site [chemical binding]; other site 439375007245 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 439375007246 seryl-tRNA synthetase; Provisional; Region: PRK05431 439375007247 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 439375007248 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 439375007249 dimer interface [polypeptide binding]; other site 439375007250 active site 439375007251 motif 1; other site 439375007252 motif 2; other site 439375007253 motif 3; other site 439375007254 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 439375007255 sec-independent translocase; Provisional; Region: PRK00708 439375007256 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 439375007257 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 439375007258 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 439375007259 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 439375007260 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 439375007261 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 439375007262 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375007263 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439375007264 putative active site [active] 439375007265 putative NTP binding site [chemical binding]; other site 439375007266 putative nucleic acid binding site [nucleotide binding]; other site 439375007267 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375007268 Sporulation related domain; Region: SPOR; pfam05036 439375007269 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 439375007270 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 439375007271 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 439375007272 active site 439375007273 HIGH motif; other site 439375007274 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375007275 KMSK motif region; other site 439375007276 tRNA binding surface [nucleotide binding]; other site 439375007277 DALR anticodon binding domain; Region: DALR_1; smart00836 439375007278 anticodon binding site; other site 439375007279 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 439375007280 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 439375007281 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 439375007282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 439375007283 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 439375007284 putative metal binding site [ion binding]; other site 439375007285 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 439375007286 putative catalytic site [active] 439375007287 putative phosphate binding site [ion binding]; other site 439375007288 active site 439375007289 metal binding site A [ion binding]; metal-binding site 439375007290 DNA binding site [nucleotide binding] 439375007291 putative AP binding site [nucleotide binding]; other site 439375007292 putative metal binding site B [ion binding]; other site 439375007293 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439375007294 Sel1-like repeats; Region: SEL1; smart00671 439375007295 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 439375007296 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 439375007297 Catalytic site; other site 439375007298 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 439375007299 putative uracil binding site [chemical binding]; other site 439375007300 putative active site [active] 439375007301 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375007302 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375007303 putative DNA binding site [nucleotide binding]; other site 439375007304 putative Zn2+ binding site [ion binding]; other site 439375007305 AsnC family; Region: AsnC_trans_reg; pfam01037 439375007306 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 439375007307 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 439375007308 putative dimer interface [polypeptide binding]; other site 439375007309 active site pocket [active] 439375007310 putative cataytic base [active] 439375007311 cobalamin synthase; Reviewed; Region: cobS; PRK00235 439375007312 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 439375007313 Predicted aspartyl protease [General function prediction only]; Region: COG3577 439375007314 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 439375007315 catalytic motif [active] 439375007316 Catalytic residue [active] 439375007317 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 439375007318 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 439375007319 FMN binding site [chemical binding]; other site 439375007320 active site 439375007321 catalytic residues [active] 439375007322 substrate binding site [chemical binding]; other site 439375007323 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 439375007324 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 439375007325 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 439375007326 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 439375007327 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 439375007328 active site 439375007329 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 439375007330 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375007331 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 439375007332 substrate binding site [chemical binding]; other site 439375007333 ATP binding site [chemical binding]; other site 439375007334 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 439375007335 active site 439375007336 catalytic residues [active] 439375007337 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 439375007338 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 439375007339 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 439375007340 acyl carrier protein; Provisional; Region: PRK06508 439375007341 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 439375007342 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 439375007343 active site 439375007344 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 439375007345 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 439375007346 dimer interface [polypeptide binding]; other site 439375007347 active site 439375007348 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439375007349 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 439375007350 NAD(P) binding site [chemical binding]; other site 439375007351 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 439375007352 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 439375007353 putative acyl-acceptor binding pocket; other site 439375007354 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 439375007355 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 439375007356 substrate binding site [chemical binding]; other site 439375007357 hexamer interface [polypeptide binding]; other site 439375007358 metal binding site [ion binding]; metal-binding site 439375007359 adenylosuccinate lyase; Provisional; Region: PRK07492 439375007360 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 439375007361 tetramer interface [polypeptide binding]; other site 439375007362 active site 439375007363 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 439375007364 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 439375007365 putative metal binding site [ion binding]; other site 439375007366 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 439375007367 active site 439375007368 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 439375007369 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375007370 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 439375007371 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 439375007372 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 439375007373 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 439375007374 ATP binding site [chemical binding]; other site 439375007375 active site 439375007376 substrate binding site [chemical binding]; other site 439375007377 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 439375007378 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 439375007379 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 439375007380 putative active site [active] 439375007381 catalytic triad [active] 439375007382 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375007383 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 439375007384 C-terminal domain interface [polypeptide binding]; other site 439375007385 GSH binding site (G-site) [chemical binding]; other site 439375007386 dimer interface [polypeptide binding]; other site 439375007387 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 439375007388 N-terminal domain interface [polypeptide binding]; other site 439375007389 dimer interface [polypeptide binding]; other site 439375007390 substrate binding pocket (H-site) [chemical binding]; other site 439375007391 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 439375007392 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 439375007393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375007394 DNA-binding site [nucleotide binding]; DNA binding site 439375007395 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375007396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375007397 homodimer interface [polypeptide binding]; other site 439375007398 catalytic residue [active] 439375007399 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 439375007400 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 439375007401 dimerization interface [polypeptide binding]; other site 439375007402 ATP binding site [chemical binding]; other site 439375007403 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 439375007404 dimerization interface [polypeptide binding]; other site 439375007405 ATP binding site [chemical binding]; other site 439375007406 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 439375007407 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 439375007408 putative GSH binding site [chemical binding]; other site 439375007409 catalytic residues [active] 439375007410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375007411 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439375007412 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 439375007413 active site 439375007414 putative lithium-binding site [ion binding]; other site 439375007415 substrate binding site [chemical binding]; other site 439375007416 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 439375007417 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 439375007418 Ligand Binding Site [chemical binding]; other site 439375007419 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 439375007420 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 439375007421 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 439375007422 RNA binding surface [nucleotide binding]; other site 439375007423 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 439375007424 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 439375007425 Predicted transcriptional regulators [Transcription]; Region: COG1733 439375007426 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 439375007427 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 439375007428 NADH(P)-binding; Region: NAD_binding_10; pfam13460 439375007429 NAD binding site [chemical binding]; other site 439375007430 substrate binding site [chemical binding]; other site 439375007431 putative active site [active] 439375007432 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 439375007433 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 439375007434 putative active site [active] 439375007435 putative PHP Thumb interface [polypeptide binding]; other site 439375007436 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 439375007437 generic binding surface II; other site 439375007438 generic binding surface I; other site 439375007439 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439375007440 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439375007441 Walker A/P-loop; other site 439375007442 ATP binding site [chemical binding]; other site 439375007443 Q-loop/lid; other site 439375007444 ABC transporter signature motif; other site 439375007445 Walker B; other site 439375007446 D-loop; other site 439375007447 H-loop/switch region; other site 439375007448 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 439375007449 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439375007450 FtsX-like permease family; Region: FtsX; pfam02687 439375007451 prolyl-tRNA synthetase; Provisional; Region: PRK12325 439375007452 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 439375007453 dimer interface [polypeptide binding]; other site 439375007454 motif 1; other site 439375007455 active site 439375007456 motif 2; other site 439375007457 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 439375007458 active site 439375007459 motif 3; other site 439375007460 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 439375007461 anticodon binding site; other site 439375007462 Predicted secreted protein [Function unknown]; Region: COG5454 439375007463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375007464 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 439375007465 dimer interface [polypeptide binding]; other site 439375007466 substrate binding site [chemical binding]; other site 439375007467 metal binding site [ion binding]; metal-binding site 439375007468 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 439375007469 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439375007470 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 439375007471 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 439375007472 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 439375007473 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 439375007474 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 439375007475 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439375007476 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 439375007477 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439375007478 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 439375007479 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 439375007480 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439375007481 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 439375007482 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 439375007483 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 439375007484 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 439375007485 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 439375007486 4Fe-4S binding domain; Region: Fer4; pfam00037 439375007487 4Fe-4S binding domain; Region: Fer4; pfam00037 439375007488 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 439375007489 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 439375007490 NADH dehydrogenase subunit G; Validated; Region: PRK09130 439375007491 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 439375007492 catalytic loop [active] 439375007493 iron binding site [ion binding]; other site 439375007494 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 439375007495 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 439375007496 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 439375007497 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 439375007498 SLBB domain; Region: SLBB; pfam10531 439375007499 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 439375007500 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 439375007501 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 439375007502 putative dimer interface [polypeptide binding]; other site 439375007503 [2Fe-2S] cluster binding site [ion binding]; other site 439375007504 Uncharacterized conserved protein [Function unknown]; Region: COG3743 439375007505 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 439375007506 NADH dehydrogenase subunit D; Validated; Region: PRK06075 439375007507 Uncharacterized conserved protein [Function unknown]; Region: COG3791 439375007508 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 439375007509 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 439375007510 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 439375007511 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 439375007512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 439375007513 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375007514 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375007515 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 439375007516 putative hydrophobic ligand binding site [chemical binding]; other site 439375007517 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 439375007518 DctM-like transporters; Region: DctM; pfam06808 439375007519 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 439375007520 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 439375007521 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 439375007522 Ecotin; Region: Ecotin; pfam03974 439375007523 secondary substrate binding site; other site 439375007524 primary substrate binding site; other site 439375007525 inhibition loop; other site 439375007526 dimerization interface [polypeptide binding]; other site 439375007527 Predicted deacylase [General function prediction only]; Region: COG3608 439375007528 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 439375007529 putative active site [active] 439375007530 Zn binding site [ion binding]; other site 439375007531 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439375007532 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375007533 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375007534 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375007535 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 439375007536 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 439375007537 MgtC family; Region: MgtC; pfam02308 439375007538 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 439375007539 fructuronate transporter; Provisional; Region: PRK10034; cl15264 439375007540 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 439375007541 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 439375007542 UreF; Region: UreF; pfam01730 439375007543 Urea transporter; Region: UT; pfam03253 439375007544 urease subunit alpha; Reviewed; Region: ureC; PRK13207 439375007545 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 439375007546 subunit interactions [polypeptide binding]; other site 439375007547 active site 439375007548 flap region; other site 439375007549 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 439375007550 gamma-beta subunit interface [polypeptide binding]; other site 439375007551 alpha-beta subunit interface [polypeptide binding]; other site 439375007552 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 439375007553 alpha-gamma subunit interface [polypeptide binding]; other site 439375007554 beta-gamma subunit interface [polypeptide binding]; other site 439375007555 UreD urease accessory protein; Region: UreD; pfam01774 439375007556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 439375007557 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 439375007558 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439375007559 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439375007560 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 439375007561 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 439375007562 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 439375007563 active site 439375007564 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 439375007565 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 439375007566 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439375007567 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375007568 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439375007569 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375007570 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 439375007571 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 439375007572 metal binding site [ion binding]; metal-binding site 439375007573 putative dimer interface [polypeptide binding]; other site 439375007574 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375007575 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375007576 substrate binding pocket [chemical binding]; other site 439375007577 membrane-bound complex binding site; other site 439375007578 hinge residues; other site 439375007579 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375007580 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375007581 non-specific DNA binding site [nucleotide binding]; other site 439375007582 salt bridge; other site 439375007583 sequence-specific DNA binding site [nucleotide binding]; other site 439375007584 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375007585 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439375007586 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 439375007587 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 439375007588 nucleotide binding site [chemical binding]; other site 439375007589 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 439375007590 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375007591 FAD binding domain; Region: FAD_binding_4; pfam01565 439375007592 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439375007593 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 439375007594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375007595 Transposase; Region: HTH_Tnp_1; pfam01527 439375007596 putative transposase OrfB; Reviewed; Region: PHA02517 439375007597 HTH-like domain; Region: HTH_21; pfam13276 439375007598 Integrase core domain; Region: rve; pfam00665 439375007599 Integrase core domain; Region: rve_2; pfam13333 439375007600 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375007601 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375007602 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375007603 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 439375007604 homotrimer interaction site [polypeptide binding]; other site 439375007605 putative active site [active] 439375007606 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375007607 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 439375007608 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375007609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007610 dimer interface [polypeptide binding]; other site 439375007611 conserved gate region; other site 439375007612 putative PBP binding loops; other site 439375007613 ABC-ATPase subunit interface; other site 439375007614 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375007615 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 439375007616 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007617 dimer interface [polypeptide binding]; other site 439375007618 conserved gate region; other site 439375007619 putative PBP binding loops; other site 439375007620 ABC-ATPase subunit interface; other site 439375007621 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375007622 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375007623 Walker A/P-loop; other site 439375007624 ATP binding site [chemical binding]; other site 439375007625 Q-loop/lid; other site 439375007626 ABC transporter signature motif; other site 439375007627 Walker B; other site 439375007628 D-loop; other site 439375007629 H-loop/switch region; other site 439375007630 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375007631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375007632 Walker A/P-loop; other site 439375007633 ATP binding site [chemical binding]; other site 439375007634 Q-loop/lid; other site 439375007635 ABC transporter signature motif; other site 439375007636 Walker B; other site 439375007637 D-loop; other site 439375007638 H-loop/switch region; other site 439375007639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375007640 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 439375007641 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375007642 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_1; cd08508 439375007643 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375007644 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375007645 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375007646 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 439375007647 substrate binding site [chemical binding]; other site 439375007648 ATP binding site [chemical binding]; other site 439375007649 TOBE domain; Region: TOBE; pfam03459 439375007650 Protein of unknown function (DUF904); Region: DUF904; pfam06005 439375007651 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375007652 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 439375007653 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375007654 Walker A/P-loop; other site 439375007655 ATP binding site [chemical binding]; other site 439375007656 Q-loop/lid; other site 439375007657 ABC transporter signature motif; other site 439375007658 Walker B; other site 439375007659 D-loop; other site 439375007660 H-loop/switch region; other site 439375007661 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 439375007662 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 439375007663 active sites [active] 439375007664 tetramer interface [polypeptide binding]; other site 439375007665 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375007666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007667 dimer interface [polypeptide binding]; other site 439375007668 conserved gate region; other site 439375007669 putative PBP binding loops; other site 439375007670 ABC-ATPase subunit interface; other site 439375007671 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375007672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007673 dimer interface [polypeptide binding]; other site 439375007674 conserved gate region; other site 439375007675 putative PBP binding loops; other site 439375007676 ABC-ATPase subunit interface; other site 439375007677 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375007678 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375007679 MarR family; Region: MarR_2; pfam12802 439375007680 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 439375007681 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 439375007682 nucleotide binding site [chemical binding]; other site 439375007683 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 439375007684 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 439375007685 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 439375007686 Flp/Fap pilin component; Region: Flp_Fap; cl01585 439375007687 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 439375007688 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 439375007689 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 439375007690 homodimer interface [polypeptide binding]; other site 439375007691 substrate-cofactor binding pocket; other site 439375007692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375007693 catalytic residue [active] 439375007694 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 439375007695 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 439375007696 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 439375007697 CoenzymeA binding site [chemical binding]; other site 439375007698 subunit interaction site [polypeptide binding]; other site 439375007699 PHB binding site; other site 439375007700 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 439375007701 23S rRNA interface [nucleotide binding]; other site 439375007702 L3 interface [polypeptide binding]; other site 439375007703 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 439375007704 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375007705 active site 439375007706 motif I; other site 439375007707 motif II; other site 439375007708 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 439375007709 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 439375007710 oligomer interface [polypeptide binding]; other site 439375007711 putative active site [active] 439375007712 Mn binding site [ion binding]; other site 439375007713 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 439375007714 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 439375007715 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 439375007716 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 439375007717 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 439375007718 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 439375007719 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 439375007720 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 439375007721 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 439375007722 Chain length determinant protein; Region: Wzz; pfam02706 439375007723 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 439375007724 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 439375007725 SLBB domain; Region: SLBB; pfam10531 439375007726 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439375007727 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375007728 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 439375007729 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 439375007730 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 439375007731 Uncharacterized conserved protein [Function unknown]; Region: COG1742 439375007732 glucose-1-dehydrogenase; Provisional; Region: PRK06947 439375007733 classical (c) SDRs; Region: SDR_c; cd05233 439375007734 NAD(P) binding site [chemical binding]; other site 439375007735 active site 439375007736 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 439375007737 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 439375007738 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 439375007739 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 439375007740 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 439375007741 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439375007742 DNA binding residues [nucleotide binding] 439375007743 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 439375007744 IHF dimer interface [polypeptide binding]; other site 439375007745 IHF - DNA interface [nucleotide binding]; other site 439375007746 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 439375007747 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 439375007748 dimer interface [polypeptide binding]; other site 439375007749 active site 439375007750 CoA binding pocket [chemical binding]; other site 439375007751 putative phosphate acyltransferase; Provisional; Region: PRK05331 439375007752 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 439375007753 Uncharacterized conserved protein [Function unknown]; Region: COG5452 439375007754 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 439375007755 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 439375007756 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 439375007757 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 439375007758 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 439375007759 putative RNA binding site [nucleotide binding]; other site 439375007760 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 439375007761 homopentamer interface [polypeptide binding]; other site 439375007762 active site 439375007763 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 439375007764 Lumazine binding domain; Region: Lum_binding; pfam00677 439375007765 Lumazine binding domain; Region: Lum_binding; pfam00677 439375007766 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 439375007767 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 439375007768 catalytic motif [active] 439375007769 Zn binding site [ion binding]; other site 439375007770 RibD C-terminal domain; Region: RibD_C; cl17279 439375007771 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 439375007772 ATP cone domain; Region: ATP-cone; pfam03477 439375007773 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 439375007774 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 439375007775 dimer interface [polypeptide binding]; other site 439375007776 active site 439375007777 glycine-pyridoxal phosphate binding site [chemical binding]; other site 439375007778 folate binding site [chemical binding]; other site 439375007779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 439375007780 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375007781 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375007782 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375007783 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375007784 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 439375007785 Protein of unknown function, DUF; Region: DUF411; cl01142 439375007786 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 439375007787 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375007788 substrate binding site [chemical binding]; other site 439375007789 oxyanion hole (OAH) forming residues; other site 439375007790 trimer interface [polypeptide binding]; other site 439375007791 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 439375007792 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 439375007793 dimer interface [polypeptide binding]; other site 439375007794 allosteric magnesium binding site [ion binding]; other site 439375007795 active site 439375007796 aspartate-rich active site metal binding site; other site 439375007797 Schiff base residues; other site 439375007798 Predicted membrane protein/domain [Function unknown]; Region: COG1714 439375007799 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 439375007800 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 439375007801 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 439375007802 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 439375007803 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 439375007804 CAP-like domain; other site 439375007805 active site 439375007806 primary dimer interface [polypeptide binding]; other site 439375007807 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439375007808 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 439375007809 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 439375007810 dimer interface [polypeptide binding]; other site 439375007811 anticodon binding site; other site 439375007812 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 439375007813 homodimer interface [polypeptide binding]; other site 439375007814 motif 1; other site 439375007815 active site 439375007816 motif 2; other site 439375007817 GAD domain; Region: GAD; pfam02938 439375007818 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 439375007819 active site 439375007820 motif 3; other site 439375007821 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 439375007822 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 439375007823 catalytic site [active] 439375007824 putative active site [active] 439375007825 putative substrate binding site [chemical binding]; other site 439375007826 HRDC domain; Region: HRDC; pfam00570 439375007827 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 439375007828 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 439375007829 polyphosphate kinase; Provisional; Region: PRK05443 439375007830 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 439375007831 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 439375007832 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 439375007833 putative domain interface [polypeptide binding]; other site 439375007834 putative active site [active] 439375007835 catalytic site [active] 439375007836 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 439375007837 putative domain interface [polypeptide binding]; other site 439375007838 putative active site [active] 439375007839 catalytic site [active] 439375007840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 439375007841 salicylate hydroxylase; Provisional; Region: PRK06475 439375007842 salicylate hydroxylase; Provisional; Region: PRK08163 439375007843 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 439375007844 dimer interface [polypeptide binding]; other site 439375007845 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 439375007846 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375007847 Predicted transcriptional regulators [Transcription]; Region: COG1733 439375007848 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 439375007849 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 439375007850 putative hydrophobic ligand binding site [chemical binding]; other site 439375007851 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375007852 dimerization interface [polypeptide binding]; other site 439375007853 putative DNA binding site [nucleotide binding]; other site 439375007854 putative Zn2+ binding site [ion binding]; other site 439375007855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375007856 Coenzyme A binding pocket [chemical binding]; other site 439375007857 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 439375007858 dimer interface [polypeptide binding]; other site 439375007859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375007860 ligand binding site [chemical binding]; other site 439375007861 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375007862 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375007863 Walker A/P-loop; other site 439375007864 ATP binding site [chemical binding]; other site 439375007865 Q-loop/lid; other site 439375007866 ABC transporter signature motif; other site 439375007867 Walker B; other site 439375007868 D-loop; other site 439375007869 H-loop/switch region; other site 439375007870 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375007871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007872 dimer interface [polypeptide binding]; other site 439375007873 conserved gate region; other site 439375007874 putative PBP binding loops; other site 439375007875 ABC-ATPase subunit interface; other site 439375007876 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 439375007877 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007878 conserved gate region; other site 439375007879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375007880 putative PBP binding loops; other site 439375007881 dimer interface [polypeptide binding]; other site 439375007882 ABC-ATPase subunit interface; other site 439375007883 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 439375007884 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375007885 substrate binding pocket [chemical binding]; other site 439375007886 membrane-bound complex binding site; other site 439375007887 hinge residues; other site 439375007888 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 439375007889 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 439375007890 active site 439375007891 cystathionine beta-lyase; Provisional; Region: PRK05967 439375007892 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 439375007893 homodimer interface [polypeptide binding]; other site 439375007894 substrate-cofactor binding pocket; other site 439375007895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375007896 catalytic residue [active] 439375007897 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439375007898 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439375007899 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375007900 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375007901 substrate binding pocket [chemical binding]; other site 439375007902 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375007903 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375007904 membrane-bound complex binding site; other site 439375007905 hinge residues; other site 439375007906 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 439375007907 Bacterial SH3 domain; Region: SH3_3; pfam08239 439375007908 EamA-like transporter family; Region: EamA; pfam00892 439375007909 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439375007910 EamA-like transporter family; Region: EamA; pfam00892 439375007911 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375007912 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375007913 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 439375007914 dimerization interface [polypeptide binding]; other site 439375007915 substrate binding pocket [chemical binding]; other site 439375007916 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 439375007917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375007918 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 439375007919 NAD(P) binding site [chemical binding]; other site 439375007920 active site 439375007921 hypothetical protein; Validated; Region: PRK09087 439375007922 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439375007923 Walker A motif; other site 439375007924 ATP binding site [chemical binding]; other site 439375007925 Walker B motif; other site 439375007926 arginine finger; other site 439375007927 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439375007928 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439375007929 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 439375007930 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 439375007931 dimerization interface [polypeptide binding]; other site 439375007932 putative ATP binding site [chemical binding]; other site 439375007933 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 439375007934 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 439375007935 active site 439375007936 substrate binding site [chemical binding]; other site 439375007937 cosubstrate binding site; other site 439375007938 catalytic site [active] 439375007939 Protein of unknown function (DUF992); Region: DUF992; pfam06186 439375007940 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 439375007941 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 439375007942 putative [4Fe-4S] binding site [ion binding]; other site 439375007943 putative molybdopterin cofactor binding site [chemical binding]; other site 439375007944 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 439375007945 putative molybdopterin cofactor binding site; other site 439375007946 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 439375007947 EamA-like transporter family; Region: EamA; pfam00892 439375007948 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 439375007949 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 439375007950 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 439375007951 B1 nucleotide binding pocket [chemical binding]; other site 439375007952 B2 nucleotide binding pocket [chemical binding]; other site 439375007953 CAS motifs; other site 439375007954 active site 439375007955 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375007956 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 439375007957 putative C-terminal domain interface [polypeptide binding]; other site 439375007958 putative GSH binding site (G-site) [chemical binding]; other site 439375007959 putative dimer interface [polypeptide binding]; other site 439375007960 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 439375007961 dimer interface [polypeptide binding]; other site 439375007962 N-terminal domain interface [polypeptide binding]; other site 439375007963 putative substrate binding pocket (H-site) [chemical binding]; other site 439375007964 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 439375007965 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439375007966 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375007967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375007968 The C-terminal substrate domain of LysR-type transcriptional regulator AmpR that involved in control of the expression of beta-lactamase gene ampC, contains the type 2 periplasmic binding fold; Region: PBP2_AmpR; cd08488 439375007969 putative dimerization interface [polypeptide binding]; other site 439375007970 putative substrate binding pocket [chemical binding]; other site 439375007971 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375007972 short chain dehydrogenase; Provisional; Region: PRK09134 439375007973 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 439375007974 NADP binding site [chemical binding]; other site 439375007975 substrate binding pocket [chemical binding]; other site 439375007976 active site 439375007977 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 439375007978 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 439375007979 GIY-YIG motif/motif A; other site 439375007980 active site 439375007981 catalytic site [active] 439375007982 putative DNA binding site [nucleotide binding]; other site 439375007983 metal binding site [ion binding]; metal-binding site 439375007984 UvrB/uvrC motif; Region: UVR; pfam02151 439375007985 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 439375007986 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 439375007987 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 439375007988 MoaE interaction surface [polypeptide binding]; other site 439375007989 MoeB interaction surface [polypeptide binding]; other site 439375007990 thiocarboxylated glycine; other site 439375007991 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 439375007992 MoaE homodimer interface [polypeptide binding]; other site 439375007993 MoaD interaction [polypeptide binding]; other site 439375007994 active site residues [active] 439375007995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 439375007996 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 439375007997 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 439375007998 active site 439375007999 multimer interface [polypeptide binding]; other site 439375008000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 439375008001 DinB superfamily; Region: DinB_2; pfam12867 439375008002 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439375008003 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375008004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375008005 Walker A/P-loop; other site 439375008006 ATP binding site [chemical binding]; other site 439375008007 ABC transporter signature motif; other site 439375008008 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375008009 Walker B; other site 439375008010 D-loop; other site 439375008011 ABC transporter; Region: ABC_tran_2; pfam12848 439375008012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439375008013 DNA polymerase III subunit chi; Validated; Region: PRK05728 439375008014 multifunctional aminopeptidase A; Provisional; Region: PRK00913 439375008015 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 439375008016 interface (dimer of trimers) [polypeptide binding]; other site 439375008017 Substrate-binding/catalytic site; other site 439375008018 Zn-binding sites [ion binding]; other site 439375008019 Predicted permeases [General function prediction only]; Region: COG0795 439375008020 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 439375008021 Predicted permeases [General function prediction only]; Region: COG0795 439375008022 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 439375008023 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 439375008024 OstA-like protein; Region: OstA; cl00844 439375008025 Organic solvent tolerance protein; Region: OstA_C; pfam04453 439375008026 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 439375008027 SurA N-terminal domain; Region: SurA_N; pfam09312 439375008028 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 439375008029 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 439375008030 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 439375008031 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375008032 S-adenosylmethionine binding site [chemical binding]; other site 439375008033 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 439375008034 Peptidase family M23; Region: Peptidase_M23; pfam01551 439375008035 Predicted permeases [General function prediction only]; Region: RarD; COG2962 439375008036 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 439375008037 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 439375008038 active site 439375008039 catalytic residues [active] 439375008040 metal binding site [ion binding]; metal-binding site 439375008041 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 439375008042 Uncharacterized conserved protein [Function unknown]; Region: COG3791 439375008043 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 439375008044 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375008045 active site 439375008046 HIGH motif; other site 439375008047 nucleotide binding site [chemical binding]; other site 439375008048 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 439375008049 KMSKS motif; other site 439375008050 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 439375008051 Uncharacterized conserved protein [Function unknown]; Region: COG2135 439375008052 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 439375008053 nudix motif; other site 439375008054 TIGR02301 family protein; Region: TIGR02301 439375008055 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 439375008056 conserved cys residue [active] 439375008057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008058 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375008059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008060 Isochorismatase family; Region: Isochorismatase; pfam00857 439375008061 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 439375008062 catalytic triad [active] 439375008063 conserved cis-peptide bond; other site 439375008064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 439375008065 dihydroorotase; Validated; Region: PRK09060 439375008066 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 439375008067 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 439375008068 active site 439375008069 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 439375008070 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 439375008071 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 439375008072 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 439375008073 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 439375008074 Recombination protein O N terminal; Region: RecO_N; pfam11967 439375008075 DNA repair protein RecO; Region: reco; TIGR00613 439375008076 Recombination protein O C terminal; Region: RecO_C; pfam02565 439375008077 GTPase Era; Reviewed; Region: era; PRK00089 439375008078 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 439375008079 G1 box; other site 439375008080 GTP/Mg2+ binding site [chemical binding]; other site 439375008081 Switch I region; other site 439375008082 G2 box; other site 439375008083 Switch II region; other site 439375008084 G3 box; other site 439375008085 G4 box; other site 439375008086 G5 box; other site 439375008087 KH domain; Region: KH_2; pfam07650 439375008088 ribonuclease III; Reviewed; Region: PRK12371 439375008089 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 439375008090 dimerization interface [polypeptide binding]; other site 439375008091 active site 439375008092 metal binding site [ion binding]; metal-binding site 439375008093 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 439375008094 dsRNA binding site [nucleotide binding]; other site 439375008095 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 439375008096 Catalytic site [active] 439375008097 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 439375008098 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 439375008099 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 439375008100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 439375008101 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 439375008102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008103 Helix-turn-helix domain; Region: HTH_18; pfam12833 439375008104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008105 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375008106 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375008107 putative substrate translocation pore; other site 439375008108 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 439375008109 HemN C-terminal domain; Region: HemN_C; pfam06969 439375008110 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375008111 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375008112 ligand binding site [chemical binding]; other site 439375008113 flexible hinge region; other site 439375008114 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 439375008115 putative switch regulator; other site 439375008116 non-specific DNA interactions [nucleotide binding]; other site 439375008117 DNA binding site [nucleotide binding] 439375008118 sequence specific DNA binding site [nucleotide binding]; other site 439375008119 putative cAMP binding site [chemical binding]; other site 439375008120 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439375008121 active site 439375008122 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 439375008123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439375008124 Zn2+ binding site [ion binding]; other site 439375008125 Mg2+ binding site [ion binding]; other site 439375008126 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 439375008127 synthetase active site [active] 439375008128 NTP binding site [chemical binding]; other site 439375008129 metal binding site [ion binding]; metal-binding site 439375008130 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 439375008131 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 439375008132 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 439375008133 Uncharacterized conserved protein [Function unknown]; Region: COG1432 439375008134 LabA_like proteins; Region: LabA; cd10911 439375008135 putative metal binding site [ion binding]; other site 439375008136 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 439375008137 Fe-S cluster binding site [ion binding]; other site 439375008138 DNA binding site [nucleotide binding] 439375008139 active site 439375008140 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 439375008141 SmpB-tmRNA interface; other site 439375008142 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375008143 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 439375008144 dimer interface [polypeptide binding]; other site 439375008145 active site 439375008146 catalytic residue [active] 439375008147 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375008148 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375008149 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375008150 catalytic residue [active] 439375008151 Uncharacterized conserved protein [Function unknown]; Region: COG3743 439375008152 BON domain; Region: BON; cl02771 439375008153 Porin subfamily; Region: Porin_2; pfam02530 439375008154 Porin subfamily; Region: Porin_2; pfam02530 439375008155 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 439375008156 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375008157 active site 439375008158 DNA binding site [nucleotide binding] 439375008159 Int/Topo IB signature motif; other site 439375008160 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 439375008161 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375008162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375008163 homodimer interface [polypeptide binding]; other site 439375008164 catalytic residue [active] 439375008165 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 439375008166 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 439375008167 Uncharacterized conserved protein [Function unknown]; Region: COG1284 439375008168 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 439375008169 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439375008170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 439375008171 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 439375008172 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 439375008173 C-terminal domain interface [polypeptide binding]; other site 439375008174 GSH binding site (G-site) [chemical binding]; other site 439375008175 dimer interface [polypeptide binding]; other site 439375008176 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 439375008177 N-terminal domain interface [polypeptide binding]; other site 439375008178 putative dimer interface [polypeptide binding]; other site 439375008179 active site 439375008180 AMP nucleosidase; Provisional; Region: PRK08292 439375008181 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 439375008182 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 439375008183 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 439375008184 putative catalytic site [active] 439375008185 putative metal binding site [ion binding]; other site 439375008186 putative phosphate binding site [ion binding]; other site 439375008187 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 439375008188 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375008189 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 439375008190 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 439375008191 Fe-S cluster binding site [ion binding]; other site 439375008192 active site 439375008193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375008194 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375008195 putative substrate translocation pore; other site 439375008196 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375008197 EamA-like transporter family; Region: EamA; pfam00892 439375008198 aminopeptidase N; Provisional; Region: pepN; PRK14015 439375008199 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 439375008200 active site 439375008201 Zn binding site [ion binding]; other site 439375008202 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375008203 PAS fold; Region: PAS_3; pfam08447 439375008204 putative active site [active] 439375008205 heme pocket [chemical binding]; other site 439375008206 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439375008207 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375008208 dimer interface [polypeptide binding]; other site 439375008209 phosphorylation site [posttranslational modification] 439375008210 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375008211 ATP binding site [chemical binding]; other site 439375008212 Mg2+ binding site [ion binding]; other site 439375008213 G-X-G motif; other site 439375008214 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 439375008215 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 439375008216 metal binding triad; other site 439375008217 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 439375008218 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 439375008219 metal binding triad; other site 439375008220 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375008221 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 439375008222 dimerization interface [polypeptide binding]; other site 439375008223 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375008224 dimer interface [polypeptide binding]; other site 439375008225 phosphorylation site [posttranslational modification] 439375008226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375008227 ATP binding site [chemical binding]; other site 439375008228 Mg2+ binding site [ion binding]; other site 439375008229 G-X-G motif; other site 439375008230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375008231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375008232 active site 439375008233 phosphorylation site [posttranslational modification] 439375008234 intermolecular recognition site; other site 439375008235 dimerization interface [polypeptide binding]; other site 439375008236 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375008237 DNA binding site [nucleotide binding] 439375008238 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 439375008239 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439375008240 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 439375008241 protein binding site [polypeptide binding]; other site 439375008242 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 439375008243 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 439375008244 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 439375008245 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 439375008246 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 439375008247 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 439375008248 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 439375008249 binding surface 439375008250 TPR motif; other site 439375008251 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 439375008252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375008253 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 439375008254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375008255 ATP binding site [chemical binding]; other site 439375008256 Mg2+ binding site [ion binding]; other site 439375008257 G-X-G motif; other site 439375008258 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375008259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375008260 active site 439375008261 phosphorylation site [posttranslational modification] 439375008262 intermolecular recognition site; other site 439375008263 dimerization interface [polypeptide binding]; other site 439375008264 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375008265 DNA binding site [nucleotide binding] 439375008266 Transglycosylase; Region: Transgly; pfam00912 439375008267 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 439375008268 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 439375008269 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 439375008270 Predicted integral membrane protein [Function unknown]; Region: COG5436 439375008271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 439375008272 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 439375008273 Uncharacterized conserved protein [Function unknown]; Region: COG5447 439375008274 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375008275 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375008276 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439375008277 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375008278 dimer interface [polypeptide binding]; other site 439375008279 phosphorylation site [posttranslational modification] 439375008280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375008281 ATP binding site [chemical binding]; other site 439375008282 Mg2+ binding site [ion binding]; other site 439375008283 G-X-G motif; other site 439375008284 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 439375008285 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 439375008286 amidase; Validated; Region: PRK05962 439375008287 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 439375008288 DnaA box-binding interface [nucleotide binding]; other site 439375008289 Predicted transcriptional regulator [Transcription]; Region: COG4957 439375008290 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 439375008291 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439375008292 AMP-binding domain protein; Validated; Region: PRK08315 439375008293 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439375008294 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 439375008295 acyl-activating enzyme (AAE) consensus motif; other site 439375008296 putative AMP binding site [chemical binding]; other site 439375008297 putative active site [active] 439375008298 putative CoA binding site [chemical binding]; other site 439375008299 Cytochrome C' Region: Cytochrom_C_2; pfam01322 439375008300 Cytochrome c; Region: Cytochrom_C; pfam00034 439375008301 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 439375008302 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 439375008303 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 439375008304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375008305 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375008306 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 439375008307 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375008308 motif II; other site 439375008309 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 439375008310 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 439375008311 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 439375008312 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 439375008313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375008314 putative substrate translocation pore; other site 439375008315 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375008316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375008317 DNA-binding site [nucleotide binding]; DNA binding site 439375008318 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375008319 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 439375008320 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 439375008321 Cl binding site [ion binding]; other site 439375008322 oligomer interface [polypeptide binding]; other site 439375008323 putative addiction module antidote; Region: doc_partner; TIGR02609 439375008324 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 439375008325 transcription elongation factor regulatory protein; Validated; Region: PRK06342 439375008326 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 439375008327 transcriptional regulator BetI; Validated; Region: PRK00767 439375008328 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375008329 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 439375008330 choline dehydrogenase; Validated; Region: PRK02106 439375008331 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439375008332 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 439375008333 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 439375008334 NAD(P) binding site [chemical binding]; other site 439375008335 catalytic residues [active] 439375008336 Transposase; Region: HTH_Tnp_1; pfam01527 439375008337 HTH-like domain; Region: HTH_21; pfam13276 439375008338 Integrase core domain; Region: rve; pfam00665 439375008339 Integrase core domain; Region: rve_3; pfam13683 439375008340 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 439375008341 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 439375008342 active site 439375008343 homotetramer interface [polypeptide binding]; other site 439375008344 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 439375008345 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 439375008346 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 439375008347 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 439375008348 Substrate binding site; other site 439375008349 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 439375008350 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 439375008351 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 439375008352 active site 439375008353 substrate binding site [chemical binding]; other site 439375008354 metal binding site [ion binding]; metal-binding site 439375008355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375008356 Homeodomain-like domain; Region: HTH_23; pfam13384 439375008357 Homeodomain-like domain; Region: HTH_32; pfam13565 439375008358 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375008359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375008360 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 439375008361 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 439375008362 NADP binding site [chemical binding]; other site 439375008363 active site 439375008364 putative substrate binding site [chemical binding]; other site 439375008365 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 439375008366 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 439375008367 NAD binding site [chemical binding]; other site 439375008368 substrate binding site [chemical binding]; other site 439375008369 homodimer interface [polypeptide binding]; other site 439375008370 active site 439375008371 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 439375008372 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 439375008373 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 439375008374 substrate binding site; other site 439375008375 tetramer interface; other site 439375008376 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439375008377 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375008378 active site 439375008379 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375008380 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375008381 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375008382 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375008383 Transposase; Region: HTH_Tnp_1; pfam01527 439375008384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375008385 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375008386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375008387 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375008388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375008389 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375008390 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375008391 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375008392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375008393 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375008394 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375008395 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375008396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375008397 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375008398 Transposase; Region: HTH_Tnp_1; pfam01527 439375008399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375008400 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375008401 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375008402 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 439375008403 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375008404 Methyltransferase domain; Region: Methyltransf_24; pfam13578 439375008405 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439375008406 Methyltransferase domain; Region: Methyltransf_12; pfam08242 439375008407 Transposase; Region: HTH_Tnp_1; pfam01527 439375008408 HTH-like domain; Region: HTH_21; pfam13276 439375008409 Integrase core domain; Region: rve; pfam00665 439375008410 Integrase core domain; Region: rve_3; pfam13683 439375008411 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 439375008412 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 439375008413 Probable Catalytic site; other site 439375008414 metal-binding site 439375008415 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 439375008416 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 439375008417 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 439375008418 Walker A/P-loop; other site 439375008419 ATP binding site [chemical binding]; other site 439375008420 Q-loop/lid; other site 439375008421 ABC transporter signature motif; other site 439375008422 Walker B; other site 439375008423 D-loop; other site 439375008424 H-loop/switch region; other site 439375008425 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 439375008426 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439375008427 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439375008428 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375008429 active site 439375008430 metal binding site [ion binding]; metal-binding site 439375008431 Transposase; Region: HTH_Tnp_1; pfam01527 439375008432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375008433 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375008434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375008435 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375008436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375008437 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375008438 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375008439 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375008440 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 439375008441 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 439375008442 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375008443 motif II; other site 439375008444 Predicted membrane protein [Function unknown]; Region: COG2246 439375008445 GtrA-like protein; Region: GtrA; pfam04138 439375008446 Predicted integral membrane protein [Function unknown]; Region: COG5650 439375008447 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 439375008448 active site 439375008449 Uncharacterized conserved protein [Function unknown]; Region: COG3347 439375008450 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 439375008451 intersubunit interface [polypeptide binding]; other site 439375008452 active site 439375008453 Zn2+ binding site [ion binding]; other site 439375008454 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 439375008455 Ligand binding site; other site 439375008456 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375008457 active site 439375008458 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439375008459 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439375008460 Ligand binding site; other site 439375008461 Putative Catalytic site; other site 439375008462 DXD motif; other site 439375008463 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar2; cd08584 439375008464 putative active site [active] 439375008465 catalytic site [active] 439375008466 Protein of unknown function (DUF904); Region: DUF904; pfam06005 439375008467 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375008468 Protein of unknown function (DUF904); Region: DUF904; pfam06005 439375008469 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375008470 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375008471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008472 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 439375008473 active site 439375008474 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375008475 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375008476 DNA binding site [nucleotide binding] 439375008477 domain linker motif; other site 439375008478 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 439375008479 ligand binding site [chemical binding]; other site 439375008480 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375008481 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375008482 substrate binding pocket [chemical binding]; other site 439375008483 membrane-bound complex binding site; other site 439375008484 hinge residues; other site 439375008485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008486 dimer interface [polypeptide binding]; other site 439375008487 conserved gate region; other site 439375008488 putative PBP binding loops; other site 439375008489 ABC-ATPase subunit interface; other site 439375008490 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 439375008491 beta-galactosidase; Region: BGL; TIGR03356 439375008492 C factor cell-cell signaling protein; Provisional; Region: PRK09009 439375008493 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 439375008494 NADP binding site [chemical binding]; other site 439375008495 homodimer interface [polypeptide binding]; other site 439375008496 active site 439375008497 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008498 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375008499 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375008500 Autotransporter beta-domain; Region: Autotransporter; smart00869 439375008501 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439375008502 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439375008503 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 439375008504 active site 439375008505 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375008506 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 439375008507 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375008508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008509 dimer interface [polypeptide binding]; other site 439375008510 conserved gate region; other site 439375008511 putative PBP binding loops; other site 439375008512 ABC-ATPase subunit interface; other site 439375008513 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375008514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008515 dimer interface [polypeptide binding]; other site 439375008516 conserved gate region; other site 439375008517 putative PBP binding loops; other site 439375008518 ABC-ATPase subunit interface; other site 439375008519 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375008520 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 439375008521 Walker A/P-loop; other site 439375008522 ATP binding site [chemical binding]; other site 439375008523 Q-loop/lid; other site 439375008524 ABC transporter signature motif; other site 439375008525 Walker B; other site 439375008526 D-loop; other site 439375008527 H-loop/switch region; other site 439375008528 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375008529 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375008530 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375008531 Walker A/P-loop; other site 439375008532 ATP binding site [chemical binding]; other site 439375008533 Q-loop/lid; other site 439375008534 ABC transporter signature motif; other site 439375008535 Walker B; other site 439375008536 D-loop; other site 439375008537 H-loop/switch region; other site 439375008538 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375008539 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 439375008540 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375008541 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375008542 DNA binding residues [nucleotide binding] 439375008543 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 439375008544 FecR protein; Region: FecR; pfam04773 439375008545 Secretin and TonB N terminus short domain; Region: STN; smart00965 439375008546 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 439375008547 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375008548 N-terminal plug; other site 439375008549 ligand-binding site [chemical binding]; other site 439375008550 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 439375008551 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 439375008552 intersubunit interface [polypeptide binding]; other site 439375008553 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439375008554 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375008555 ABC-ATPase subunit interface; other site 439375008556 dimer interface [polypeptide binding]; other site 439375008557 putative PBP binding regions; other site 439375008558 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375008559 ABC-ATPase subunit interface; other site 439375008560 dimer interface [polypeptide binding]; other site 439375008561 putative PBP binding regions; other site 439375008562 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 439375008563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375008564 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375008565 dimerization interface [polypeptide binding]; other site 439375008566 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375008567 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 439375008568 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375008569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375008570 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375008571 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 439375008572 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008573 dimer interface [polypeptide binding]; other site 439375008574 conserved gate region; other site 439375008575 putative PBP binding loops; other site 439375008576 ABC-ATPase subunit interface; other site 439375008577 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375008578 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375008579 Walker A/P-loop; other site 439375008580 ATP binding site [chemical binding]; other site 439375008581 Q-loop/lid; other site 439375008582 ABC transporter signature motif; other site 439375008583 Walker B; other site 439375008584 D-loop; other site 439375008585 H-loop/switch region; other site 439375008586 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375008587 Walker A/P-loop; other site 439375008588 ATP binding site [chemical binding]; other site 439375008589 Q-loop/lid; other site 439375008590 ABC transporter signature motif; other site 439375008591 Walker B; other site 439375008592 D-loop; other site 439375008593 H-loop/switch region; other site 439375008594 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375008595 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 439375008596 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439375008597 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 439375008598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375008599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375008600 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 439375008601 putative substrate binding pocket [chemical binding]; other site 439375008602 dimerization interface [polypeptide binding]; other site 439375008603 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375008604 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375008605 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375008606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375008607 Walker A/P-loop; other site 439375008608 ATP binding site [chemical binding]; other site 439375008609 Q-loop/lid; other site 439375008610 ABC transporter signature motif; other site 439375008611 Walker B; other site 439375008612 D-loop; other site 439375008613 H-loop/switch region; other site 439375008614 TOBE domain; Region: TOBE_2; pfam08402 439375008615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008616 putative PBP binding loops; other site 439375008617 dimer interface [polypeptide binding]; other site 439375008618 ABC-ATPase subunit interface; other site 439375008619 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375008620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008621 dimer interface [polypeptide binding]; other site 439375008622 conserved gate region; other site 439375008623 putative PBP binding loops; other site 439375008624 ABC-ATPase subunit interface; other site 439375008625 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 439375008626 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 439375008627 tetrameric interface [polypeptide binding]; other site 439375008628 NAD binding site [chemical binding]; other site 439375008629 catalytic residues [active] 439375008630 substrate binding site [chemical binding]; other site 439375008631 RHS Repeat; Region: RHS_repeat; pfam05593 439375008632 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439375008633 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 439375008634 Ectoine synthase; Region: Ectoine_synth; pfam06339 439375008635 amidase; Provisional; Region: PRK07056 439375008636 Amidase; Region: Amidase; cl11426 439375008637 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375008638 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375008639 DNA-binding site [nucleotide binding]; DNA binding site 439375008640 FCD domain; Region: FCD; pfam07729 439375008641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008642 dimer interface [polypeptide binding]; other site 439375008643 conserved gate region; other site 439375008644 putative PBP binding loops; other site 439375008645 ABC-ATPase subunit interface; other site 439375008646 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375008647 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375008648 Walker A/P-loop; other site 439375008649 ATP binding site [chemical binding]; other site 439375008650 Q-loop/lid; other site 439375008651 ABC transporter signature motif; other site 439375008652 Walker B; other site 439375008653 D-loop; other site 439375008654 H-loop/switch region; other site 439375008655 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375008656 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375008657 substrate binding pocket [chemical binding]; other site 439375008658 membrane-bound complex binding site; other site 439375008659 hinge residues; other site 439375008660 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375008661 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375008662 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375008663 putative active site [active] 439375008664 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 439375008665 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439375008666 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375008667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375008668 Walker A/P-loop; other site 439375008669 ATP binding site [chemical binding]; other site 439375008670 Q-loop/lid; other site 439375008671 ABC transporter signature motif; other site 439375008672 Walker B; other site 439375008673 D-loop; other site 439375008674 H-loop/switch region; other site 439375008675 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008676 dimer interface [polypeptide binding]; other site 439375008677 conserved gate region; other site 439375008678 putative PBP binding loops; other site 439375008679 ABC-ATPase subunit interface; other site 439375008680 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375008681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008682 dimer interface [polypeptide binding]; other site 439375008683 conserved gate region; other site 439375008684 putative PBP binding loops; other site 439375008685 ABC-ATPase subunit interface; other site 439375008686 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 439375008687 homodimer interface [polypeptide binding]; other site 439375008688 homotetramer interface [polypeptide binding]; other site 439375008689 active site pocket [active] 439375008690 cleavage site 439375008691 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 439375008692 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375008693 ligand binding site [chemical binding]; other site 439375008694 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375008695 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375008696 Walker A/P-loop; other site 439375008697 ATP binding site [chemical binding]; other site 439375008698 Q-loop/lid; other site 439375008699 ABC transporter signature motif; other site 439375008700 Walker B; other site 439375008701 D-loop; other site 439375008702 H-loop/switch region; other site 439375008703 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375008704 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375008705 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375008706 TM-ABC transporter signature motif; other site 439375008707 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008708 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008709 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008710 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008711 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008712 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008713 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008714 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375008715 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375008716 Autotransporter beta-domain; Region: Autotransporter; pfam03797 439375008717 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375008718 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375008719 DNA binding site [nucleotide binding] 439375008720 domain linker motif; other site 439375008721 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 439375008722 dimerization interface [polypeptide binding]; other site 439375008723 ligand binding site [chemical binding]; other site 439375008724 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 439375008725 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 439375008726 putative ligand binding site [chemical binding]; other site 439375008727 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439375008728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375008729 Walker A/P-loop; other site 439375008730 ATP binding site [chemical binding]; other site 439375008731 Q-loop/lid; other site 439375008732 ABC transporter signature motif; other site 439375008733 Walker B; other site 439375008734 D-loop; other site 439375008735 H-loop/switch region; other site 439375008736 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375008737 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375008738 TM-ABC transporter signature motif; other site 439375008739 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 439375008740 classical (c) SDRs; Region: SDR_c; cd05233 439375008741 NAD(P) binding site [chemical binding]; other site 439375008742 active site 439375008743 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 439375008744 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 439375008745 N- and C-terminal domain interface [polypeptide binding]; other site 439375008746 active site 439375008747 MgATP binding site [chemical binding]; other site 439375008748 catalytic site [active] 439375008749 metal binding site [ion binding]; metal-binding site 439375008750 carbohydrate binding site [chemical binding]; other site 439375008751 putative homodimer interface [polypeptide binding]; other site 439375008752 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375008753 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375008754 Autotransporter beta-domain; Region: Autotransporter; smart00869 439375008755 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375008756 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375008757 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 439375008758 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 439375008759 dimer interface [polypeptide binding]; other site 439375008760 active site 439375008761 CoA binding pocket [chemical binding]; other site 439375008762 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 439375008763 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375008764 inhibitor-cofactor binding pocket; inhibition site 439375008765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375008766 catalytic residue [active] 439375008767 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 439375008768 AAA domain; Region: AAA_26; pfam13500 439375008769 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 439375008770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375008771 catalytic residue [active] 439375008772 biotin synthase; Region: bioB; TIGR00433 439375008773 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375008774 FeS/SAM binding site; other site 439375008775 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 439375008776 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439375008777 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375008778 Walker A/P-loop; other site 439375008779 ATP binding site [chemical binding]; other site 439375008780 Q-loop/lid; other site 439375008781 ABC transporter signature motif; other site 439375008782 Walker B; other site 439375008783 D-loop; other site 439375008784 H-loop/switch region; other site 439375008785 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375008786 ABC-ATPase subunit interface; other site 439375008787 dimer interface [polypeptide binding]; other site 439375008788 putative PBP binding regions; other site 439375008789 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439375008790 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375008791 ABC-ATPase subunit interface; other site 439375008792 dimer interface [polypeptide binding]; other site 439375008793 putative PBP binding regions; other site 439375008794 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 439375008795 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 439375008796 siderophore binding site; other site 439375008797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375008798 Homeodomain-like domain; Region: HTH_23; pfam13384 439375008799 Homeodomain-like domain; Region: HTH_32; pfam13565 439375008800 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375008801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375008802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008803 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375008804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375008805 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 439375008806 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 439375008807 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008808 dimer interface [polypeptide binding]; other site 439375008809 conserved gate region; other site 439375008810 putative PBP binding loops; other site 439375008811 ABC-ATPase subunit interface; other site 439375008812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008813 dimer interface [polypeptide binding]; other site 439375008814 conserved gate region; other site 439375008815 putative PBP binding loops; other site 439375008816 ABC-ATPase subunit interface; other site 439375008817 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 439375008818 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439375008819 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375008820 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 439375008821 Walker A/P-loop; other site 439375008822 ATP binding site [chemical binding]; other site 439375008823 Q-loop/lid; other site 439375008824 ABC transporter signature motif; other site 439375008825 Walker B; other site 439375008826 D-loop; other site 439375008827 H-loop/switch region; other site 439375008828 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 439375008829 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 439375008830 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 439375008831 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375008832 NAD(P) binding site [chemical binding]; other site 439375008833 catalytic residues [active] 439375008834 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 439375008835 NAD(P) binding site [chemical binding]; other site 439375008836 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 439375008837 intersubunit interface [polypeptide binding]; other site 439375008838 active site 439375008839 catalytic residue [active] 439375008840 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375008841 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 439375008842 substrate binding site [chemical binding]; other site 439375008843 dimer interface [polypeptide binding]; other site 439375008844 ATP binding site [chemical binding]; other site 439375008845 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 439375008846 active site 439375008847 catalytic residues [active] 439375008848 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375008849 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375008850 TM-ABC transporter signature motif; other site 439375008851 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375008852 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375008853 TM-ABC transporter signature motif; other site 439375008854 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375008855 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375008856 Walker A/P-loop; other site 439375008857 ATP binding site [chemical binding]; other site 439375008858 Q-loop/lid; other site 439375008859 ABC transporter signature motif; other site 439375008860 Walker B; other site 439375008861 D-loop; other site 439375008862 H-loop/switch region; other site 439375008863 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375008864 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 439375008865 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375008866 ligand binding site [chemical binding]; other site 439375008867 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 439375008868 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 439375008869 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 439375008870 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375008871 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375008872 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375008873 putative substrate translocation pore; other site 439375008874 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375008875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375008876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375008877 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375008878 dimerization interface [polypeptide binding]; other site 439375008879 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375008880 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375008881 substrate binding pocket [chemical binding]; other site 439375008882 membrane-bound complex binding site; other site 439375008883 hinge residues; other site 439375008884 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375008885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008886 dimer interface [polypeptide binding]; other site 439375008887 conserved gate region; other site 439375008888 putative PBP binding loops; other site 439375008889 ABC-ATPase subunit interface; other site 439375008890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375008891 dimer interface [polypeptide binding]; other site 439375008892 conserved gate region; other site 439375008893 putative PBP binding loops; other site 439375008894 ABC-ATPase subunit interface; other site 439375008895 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375008896 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375008897 Walker A/P-loop; other site 439375008898 ATP binding site [chemical binding]; other site 439375008899 Q-loop/lid; other site 439375008900 ABC transporter signature motif; other site 439375008901 Walker B; other site 439375008902 D-loop; other site 439375008903 H-loop/switch region; other site 439375008904 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375008905 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 439375008906 inhibitor-cofactor binding pocket; inhibition site 439375008907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375008908 catalytic residue [active] 439375008909 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 439375008910 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439375008911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375008912 Coenzyme A binding pocket [chemical binding]; other site 439375008913 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 439375008914 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 439375008915 active site 439375008916 Zn binding site [ion binding]; other site 439375008917 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 439375008918 active site 439375008919 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 439375008920 active site clefts [active] 439375008921 zinc binding site [ion binding]; other site 439375008922 dimer interface [polypeptide binding]; other site 439375008923 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 439375008924 selenophosphate synthetase; Provisional; Region: PRK00943 439375008925 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 439375008926 dimerization interface [polypeptide binding]; other site 439375008927 putative ATP binding site [chemical binding]; other site 439375008928 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 439375008929 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 439375008930 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439375008931 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439375008932 molybdopterin cofactor binding site; other site 439375008933 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 439375008934 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 439375008935 molybdopterin cofactor binding site; other site 439375008936 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 439375008937 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 439375008938 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 439375008939 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 439375008940 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 439375008941 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 439375008942 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 439375008943 selenocysteine synthase; Provisional; Region: PRK04311 439375008944 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 439375008945 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 439375008946 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375008947 catalytic residue [active] 439375008948 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439375008949 Sel1-like repeats; Region: SEL1; smart00671 439375008950 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 439375008951 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 439375008952 G1 box; other site 439375008953 putative GEF interaction site [polypeptide binding]; other site 439375008954 GTP/Mg2+ binding site [chemical binding]; other site 439375008955 Switch I region; other site 439375008956 G2 box; other site 439375008957 G3 box; other site 439375008958 Switch II region; other site 439375008959 G4 box; other site 439375008960 G5 box; other site 439375008961 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 439375008962 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 439375008963 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 439375008964 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 439375008965 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 439375008966 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375008967 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375008968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375008969 active site 439375008970 phosphorylation site [posttranslational modification] 439375008971 intermolecular recognition site; other site 439375008972 dimerization interface [polypeptide binding]; other site 439375008973 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375008974 DNA binding residues [nucleotide binding] 439375008975 dimerization interface [polypeptide binding]; other site 439375008976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375008977 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375008978 ATP binding site [chemical binding]; other site 439375008979 Mg2+ binding site [ion binding]; other site 439375008980 G-X-G motif; other site 439375008981 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 439375008982 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 439375008983 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008984 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008985 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375008986 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375008987 Autotransporter beta-domain; Region: Autotransporter; pfam03797 439375008988 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 439375008989 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375008990 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375008991 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375008992 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 439375008993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375008994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375008995 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 439375008996 putative effector binding pocket; other site 439375008997 putative dimerization interface [polypeptide binding]; other site 439375008998 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 439375008999 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 439375009000 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439375009001 Putative methyltransferase; Region: Methyltransf_20; pfam12147 439375009002 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439375009003 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 439375009004 active site 439375009005 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 439375009006 active site 439375009007 catalytic residues [active] 439375009008 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439375009009 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 439375009010 putative acyl-acceptor binding pocket; other site 439375009011 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 439375009012 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 439375009013 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 439375009014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 439375009015 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 439375009016 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375009017 ligand binding site [chemical binding]; other site 439375009018 flexible hinge region; other site 439375009019 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 439375009020 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 439375009021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375009022 putative substrate translocation pore; other site 439375009023 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 439375009024 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 439375009025 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 439375009026 [4Fe-4S] binding site [ion binding]; other site 439375009027 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439375009028 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439375009029 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439375009030 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 439375009031 molybdopterin cofactor binding site; other site 439375009032 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 439375009033 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 439375009034 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 439375009035 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 439375009036 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 439375009037 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 439375009038 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 439375009039 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375009040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375009041 DNA-binding site [nucleotide binding]; DNA binding site 439375009042 FCD domain; Region: FCD; pfam07729 439375009043 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375009044 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 439375009045 inhibitor site; inhibition site 439375009046 active site 439375009047 dimer interface [polypeptide binding]; other site 439375009048 catalytic residue [active] 439375009049 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 439375009050 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 439375009051 pseudoazurin; Region: pseudoazurin; TIGR02375 439375009052 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 439375009053 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 439375009054 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 439375009055 TPP-binding site [chemical binding]; other site 439375009056 dimer interface [polypeptide binding]; other site 439375009057 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 439375009058 PYR/PP interface [polypeptide binding]; other site 439375009059 dimer interface [polypeptide binding]; other site 439375009060 TPP binding site [chemical binding]; other site 439375009061 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375009062 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 439375009063 AMP binding site [chemical binding]; other site 439375009064 metal binding site [ion binding]; metal-binding site 439375009065 active site 439375009066 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 439375009067 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 439375009068 intersubunit interface [polypeptide binding]; other site 439375009069 active site 439375009070 zinc binding site [ion binding]; other site 439375009071 Na+ binding site [ion binding]; other site 439375009072 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 439375009073 triosephosphate isomerase; Provisional; Region: PRK14565 439375009074 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 439375009075 substrate binding site [chemical binding]; other site 439375009076 dimer interface [polypeptide binding]; other site 439375009077 catalytic triad [active] 439375009078 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 439375009079 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 439375009080 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 439375009081 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375009082 PCI domain; Region: PCI; cl02111 439375009083 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375009084 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 439375009085 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 439375009086 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 439375009087 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375009088 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 439375009089 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 439375009090 putative N- and C-terminal domain interface [polypeptide binding]; other site 439375009091 putative active site [active] 439375009092 MgATP binding site [chemical binding]; other site 439375009093 catalytic site [active] 439375009094 metal binding site [ion binding]; metal-binding site 439375009095 putative xylulose binding site [chemical binding]; other site 439375009096 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 439375009097 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375009098 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375009099 Walker A/P-loop; other site 439375009100 ATP binding site [chemical binding]; other site 439375009101 Q-loop/lid; other site 439375009102 ABC transporter signature motif; other site 439375009103 Walker B; other site 439375009104 D-loop; other site 439375009105 H-loop/switch region; other site 439375009106 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375009107 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375009108 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375009109 TM-ABC transporter signature motif; other site 439375009110 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 439375009111 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375009112 ligand binding site [chemical binding]; other site 439375009113 dimerization interface [polypeptide binding]; other site 439375009114 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 439375009115 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 439375009116 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 439375009117 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 439375009118 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 439375009119 putative N- and C-terminal domain interface [polypeptide binding]; other site 439375009120 putative active site [active] 439375009121 MgATP binding site [chemical binding]; other site 439375009122 catalytic site [active] 439375009123 metal binding site [ion binding]; metal-binding site 439375009124 putative xylulose binding site [chemical binding]; other site 439375009125 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 439375009126 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 439375009127 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 439375009128 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 439375009129 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 439375009130 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 439375009131 conserved cys residue [active] 439375009132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375009133 Uncharacterized conserved protein [Function unknown]; Region: COG3246 439375009134 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 439375009135 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375009136 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439375009137 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 439375009138 active site 439375009139 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375009140 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 439375009141 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 439375009142 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375009143 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439375009144 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439375009145 Walker A/P-loop; other site 439375009146 ATP binding site [chemical binding]; other site 439375009147 Q-loop/lid; other site 439375009148 ABC transporter signature motif; other site 439375009149 Walker B; other site 439375009150 D-loop; other site 439375009151 H-loop/switch region; other site 439375009152 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 439375009153 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439375009154 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439375009155 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439375009156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375009157 putative substrate translocation pore; other site 439375009158 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375009159 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375009160 active site 439375009161 catalytic tetrad [active] 439375009162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375009163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009164 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_10; cd08480 439375009165 putative effector binding pocket; other site 439375009166 putative dimerization interface [polypeptide binding]; other site 439375009167 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 439375009168 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 439375009169 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 439375009170 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 439375009171 RES domain; Region: RES; smart00953 439375009172 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 439375009173 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 439375009174 tetramer interface [polypeptide binding]; other site 439375009175 active site 439375009176 Mg2+/Mn2+ binding site [ion binding]; other site 439375009177 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439375009178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375009179 NAD(P) binding site [chemical binding]; other site 439375009180 active site 439375009181 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 439375009182 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375009183 putative substrate translocation pore; other site 439375009184 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375009185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375009186 DNA-binding site [nucleotide binding]; DNA binding site 439375009187 FCD domain; Region: FCD; pfam07729 439375009188 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: COG3965 439375009189 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375009190 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375009191 DNA binding site [nucleotide binding] 439375009192 domain linker motif; other site 439375009193 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 439375009194 ligand binding site [chemical binding]; other site 439375009195 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375009196 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375009197 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375009198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009199 dimer interface [polypeptide binding]; other site 439375009200 conserved gate region; other site 439375009201 putative PBP binding loops; other site 439375009202 ABC-ATPase subunit interface; other site 439375009203 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375009204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009205 dimer interface [polypeptide binding]; other site 439375009206 conserved gate region; other site 439375009207 putative PBP binding loops; other site 439375009208 ABC-ATPase subunit interface; other site 439375009209 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375009210 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375009211 Walker A/P-loop; other site 439375009212 ATP binding site [chemical binding]; other site 439375009213 Q-loop/lid; other site 439375009214 ABC transporter signature motif; other site 439375009215 Walker B; other site 439375009216 D-loop; other site 439375009217 H-loop/switch region; other site 439375009218 TOBE domain; Region: TOBE_2; pfam08402 439375009219 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 439375009220 conserved cys residue [active] 439375009221 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375009222 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375009223 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375009224 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 439375009225 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439375009226 putative active site [active] 439375009227 metal binding site [ion binding]; metal-binding site 439375009228 Cytochrome c2 [Energy production and conversion]; Region: COG3474 439375009229 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 439375009230 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 439375009231 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 439375009232 DNA binding residues [nucleotide binding] 439375009233 dimer interface [polypeptide binding]; other site 439375009234 [2Fe-2S] cluster binding site [ion binding]; other site 439375009235 short chain dehydrogenase; Provisional; Region: PRK06181 439375009236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375009237 NAD(P) binding site [chemical binding]; other site 439375009238 active site 439375009239 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 439375009240 catalytic residues [active] 439375009241 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 439375009242 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 439375009243 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 439375009244 Class I ribonucleotide reductase; Region: RNR_I; cd01679 439375009245 active site 439375009246 dimer interface [polypeptide binding]; other site 439375009247 catalytic residues [active] 439375009248 effector binding site; other site 439375009249 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439375009250 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 439375009251 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 439375009252 dimer interface [polypeptide binding]; other site 439375009253 putative radical transfer pathway; other site 439375009254 diiron center [ion binding]; other site 439375009255 tyrosyl radical; other site 439375009256 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 439375009257 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 439375009258 putative oligomer interface [polypeptide binding]; other site 439375009259 putative active site [active] 439375009260 metal binding site [ion binding]; metal-binding site 439375009261 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375009262 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 439375009263 peptide binding site [polypeptide binding]; other site 439375009264 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375009265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009266 dimer interface [polypeptide binding]; other site 439375009267 conserved gate region; other site 439375009268 putative PBP binding loops; other site 439375009269 ABC-ATPase subunit interface; other site 439375009270 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375009271 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009272 dimer interface [polypeptide binding]; other site 439375009273 conserved gate region; other site 439375009274 putative PBP binding loops; other site 439375009275 ABC-ATPase subunit interface; other site 439375009276 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375009277 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009278 Walker A/P-loop; other site 439375009279 ATP binding site [chemical binding]; other site 439375009280 Q-loop/lid; other site 439375009281 ABC transporter signature motif; other site 439375009282 Walker B; other site 439375009283 D-loop; other site 439375009284 H-loop/switch region; other site 439375009285 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375009286 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375009287 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009288 Walker A/P-loop; other site 439375009289 ATP binding site [chemical binding]; other site 439375009290 Q-loop/lid; other site 439375009291 ABC transporter signature motif; other site 439375009292 Walker B; other site 439375009293 D-loop; other site 439375009294 H-loop/switch region; other site 439375009295 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375009296 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375009297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375009298 DNA-binding site [nucleotide binding]; DNA binding site 439375009299 FCD domain; Region: FCD; pfam07729 439375009300 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 439375009301 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 439375009302 active site 439375009303 dimer interface [polypeptide binding]; other site 439375009304 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 439375009305 Ligand Binding Site [chemical binding]; other site 439375009306 Molecular Tunnel; other site 439375009307 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 439375009308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375009309 Coenzyme A binding pocket [chemical binding]; other site 439375009310 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 439375009311 hypothetical protein; Validated; Region: PRK08238 439375009312 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 439375009313 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 439375009314 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439375009315 FAD binding domain; Region: FAD_binding_4; pfam01565 439375009316 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 439375009317 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439375009318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375009319 NAD(P) binding site [chemical binding]; other site 439375009320 active site 439375009321 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 439375009322 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375009323 inhibitor-cofactor binding pocket; inhibition site 439375009324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375009325 catalytic residue [active] 439375009326 septum formation inhibitor; Reviewed; Region: minC; PRK05177 439375009327 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 439375009328 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 439375009329 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 439375009330 Switch I; other site 439375009331 Switch II; other site 439375009332 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 439375009333 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 439375009334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009335 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375009336 dimerization interface [polypeptide binding]; other site 439375009337 Lysine efflux permease [General function prediction only]; Region: COG1279 439375009338 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 439375009339 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009340 dimer interface [polypeptide binding]; other site 439375009341 conserved gate region; other site 439375009342 ABC-ATPase subunit interface; other site 439375009343 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375009344 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375009345 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375009346 Walker A/P-loop; other site 439375009347 ATP binding site [chemical binding]; other site 439375009348 Q-loop/lid; other site 439375009349 ABC transporter signature motif; other site 439375009350 Walker B; other site 439375009351 D-loop; other site 439375009352 H-loop/switch region; other site 439375009353 NMT1/THI5 like; Region: NMT1; pfam09084 439375009354 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 439375009355 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 439375009356 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375009357 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375009358 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375009359 putative active site [active] 439375009360 hypothetical protein; Provisional; Region: PRK06185 439375009361 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 439375009362 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375009363 EamA-like transporter family; Region: EamA; pfam00892 439375009364 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375009365 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 439375009366 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375009367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009368 dimer interface [polypeptide binding]; other site 439375009369 conserved gate region; other site 439375009370 putative PBP binding loops; other site 439375009371 ABC-ATPase subunit interface; other site 439375009372 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375009373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009374 dimer interface [polypeptide binding]; other site 439375009375 conserved gate region; other site 439375009376 putative PBP binding loops; other site 439375009377 ABC-ATPase subunit interface; other site 439375009378 Predicted amidohydrolase [General function prediction only]; Region: COG3964 439375009379 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 439375009380 active site 439375009381 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 439375009382 homotrimer interaction site [polypeptide binding]; other site 439375009383 putative active site [active] 439375009384 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 439375009385 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375009386 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375009387 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 439375009388 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 439375009389 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375009390 catalytic residue [active] 439375009391 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375009392 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009393 Walker A/P-loop; other site 439375009394 ATP binding site [chemical binding]; other site 439375009395 Q-loop/lid; other site 439375009396 ABC transporter signature motif; other site 439375009397 Walker B; other site 439375009398 D-loop; other site 439375009399 H-loop/switch region; other site 439375009400 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375009401 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009402 Walker A/P-loop; other site 439375009403 ATP binding site [chemical binding]; other site 439375009404 Q-loop/lid; other site 439375009405 ABC transporter signature motif; other site 439375009406 Walker B; other site 439375009407 D-loop; other site 439375009408 H-loop/switch region; other site 439375009409 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375009410 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 439375009411 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 439375009412 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 439375009413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009414 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375009415 dimerization interface [polypeptide binding]; other site 439375009416 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 439375009417 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 439375009418 generic binding surface II; other site 439375009419 generic binding surface I; other site 439375009420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375009421 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375009422 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 439375009423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 439375009424 RNA methyltransferase, RsmE family; Region: TIGR00046 439375009425 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375009426 MarR family; Region: MarR_2; pfam12802 439375009427 Fusaric acid resistance protein family; Region: FUSC; pfam04632 439375009428 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 439375009429 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 439375009430 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 439375009431 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375009432 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375009433 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 439375009434 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 439375009435 catalytic triad [active] 439375009436 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375009437 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 439375009438 active site 439375009439 metal binding site [ion binding]; metal-binding site 439375009440 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 439375009441 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375009442 DNA-binding site [nucleotide binding]; DNA binding site 439375009443 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375009444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009445 transcriptional activator TtdR; Provisional; Region: PRK09801 439375009446 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 439375009447 putative effector binding pocket; other site 439375009448 dimerization interface [polypeptide binding]; other site 439375009449 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 439375009450 FAD binding domain; Region: FAD_binding_4; pfam01565 439375009451 FAD binding domain; Region: FAD_binding_4; pfam01565 439375009452 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 439375009453 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 439375009454 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 439375009455 Cysteine-rich domain; Region: CCG; pfam02754 439375009456 Cysteine-rich domain; Region: CCG; pfam02754 439375009457 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375009458 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375009459 active site 439375009460 catalytic tetrad [active] 439375009461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375009462 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375009463 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 439375009464 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375009465 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 439375009466 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 439375009467 dimer interface [polypeptide binding]; other site 439375009468 motif 1; other site 439375009469 motif 2; other site 439375009470 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 439375009471 active site 439375009472 motif 3; other site 439375009473 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 439375009474 anticodon binding site; other site 439375009475 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 439375009476 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 439375009477 motif 1; other site 439375009478 dimer interface [polypeptide binding]; other site 439375009479 active site 439375009480 motif 2; other site 439375009481 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 439375009482 active site 439375009483 motif 3; other site 439375009484 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 439375009485 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 439375009486 Uncharacterized conserved protein [Function unknown]; Region: COG3791 439375009487 Predicted membrane protein [Function unknown]; Region: COG2259 439375009488 fumarate hydratase; Reviewed; Region: fumC; PRK00485 439375009489 Class II fumarases; Region: Fumarase_classII; cd01362 439375009490 active site 439375009491 tetramer interface [polypeptide binding]; other site 439375009492 Predicted flavoprotein [General function prediction only]; Region: COG0431 439375009493 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439375009494 Predicted transcriptional regulators [Transcription]; Region: COG1733 439375009495 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 439375009496 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 439375009497 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 439375009498 ring oligomerisation interface [polypeptide binding]; other site 439375009499 ATP/Mg binding site [chemical binding]; other site 439375009500 stacking interactions; other site 439375009501 hinge regions; other site 439375009502 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 439375009503 oligomerisation interface [polypeptide binding]; other site 439375009504 mobile loop; other site 439375009505 roof hairpin; other site 439375009506 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 439375009507 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 439375009508 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 439375009509 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 439375009510 metal ion-dependent adhesion site (MIDAS); other site 439375009511 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 439375009512 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375009513 active site 439375009514 motif I; other site 439375009515 motif II; other site 439375009516 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 439375009517 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 439375009518 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 439375009519 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 439375009520 active site 439375009521 Riboflavin kinase; Region: Flavokinase; smart00904 439375009522 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 439375009523 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 439375009524 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375009525 active site 439375009526 HIGH motif; other site 439375009527 nucleotide binding site [chemical binding]; other site 439375009528 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 439375009529 active site 439375009530 KMSKS motif; other site 439375009531 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 439375009532 tRNA binding surface [nucleotide binding]; other site 439375009533 anticodon binding site; other site 439375009534 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 439375009535 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 439375009536 nucleoside/Zn binding site; other site 439375009537 dimer interface [polypeptide binding]; other site 439375009538 catalytic motif [active] 439375009539 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 439375009540 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 439375009541 RNA binding surface [nucleotide binding]; other site 439375009542 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 439375009543 active site 439375009544 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 439375009545 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375009546 S-adenosylmethionine binding site [chemical binding]; other site 439375009547 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 439375009548 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 439375009549 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439375009550 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 439375009551 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 439375009552 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439375009553 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 439375009554 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 439375009555 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 439375009556 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 439375009557 TrkA-N domain; Region: TrkA_N; pfam02254 439375009558 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 439375009559 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 439375009560 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439375009561 active site 439375009562 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 439375009563 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 439375009564 putative acyl-acceptor binding pocket; other site 439375009565 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 439375009566 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 439375009567 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 439375009568 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 439375009569 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 439375009570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 439375009571 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 439375009572 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375009573 ATP binding site [chemical binding]; other site 439375009574 Mg2+ binding site [ion binding]; other site 439375009575 G-X-G motif; other site 439375009576 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 439375009577 ATP binding site [chemical binding]; other site 439375009578 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 439375009579 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 439375009580 putative active site pocket [active] 439375009581 cleavage site 439375009582 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 439375009583 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 439375009584 putative ion selectivity filter; other site 439375009585 putative pore gating glutamate residue; other site 439375009586 putative H+/Cl- coupling transport residue; other site 439375009587 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 439375009588 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 439375009589 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 439375009590 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 439375009591 active site 439375009592 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 439375009593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009594 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 439375009595 dimerization interface [polypeptide binding]; other site 439375009596 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 439375009597 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 439375009598 tetramer interface [polypeptide binding]; other site 439375009599 heme binding pocket [chemical binding]; other site 439375009600 NADPH binding site [chemical binding]; other site 439375009601 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 439375009602 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 439375009603 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 439375009604 CoenzymeA binding site [chemical binding]; other site 439375009605 subunit interaction site [polypeptide binding]; other site 439375009606 PHB binding site; other site 439375009607 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 439375009608 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 439375009609 GMP synthase; Reviewed; Region: guaA; PRK00074 439375009610 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 439375009611 AMP/PPi binding site [chemical binding]; other site 439375009612 candidate oxyanion hole; other site 439375009613 catalytic triad [active] 439375009614 potential glutamine specificity residues [chemical binding]; other site 439375009615 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 439375009616 ATP Binding subdomain [chemical binding]; other site 439375009617 Ligand Binding sites [chemical binding]; other site 439375009618 Dimerization subdomain; other site 439375009619 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375009620 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375009621 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375009622 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375009623 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375009624 TM-ABC transporter signature motif; other site 439375009625 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375009626 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375009627 Walker A/P-loop; other site 439375009628 ATP binding site [chemical binding]; other site 439375009629 Q-loop/lid; other site 439375009630 ABC transporter signature motif; other site 439375009631 Walker B; other site 439375009632 D-loop; other site 439375009633 H-loop/switch region; other site 439375009634 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375009635 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 439375009636 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 439375009637 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 439375009638 ligand binding site [chemical binding]; other site 439375009639 dimerization interface [polypeptide binding]; other site 439375009640 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 439375009641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 439375009642 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 439375009643 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 439375009644 dimer interface [polypeptide binding]; other site 439375009645 active site 439375009646 catalytic residue [active] 439375009647 metal binding site [ion binding]; metal-binding site 439375009648 transcriptional regulator NanR; Provisional; Region: PRK03837 439375009649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375009650 DNA-binding site [nucleotide binding]; DNA binding site 439375009651 FCD domain; Region: FCD; pfam07729 439375009652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375009653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375009654 putative substrate translocation pore; other site 439375009655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375009656 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 439375009657 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 439375009658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009659 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 439375009660 dimerization interface [polypeptide binding]; other site 439375009661 substrate binding pocket [chemical binding]; other site 439375009662 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 439375009663 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 439375009664 ligand binding site [chemical binding]; other site 439375009665 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375009666 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375009667 Walker A/P-loop; other site 439375009668 ATP binding site [chemical binding]; other site 439375009669 Q-loop/lid; other site 439375009670 ABC transporter signature motif; other site 439375009671 Walker B; other site 439375009672 D-loop; other site 439375009673 H-loop/switch region; other site 439375009674 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375009675 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375009676 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375009677 TM-ABC transporter signature motif; other site 439375009678 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375009679 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375009680 DNA binding residues [nucleotide binding] 439375009681 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375009682 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375009683 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375009684 active site 439375009685 catalytic tetrad [active] 439375009686 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 439375009687 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375009688 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 439375009689 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 439375009690 putative active site; other site 439375009691 catalytic residue [active] 439375009692 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 439375009693 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 439375009694 putative N- and C-terminal domain interface [polypeptide binding]; other site 439375009695 putative active site [active] 439375009696 MgATP binding site [chemical binding]; other site 439375009697 catalytic site [active] 439375009698 metal binding site [ion binding]; metal-binding site 439375009699 putative xylulose binding site [chemical binding]; other site 439375009700 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 439375009701 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375009702 S-adenosylmethionine binding site [chemical binding]; other site 439375009703 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 439375009704 catalytic nucleophile [active] 439375009705 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 439375009706 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375009707 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439375009708 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 439375009709 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 439375009710 putative metal binding site [ion binding]; other site 439375009711 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 439375009712 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 439375009713 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375009714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009715 dimer interface [polypeptide binding]; other site 439375009716 conserved gate region; other site 439375009717 putative PBP binding loops; other site 439375009718 ABC-ATPase subunit interface; other site 439375009719 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 439375009720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009721 dimer interface [polypeptide binding]; other site 439375009722 conserved gate region; other site 439375009723 putative PBP binding loops; other site 439375009724 ABC-ATPase subunit interface; other site 439375009725 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375009726 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009727 Walker A/P-loop; other site 439375009728 ATP binding site [chemical binding]; other site 439375009729 Q-loop/lid; other site 439375009730 ABC transporter signature motif; other site 439375009731 Walker B; other site 439375009732 D-loop; other site 439375009733 H-loop/switch region; other site 439375009734 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375009735 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375009736 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009737 Walker A/P-loop; other site 439375009738 ATP binding site [chemical binding]; other site 439375009739 Q-loop/lid; other site 439375009740 ABC transporter signature motif; other site 439375009741 Walker B; other site 439375009742 D-loop; other site 439375009743 H-loop/switch region; other site 439375009744 Beta-lactamase; Region: Beta-lactamase; pfam00144 439375009745 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439375009746 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 439375009747 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375009748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375009749 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375009750 dimerization interface [polypeptide binding]; other site 439375009751 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375009752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375009753 DNA-binding site [nucleotide binding]; DNA binding site 439375009754 FCD domain; Region: FCD; pfam07729 439375009755 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 439375009756 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 439375009757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 439375009758 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 439375009759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 439375009760 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 439375009761 dihydroxyacetone kinase; Provisional; Region: PRK14479 439375009762 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 439375009763 DAK2 domain; Region: Dak2; pfam02734 439375009764 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 439375009765 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 439375009766 ligand binding site [chemical binding]; other site 439375009767 NAD binding site [chemical binding]; other site 439375009768 tetramer interface [polypeptide binding]; other site 439375009769 catalytic site [active] 439375009770 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 439375009771 L-serine binding site [chemical binding]; other site 439375009772 ACT domain interface; other site 439375009773 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 439375009774 active site 439375009775 catalytic residues [active] 439375009776 metal binding site [ion binding]; metal-binding site 439375009777 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439375009778 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439375009779 active site 439375009780 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 439375009781 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 439375009782 dimer interface [polypeptide binding]; other site 439375009783 active site 439375009784 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 439375009785 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 439375009786 NAD binding site [chemical binding]; other site 439375009787 homodimer interface [polypeptide binding]; other site 439375009788 homotetramer interface [polypeptide binding]; other site 439375009789 active site 439375009790 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 439375009791 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 439375009792 active site 439375009793 acyl-activating enzyme (AAE) consensus motif; other site 439375009794 putative CoA binding site [chemical binding]; other site 439375009795 AMP binding site [chemical binding]; other site 439375009796 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 439375009797 Helix-turn-helix domain; Region: HTH_18; pfam12833 439375009798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375009799 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 439375009800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375009801 putative substrate translocation pore; other site 439375009802 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 439375009803 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375009804 ATP binding site [chemical binding]; other site 439375009805 Mg2+ binding site [ion binding]; other site 439375009806 G-X-G motif; other site 439375009807 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439375009808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375009809 active site 439375009810 phosphorylation site [posttranslational modification] 439375009811 intermolecular recognition site; other site 439375009812 dimerization interface [polypeptide binding]; other site 439375009813 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375009814 Walker A motif; other site 439375009815 ATP binding site [chemical binding]; other site 439375009816 Walker B motif; other site 439375009817 arginine finger; other site 439375009818 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439375009819 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375009820 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375009821 ligand binding site [chemical binding]; other site 439375009822 flexible hinge region; other site 439375009823 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 439375009824 putative switch regulator; other site 439375009825 non-specific DNA interactions [nucleotide binding]; other site 439375009826 DNA binding site [nucleotide binding] 439375009827 sequence specific DNA binding site [nucleotide binding]; other site 439375009828 putative cAMP binding site [chemical binding]; other site 439375009829 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 439375009830 putative protease; Provisional; Region: PRK15447 439375009831 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 439375009832 Peptidase family U32; Region: Peptidase_U32; pfam01136 439375009833 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 439375009834 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 439375009835 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 439375009836 Flavoprotein; Region: Flavoprotein; pfam02441 439375009837 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439375009838 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439375009839 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 439375009840 active site 439375009841 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375009842 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375009843 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375009844 putative active site [active] 439375009845 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 439375009846 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 439375009847 hinge; other site 439375009848 active site 439375009849 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 439375009850 nucleotide binding site [chemical binding]; other site 439375009851 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: PRK12570 439375009852 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 439375009853 putative active site [active] 439375009854 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375009855 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_11; cd08516 439375009856 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375009857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009858 dimer interface [polypeptide binding]; other site 439375009859 conserved gate region; other site 439375009860 putative PBP binding loops; other site 439375009861 ABC-ATPase subunit interface; other site 439375009862 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 439375009863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375009864 dimer interface [polypeptide binding]; other site 439375009865 conserved gate region; other site 439375009866 putative PBP binding loops; other site 439375009867 ABC-ATPase subunit interface; other site 439375009868 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375009869 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009870 Walker A/P-loop; other site 439375009871 ATP binding site [chemical binding]; other site 439375009872 Q-loop/lid; other site 439375009873 ABC transporter signature motif; other site 439375009874 Walker B; other site 439375009875 D-loop; other site 439375009876 H-loop/switch region; other site 439375009877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375009878 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375009879 Walker A/P-loop; other site 439375009880 ATP binding site [chemical binding]; other site 439375009881 Q-loop/lid; other site 439375009882 ABC transporter signature motif; other site 439375009883 Walker B; other site 439375009884 D-loop; other site 439375009885 H-loop/switch region; other site 439375009886 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375009887 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439375009888 Beta-lactamase; Region: Beta-lactamase; pfam00144 439375009889 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 439375009890 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 439375009891 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375009892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375009893 metal binding site [ion binding]; metal-binding site 439375009894 active site 439375009895 I-site; other site 439375009896 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 439375009897 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 439375009898 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375009899 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 439375009900 catalytic residues [active] 439375009901 catalytic nucleophile [active] 439375009902 Recombinase; Region: Recombinase; pfam07508 439375009903 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 439375009904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 439375009905 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 439375009906 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 439375009907 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375009908 AAA domain; Region: AAA_23; pfam13476 439375009909 AAA domain; Region: AAA_21; pfam13304 439375009910 Walker A/P-loop; other site 439375009911 ATP binding site [chemical binding]; other site 439375009912 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 439375009913 putative active site [active] 439375009914 putative metal-binding site [ion binding]; other site 439375009915 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 439375009916 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439375009917 active site 439375009918 metal binding site [ion binding]; metal-binding site 439375009919 DNA binding site [nucleotide binding] 439375009920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375009921 AAA domain; Region: AAA_23; pfam13476 439375009922 Walker A/P-loop; other site 439375009923 ATP binding site [chemical binding]; other site 439375009924 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 439375009925 Uncharacterized conserved protein [Function unknown]; Region: COG2135 439375009926 Uncharacterized conserved protein [Function unknown]; Region: COG4544 439375009927 DNA Polymerase Y-family; Region: PolY_like; cd03468 439375009928 active site 439375009929 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 439375009930 DNA binding site [nucleotide binding] 439375009931 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 439375009932 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 439375009933 putative active site [active] 439375009934 putative PHP Thumb interface [polypeptide binding]; other site 439375009935 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 439375009936 generic binding surface I; other site 439375009937 generic binding surface II; other site 439375009938 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 439375009939 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 439375009940 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 439375009941 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 439375009942 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 439375009943 DNA binding residues [nucleotide binding] 439375009944 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 439375009945 dimer interface [polypeptide binding]; other site 439375009946 putative metal binding site [ion binding]; other site 439375009947 MerT mercuric transport protein; Region: MerT; cl03578 439375009948 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375009949 metal-binding site [ion binding] 439375009950 alkylmercury lyase; Provisional; Region: PRK13239 439375009951 Alkylmercury lyase; Region: MerB; pfam03243 439375009952 mercuric reductase; Region: MerA; TIGR02053 439375009953 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 439375009954 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375009955 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439375009956 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 439375009957 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 439375009958 active site 439375009959 catalytic residues [active] 439375009960 DNA binding site [nucleotide binding] 439375009961 Int/Topo IB signature motif; other site 439375009962 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 439375009963 Catalytic site; other site 439375009964 Staphylococcal nuclease homologue; Region: SNase; pfam00565 439375009965 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 439375009966 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 439375009967 putative active site [active] 439375009968 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 439375009969 Antirestriction protein; Region: Antirestrict; pfam03230 439375009970 Methyltransferase domain; Region: Methyltransf_26; pfam13659 439375009971 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 439375009972 Helicase_C-like; Region: Helicase_C_4; pfam13871 439375009973 Toprim domain; Region: Toprim_3; pfam13362 439375009974 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 439375009975 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 439375009976 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 439375009977 dimer interface [polypeptide binding]; other site 439375009978 ssDNA binding site [nucleotide binding]; other site 439375009979 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439375009980 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 439375009981 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 439375009982 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 439375009983 Helix-turn-helix domain; Region: HTH_17; pfam12728 439375009984 Replication initiator protein A; Region: RPA; pfam10134 439375009985 ParA-like protein; Provisional; Region: PHA02518 439375009986 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375009987 P-loop; other site 439375009988 Magnesium ion binding site [ion binding]; other site 439375009989 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 439375009990 DNA methylase; Region: N6_N4_Mtase; pfam01555 439375009991 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 439375009992 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 439375009993 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 439375009994 Protein of unknown function (DUF736); Region: DUF736; pfam05284 439375009995 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375009996 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375009997 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375009998 catalytic residue [active] 439375009999 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 439375010000 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 439375010001 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 439375010002 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 439375010003 Walker A motif; other site 439375010004 ATP binding site [chemical binding]; other site 439375010005 Walker B motif; other site 439375010006 Predicted transcriptional regulator [Transcription]; Region: COG3905 439375010007 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375010008 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010009 putative substrate translocation pore; other site 439375010010 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 439375010011 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439375010012 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 439375010013 arsenical-resistance protein; Region: acr3; TIGR00832 439375010014 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 439375010015 ArsC family; Region: ArsC; pfam03960 439375010016 catalytic residues [active] 439375010017 Low molecular weight phosphatase family; Region: LMWPc; cd00115 439375010018 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 439375010019 active site 439375010020 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375010021 dimerization interface [polypeptide binding]; other site 439375010022 putative DNA binding site [nucleotide binding]; other site 439375010023 putative Zn2+ binding site [ion binding]; other site 439375010024 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 439375010025 lipoprotein signal peptidase; Provisional; Region: PRK14787 439375010026 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 439375010027 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 439375010028 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 439375010029 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 439375010030 Cu(I) binding site [ion binding]; other site 439375010031 Protein of unknown function (DUF461); Region: DUF461; pfam04314 439375010032 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 439375010033 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 439375010034 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375010035 metal-binding site [ion binding] 439375010036 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375010037 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 439375010038 DNA binding residues [nucleotide binding] 439375010039 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 439375010040 dimer interface [polypeptide binding]; other site 439375010041 putative metal binding site [ion binding]; other site 439375010042 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 439375010043 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375010044 dimerization interface [polypeptide binding]; other site 439375010045 putative DNA binding site [nucleotide binding]; other site 439375010046 putative Zn2+ binding site [ion binding]; other site 439375010047 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 439375010048 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375010049 Walker A motif; other site 439375010050 ATP binding site [chemical binding]; other site 439375010051 Walker B motif; other site 439375010052 TrbC/VIRB2 family; Region: TrbC; pfam04956 439375010053 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 439375010054 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 439375010055 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 439375010056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375010057 Walker A/P-loop; other site 439375010058 ATP binding site [chemical binding]; other site 439375010059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375010060 Walker B; other site 439375010061 D-loop; other site 439375010062 H-loop/switch region; other site 439375010063 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 439375010064 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 439375010065 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 439375010066 conjugal transfer protein TrbL; Provisional; Region: PRK13875 439375010067 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 439375010068 conjugal transfer protein TrbF; Provisional; Region: PRK13872 439375010069 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 439375010070 VirB7 interaction site; other site 439375010071 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 439375010072 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 439375010073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375010074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375010075 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 439375010076 dimerization interface [polypeptide binding]; other site 439375010077 substrate binding pocket [chemical binding]; other site 439375010078 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375010079 dimerization interface [polypeptide binding]; other site 439375010080 putative DNA binding site [nucleotide binding]; other site 439375010081 putative Zn2+ binding site [ion binding]; other site 439375010082 Cation efflux family; Region: Cation_efflux; cl00316 439375010083 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 439375010084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010085 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375010086 putative substrate translocation pore; other site 439375010087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010088 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375010089 metal-binding site [ion binding] 439375010090 Predicted membrane protein [Function unknown]; Region: COG1238 439375010091 Domain of unknown function (DUF305); Region: DUF305; cl17794 439375010092 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 439375010093 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439375010094 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439375010095 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439375010096 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439375010097 Protein of unknown function, DUF; Region: DUF411; cl01142 439375010098 YHS domain; Region: YHS; pfam04945 439375010099 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439375010100 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375010101 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375010102 motif II; other site 439375010103 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 439375010104 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 439375010105 Multicopper oxidase; Region: Cu-oxidase; pfam00394 439375010106 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 439375010107 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 439375010108 Cytochrome c; Region: Cytochrom_C; pfam00034 439375010109 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 439375010110 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 439375010111 DNA binding residues [nucleotide binding] 439375010112 dimer interface [polypeptide binding]; other site 439375010113 copper binding site [ion binding]; other site 439375010114 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 439375010115 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 439375010116 catalytic loop [active] 439375010117 iron binding site [ion binding]; other site 439375010118 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 439375010119 FAD binding pocket [chemical binding]; other site 439375010120 FAD binding motif [chemical binding]; other site 439375010121 phosphate binding motif [ion binding]; other site 439375010122 beta-alpha-beta structure motif; other site 439375010123 NAD binding pocket [chemical binding]; other site 439375010124 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 439375010125 catalytic residues [active] 439375010126 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375010127 metal-binding site [ion binding] 439375010128 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439375010129 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375010130 metal-binding site [ion binding] 439375010131 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375010132 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 439375010133 motif II; other site 439375010134 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375010135 metal-binding site [ion binding] 439375010136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 439375010137 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 439375010138 putative homodimer interface [polypeptide binding]; other site 439375010139 putative homotetramer interface [polypeptide binding]; other site 439375010140 putative allosteric switch controlling residues; other site 439375010141 putative metal binding site [ion binding]; other site 439375010142 putative homodimer-homodimer interface [polypeptide binding]; other site 439375010143 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 439375010144 Domain of unknown function (DUF305); Region: DUF305; cl17794 439375010145 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 439375010146 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 439375010147 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439375010148 catalytic residues [active] 439375010149 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 439375010150 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 439375010151 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 439375010152 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 439375010153 DsbD alpha interface [polypeptide binding]; other site 439375010154 catalytic residues [active] 439375010155 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 439375010156 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 439375010157 catalytic residues [active] 439375010158 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439375010159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 439375010160 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439375010161 sensor protein QseC; Provisional; Region: PRK10337 439375010162 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375010163 dimer interface [polypeptide binding]; other site 439375010164 phosphorylation site [posttranslational modification] 439375010165 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375010166 ATP binding site [chemical binding]; other site 439375010167 Mg2+ binding site [ion binding]; other site 439375010168 G-X-G motif; other site 439375010169 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375010170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375010171 active site 439375010172 phosphorylation site [posttranslational modification] 439375010173 intermolecular recognition site; other site 439375010174 dimerization interface [polypeptide binding]; other site 439375010175 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375010176 DNA binding site [nucleotide binding] 439375010177 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 439375010178 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375010179 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 439375010180 IucA / IucC family; Region: IucA_IucC; pfam04183 439375010181 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 439375010182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 439375010183 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 439375010184 IucA / IucC family; Region: IucA_IucC; pfam04183 439375010185 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 439375010186 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010187 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375010188 putative substrate translocation pore; other site 439375010189 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 439375010190 muropeptide transporter; Validated; Region: ampG; cl17669 439375010191 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 439375010192 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375010193 N-terminal plug; other site 439375010194 ligand-binding site [chemical binding]; other site 439375010195 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375010196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375010197 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 439375010198 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439375010199 FMN binding site [chemical binding]; other site 439375010200 active site 439375010201 homodimer interface [polypeptide binding]; other site 439375010202 putative catalytic residue [active] 439375010203 4Fe-4S cluster binding site [ion binding]; other site 439375010204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 439375010205 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375010206 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010207 dimer interface [polypeptide binding]; other site 439375010208 conserved gate region; other site 439375010209 putative PBP binding loops; other site 439375010210 ABC-ATPase subunit interface; other site 439375010211 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375010212 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375010213 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375010214 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375010215 substrate binding pocket [chemical binding]; other site 439375010216 membrane-bound complex binding site; other site 439375010217 hinge residues; other site 439375010218 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439375010219 homotrimer interaction site [polypeptide binding]; other site 439375010220 putative active site [active] 439375010221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010222 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375010223 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375010225 non-specific DNA binding site [nucleotide binding]; other site 439375010226 salt bridge; other site 439375010227 sequence-specific DNA binding site [nucleotide binding]; other site 439375010228 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 439375010229 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 439375010230 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 439375010231 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 439375010232 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 439375010233 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 439375010234 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 439375010235 T5orf172 domain; Region: T5orf172; pfam10544 439375010236 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375010237 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 439375010238 catalytic residues [active] 439375010239 catalytic nucleophile [active] 439375010240 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 439375010241 putative deacylase active site [active] 439375010242 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 439375010243 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 439375010244 catalytic residues [active] 439375010245 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 439375010246 Uncharacterized conserved protein [Function unknown]; Region: COG2835 439375010247 tartrate dehydrogenase; Region: TTC; TIGR02089 439375010248 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 439375010249 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 439375010250 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 439375010251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375010252 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 439375010253 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 439375010254 DNA binding site [nucleotide binding] 439375010255 active site 439375010256 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010257 putative substrate translocation pore; other site 439375010258 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 439375010259 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 439375010260 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375010261 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375010262 putative Zn2+ binding site [ion binding]; other site 439375010263 putative DNA binding site [nucleotide binding]; other site 439375010264 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 439375010265 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375010266 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439375010267 putative active site [active] 439375010268 putative NTP binding site [chemical binding]; other site 439375010269 putative nucleic acid binding site [nucleotide binding]; other site 439375010270 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375010271 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375010272 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 439375010273 inhibitor site; inhibition site 439375010274 active site 439375010275 dimer interface [polypeptide binding]; other site 439375010276 catalytic residue [active] 439375010277 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439375010278 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 439375010279 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 439375010280 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 439375010281 substrate binding site [chemical binding]; other site 439375010282 replicative DNA helicase; Provisional; Region: PRK05973 439375010283 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 439375010284 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 439375010285 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 439375010286 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375010287 dimer interface [polypeptide binding]; other site 439375010288 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 439375010289 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 439375010290 active site 439375010291 Zn binding site [ion binding]; other site 439375010292 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 439375010293 MgtE intracellular N domain; Region: MgtE_N; pfam03448 439375010294 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 439375010295 Divalent cation transporter; Region: MgtE; pfam01769 439375010296 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 439375010297 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 439375010298 G1 box; other site 439375010299 putative GEF interaction site [polypeptide binding]; other site 439375010300 GTP/Mg2+ binding site [chemical binding]; other site 439375010301 Switch I region; other site 439375010302 G2 box; other site 439375010303 G3 box; other site 439375010304 Switch II region; other site 439375010305 G4 box; other site 439375010306 G5 box; other site 439375010307 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 439375010308 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 439375010309 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 439375010310 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375010311 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 439375010312 TM-ABC transporter signature motif; other site 439375010313 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375010314 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 439375010315 TM-ABC transporter signature motif; other site 439375010316 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 439375010317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375010318 Walker A/P-loop; other site 439375010319 ATP binding site [chemical binding]; other site 439375010320 Q-loop/lid; other site 439375010321 ABC transporter signature motif; other site 439375010322 Walker B; other site 439375010323 D-loop; other site 439375010324 H-loop/switch region; other site 439375010325 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375010326 amidase; Provisional; Region: PRK07869 439375010327 Amidase; Region: Amidase; cl11426 439375010328 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 439375010329 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 439375010330 putative ligand binding site [chemical binding]; other site 439375010331 cytosine deaminase; Validated; Region: PRK07572 439375010332 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 439375010333 active site 439375010334 Uncharacterized conserved protein [Function unknown]; Region: COG1739 439375010335 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 439375010336 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 439375010337 PAS domain; Region: PAS_9; pfam13426 439375010338 PAS domain; Region: PAS_9; pfam13426 439375010339 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375010340 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375010341 metal binding site [ion binding]; metal-binding site 439375010342 active site 439375010343 I-site; other site 439375010344 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 439375010345 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 439375010346 metal binding site [ion binding]; metal-binding site 439375010347 putative dimer interface [polypeptide binding]; other site 439375010348 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 439375010349 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375010350 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375010351 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375010352 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375010353 Walker A/P-loop; other site 439375010354 ATP binding site [chemical binding]; other site 439375010355 Q-loop/lid; other site 439375010356 ABC transporter signature motif; other site 439375010357 Walker B; other site 439375010358 D-loop; other site 439375010359 H-loop/switch region; other site 439375010360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375010361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375010362 Walker A/P-loop; other site 439375010363 ATP binding site [chemical binding]; other site 439375010364 Q-loop/lid; other site 439375010365 ABC transporter signature motif; other site 439375010366 Walker B; other site 439375010367 D-loop; other site 439375010368 H-loop/switch region; other site 439375010369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375010370 dipeptide transporter; Provisional; Region: PRK10913 439375010371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010372 dimer interface [polypeptide binding]; other site 439375010373 conserved gate region; other site 439375010374 putative PBP binding loops; other site 439375010375 ABC-ATPase subunit interface; other site 439375010376 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375010377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010378 dimer interface [polypeptide binding]; other site 439375010379 putative PBP binding loops; other site 439375010380 ABC-ATPase subunit interface; other site 439375010381 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375010382 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 439375010383 classical (c) SDRs; Region: SDR_c; cd05233 439375010384 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 439375010385 NAD(P) binding site [chemical binding]; other site 439375010386 active site 439375010387 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 439375010388 Sulfatase; Region: Sulfatase; cl17466 439375010389 choline-sulfatase; Region: chol_sulfatase; TIGR03417 439375010390 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 439375010391 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 439375010392 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 439375010393 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 439375010394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375010395 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 439375010396 dimerization interface [polypeptide binding]; other site 439375010397 substrate binding pocket [chemical binding]; other site 439375010398 hypothetical protein; Provisional; Region: PRK05208 439375010399 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 439375010400 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439375010401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 439375010402 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 439375010403 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375010404 Zn binding site [ion binding]; other site 439375010405 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 439375010406 Zn binding site [ion binding]; other site 439375010407 Predicted esterase [General function prediction only]; Region: COG0400 439375010408 Serine hydrolase (FSH1); Region: FSH1; pfam03959 439375010409 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375010410 dimerization interface [polypeptide binding]; other site 439375010411 putative DNA binding site [nucleotide binding]; other site 439375010412 putative Zn2+ binding site [ion binding]; other site 439375010413 Predicted transporter component [General function prediction only]; Region: COG2391 439375010414 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 439375010415 Predicted transporter component [General function prediction only]; Region: COG2391 439375010416 Sulphur transport; Region: Sulf_transp; pfam04143 439375010417 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439375010418 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375010419 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 439375010420 Walker A/P-loop; other site 439375010421 ATP binding site [chemical binding]; other site 439375010422 Q-loop/lid; other site 439375010423 ABC transporter signature motif; other site 439375010424 Walker B; other site 439375010425 D-loop; other site 439375010426 H-loop/switch region; other site 439375010427 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 439375010428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375010429 DNA-binding site [nucleotide binding]; DNA binding site 439375010430 FCD domain; Region: FCD; pfam07729 439375010431 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375010432 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 439375010433 active site 439375010434 inhibitor site; inhibition site 439375010435 dimer interface [polypeptide binding]; other site 439375010436 catalytic residue [active] 439375010437 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 439375010438 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 439375010439 hypothetical protein; Provisional; Region: PRK11622 439375010440 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375010441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375010442 Walker A/P-loop; other site 439375010443 ATP binding site [chemical binding]; other site 439375010444 Q-loop/lid; other site 439375010445 ABC transporter signature motif; other site 439375010446 Walker B; other site 439375010447 D-loop; other site 439375010448 H-loop/switch region; other site 439375010449 TOBE domain; Region: TOBE_2; pfam08402 439375010450 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010451 dimer interface [polypeptide binding]; other site 439375010452 conserved gate region; other site 439375010453 putative PBP binding loops; other site 439375010454 ABC-ATPase subunit interface; other site 439375010455 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375010456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010457 dimer interface [polypeptide binding]; other site 439375010458 conserved gate region; other site 439375010459 putative PBP binding loops; other site 439375010460 ABC-ATPase subunit interface; other site 439375010461 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 439375010462 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 439375010463 active site pocket [active] 439375010464 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 439375010465 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 439375010466 hypothetical protein; Validated; Region: PRK08245 439375010467 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 439375010468 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375010469 putative ligand binding site [chemical binding]; other site 439375010470 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375010471 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375010472 TM-ABC transporter signature motif; other site 439375010473 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375010474 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375010475 Walker A/P-loop; other site 439375010476 ATP binding site [chemical binding]; other site 439375010477 Q-loop/lid; other site 439375010478 ABC transporter signature motif; other site 439375010479 Walker B; other site 439375010480 D-loop; other site 439375010481 H-loop/switch region; other site 439375010482 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375010483 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 439375010484 Domain of unknown function DUF21; Region: DUF21; pfam01595 439375010485 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 439375010486 Transporter associated domain; Region: CorC_HlyC; smart01091 439375010487 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375010488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375010489 metal binding site [ion binding]; metal-binding site 439375010490 active site 439375010491 I-site; other site 439375010492 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 439375010493 Uncharacterized conserved protein [Function unknown]; Region: COG5649 439375010494 Uncharacterized conserved protein [Function unknown]; Region: COG5649 439375010495 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 439375010496 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 439375010497 active site 439375010498 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 439375010499 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375010500 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375010501 non-specific DNA binding site [nucleotide binding]; other site 439375010502 salt bridge; other site 439375010503 sequence-specific DNA binding site [nucleotide binding]; other site 439375010504 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 439375010505 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 439375010506 putative NAD(P) binding site [chemical binding]; other site 439375010507 putative active site [active] 439375010508 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375010509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375010510 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 439375010511 dimerization interface [polypeptide binding]; other site 439375010512 substrate binding pocket [chemical binding]; other site 439375010513 EamA-like transporter family; Region: EamA; pfam00892 439375010514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375010515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375010516 Transmembrane secretion effector; Region: MFS_3; pfam05977 439375010517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010519 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439375010520 LytTr DNA-binding domain; Region: LytTR; smart00850 439375010521 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439375010522 homotrimer interaction site [polypeptide binding]; other site 439375010523 putative active site [active] 439375010524 methionine sulfoxide reductase B; Provisional; Region: PRK00222 439375010525 SelR domain; Region: SelR; pfam01641 439375010526 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 439375010527 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 439375010528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010529 putative substrate translocation pore; other site 439375010530 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 439375010531 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375010532 ligand binding site [chemical binding]; other site 439375010533 flexible hinge region; other site 439375010534 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 439375010535 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375010536 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375010537 DNA binding residues [nucleotide binding] 439375010538 dimerization interface [polypeptide binding]; other site 439375010539 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 439375010540 Chain length determinant protein; Region: Wzz; cl15801 439375010541 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 439375010542 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 439375010543 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 439375010544 SLBB domain; Region: SLBB; pfam10531 439375010545 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 439375010546 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 439375010547 NADP binding site [chemical binding]; other site 439375010548 active site 439375010549 putative substrate binding site [chemical binding]; other site 439375010550 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 439375010551 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 439375010552 NADP-binding site; other site 439375010553 homotetramer interface [polypeptide binding]; other site 439375010554 substrate binding site [chemical binding]; other site 439375010555 homodimer interface [polypeptide binding]; other site 439375010556 active site 439375010557 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010558 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 439375010559 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010560 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439375010561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010562 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 439375010563 putative ADP-binding pocket [chemical binding]; other site 439375010564 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 439375010565 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 439375010566 putative trimer interface [polypeptide binding]; other site 439375010567 putative active site [active] 439375010568 putative substrate binding site [chemical binding]; other site 439375010569 putative CoA binding site [chemical binding]; other site 439375010570 Uncharacterized conserved protein [Function unknown]; Region: COG1434 439375010571 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 439375010572 putative active site [active] 439375010573 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439375010574 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 439375010575 putative metal binding site; other site 439375010576 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 439375010577 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 439375010578 Mg++ binding site [ion binding]; other site 439375010579 putative catalytic motif [active] 439375010580 substrate binding site [chemical binding]; other site 439375010581 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 439375010582 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 439375010583 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 439375010584 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 439375010585 active site 439375010586 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 439375010587 putative activation loop; other site 439375010588 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 439375010589 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 439375010590 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439375010591 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010592 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 439375010593 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 439375010594 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375010595 catalytic residue [active] 439375010596 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 439375010597 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439375010598 extended (e) SDRs; Region: SDR_e; cd08946 439375010599 NAD(P) binding site [chemical binding]; other site 439375010600 active site 439375010601 substrate binding site [chemical binding]; other site 439375010602 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 439375010603 M28 Zn-Peptidases; Region: M28_like_3; cd05644 439375010604 active site 439375010605 metal binding site [ion binding]; metal-binding site 439375010606 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 439375010607 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 439375010608 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439375010609 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375010610 S-adenosylmethionine binding site [chemical binding]; other site 439375010611 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 439375010612 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 439375010613 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375010614 active site 439375010615 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 439375010616 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 439375010617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375010618 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375010619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010620 putative substrate translocation pore; other site 439375010621 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 439375010622 MarR family; Region: MarR_2; pfam12802 439375010623 transcriptional regulator SlyA; Provisional; Region: PRK03573 439375010624 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 439375010625 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 439375010626 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 439375010627 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375010628 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375010629 DNA binding residues [nucleotide binding] 439375010630 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 439375010631 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 439375010632 active site 439375010633 homotetramer interface [polypeptide binding]; other site 439375010634 homodimer interface [polypeptide binding]; other site 439375010635 L-asparagine permease; Provisional; Region: PRK15049 439375010636 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375010637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375010638 DNA-binding site [nucleotide binding]; DNA binding site 439375010639 FCD domain; Region: FCD; pfam07729 439375010640 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439375010641 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010642 putative substrate translocation pore; other site 439375010643 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 439375010644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375010645 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 439375010646 putative dimerization interface [polypeptide binding]; other site 439375010647 putative substrate binding pocket [chemical binding]; other site 439375010648 NADH(P)-binding; Region: NAD_binding_10; pfam13460 439375010649 extended (e) SDRs; Region: SDR_e; cd08946 439375010650 NAD(P) binding site [chemical binding]; other site 439375010651 active site 439375010652 substrate binding site [chemical binding]; other site 439375010653 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375010654 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375010655 Walker A/P-loop; other site 439375010656 ATP binding site [chemical binding]; other site 439375010657 Q-loop/lid; other site 439375010658 ABC transporter signature motif; other site 439375010659 Walker B; other site 439375010660 D-loop; other site 439375010661 H-loop/switch region; other site 439375010662 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375010663 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375010664 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375010665 TM-ABC transporter signature motif; other site 439375010666 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 439375010667 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 439375010668 putative ligand binding site [chemical binding]; other site 439375010669 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 439375010670 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 439375010671 Metal-binding active site; metal-binding site 439375010672 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 439375010673 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375010674 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375010675 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375010676 xylose isomerase; Provisional; Region: PRK05474 439375010677 xylose isomerase; Region: xylose_isom_A; TIGR02630 439375010678 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 439375010679 N- and C-terminal domain interface [polypeptide binding]; other site 439375010680 D-xylulose kinase; Region: XylB; TIGR01312 439375010681 active site 439375010682 MgATP binding site [chemical binding]; other site 439375010683 catalytic site [active] 439375010684 metal binding site [ion binding]; metal-binding site 439375010685 xylulose binding site [chemical binding]; other site 439375010686 homodimer interface [polypeptide binding]; other site 439375010687 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375010688 DNA binding site [nucleotide binding] 439375010689 domain linker motif; other site 439375010690 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 439375010691 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375010692 putative ligand binding site [chemical binding]; other site 439375010693 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 439375010694 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 439375010695 putative ligand binding site [chemical binding]; other site 439375010696 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 439375010697 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375010698 Walker A/P-loop; other site 439375010699 ATP binding site [chemical binding]; other site 439375010700 Q-loop/lid; other site 439375010701 ABC transporter signature motif; other site 439375010702 Walker B; other site 439375010703 D-loop; other site 439375010704 H-loop/switch region; other site 439375010705 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375010706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375010707 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375010708 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375010709 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375010710 TM-ABC transporter signature motif; other site 439375010711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 439375010712 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 439375010713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 439375010714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375010715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375010716 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 439375010717 putative dimerization interface [polypeptide binding]; other site 439375010718 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375010719 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 439375010720 HPP family; Region: HPP; pfam04982 439375010721 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 439375010722 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 439375010723 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439375010724 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439375010725 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 439375010726 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 439375010727 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010728 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 439375010729 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 439375010730 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010731 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 439375010732 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375010733 S-adenosylmethionine binding site [chemical binding]; other site 439375010734 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439375010735 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 439375010736 Probable Catalytic site; other site 439375010737 metal-binding site 439375010738 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 439375010739 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 439375010740 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 439375010741 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375010742 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375010743 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 439375010744 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375010745 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 439375010746 Walker A/P-loop; other site 439375010747 ATP binding site [chemical binding]; other site 439375010748 Q-loop/lid; other site 439375010749 ABC transporter signature motif; other site 439375010750 Walker B; other site 439375010751 D-loop; other site 439375010752 H-loop/switch region; other site 439375010753 MarR family; Region: MarR_2; pfam12802 439375010754 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010755 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 439375010756 putative ADP-binding pocket [chemical binding]; other site 439375010757 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 439375010758 active site 439375010759 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439375010760 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439375010761 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 439375010762 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 439375010763 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 439375010764 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 439375010765 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 439375010766 Transglycosylase; Region: Transgly; pfam00912 439375010767 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 439375010768 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 439375010769 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 439375010770 putative binding site; other site 439375010771 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 439375010772 MG2 domain; Region: A2M_N; pfam01835 439375010773 Alpha-2-macroglobulin family; Region: A2M; pfam00207 439375010774 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 439375010775 surface patch; other site 439375010776 thioester region; other site 439375010777 specificity defining residues; other site 439375010778 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 439375010779 short chain dehydrogenase; Provisional; Region: PRK12937 439375010780 NADP binding site [chemical binding]; other site 439375010781 homodimer interface [polypeptide binding]; other site 439375010782 active site 439375010783 substrate binding site [chemical binding]; other site 439375010784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375010785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375010786 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 439375010787 putative effector binding pocket; other site 439375010788 putative dimerization interface [polypeptide binding]; other site 439375010789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375010790 Coenzyme A binding pocket [chemical binding]; other site 439375010791 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375010792 Autotransporter beta-domain; Region: Autotransporter; pfam03797 439375010793 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 439375010794 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 439375010795 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 439375010796 NAD binding site [chemical binding]; other site 439375010797 catalytic Zn binding site [ion binding]; other site 439375010798 structural Zn binding site [ion binding]; other site 439375010799 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375010800 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375010801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010802 dimer interface [polypeptide binding]; other site 439375010803 conserved gate region; other site 439375010804 putative PBP binding loops; other site 439375010805 ABC-ATPase subunit interface; other site 439375010806 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375010807 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010808 dimer interface [polypeptide binding]; other site 439375010809 conserved gate region; other site 439375010810 putative PBP binding loops; other site 439375010811 ABC-ATPase subunit interface; other site 439375010812 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375010813 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375010814 Walker A/P-loop; other site 439375010815 ATP binding site [chemical binding]; other site 439375010816 Q-loop/lid; other site 439375010817 ABC transporter signature motif; other site 439375010818 Walker B; other site 439375010819 D-loop; other site 439375010820 H-loop/switch region; other site 439375010821 TOBE domain; Region: TOBE_2; pfam08402 439375010822 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 439375010823 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375010824 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375010825 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375010826 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375010827 DNA binding site [nucleotide binding] 439375010828 domain linker motif; other site 439375010829 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 439375010830 ligand binding site [chemical binding]; other site 439375010831 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 439375010832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375010833 DNA-binding site [nucleotide binding]; DNA binding site 439375010834 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375010835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375010836 homodimer interface [polypeptide binding]; other site 439375010837 catalytic residue [active] 439375010838 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 439375010839 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375010840 Walker A/P-loop; other site 439375010841 ATP binding site [chemical binding]; other site 439375010842 Q-loop/lid; other site 439375010843 ABC transporter signature motif; other site 439375010844 Walker B; other site 439375010845 D-loop; other site 439375010846 H-loop/switch region; other site 439375010847 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375010848 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010849 dimer interface [polypeptide binding]; other site 439375010850 conserved gate region; other site 439375010851 putative PBP binding loops; other site 439375010852 ABC-ATPase subunit interface; other site 439375010853 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375010854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010855 dimer interface [polypeptide binding]; other site 439375010856 conserved gate region; other site 439375010857 putative PBP binding loops; other site 439375010858 ABC-ATPase subunit interface; other site 439375010859 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 439375010860 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375010861 substrate binding pocket [chemical binding]; other site 439375010862 membrane-bound complex binding site; other site 439375010863 hinge residues; other site 439375010864 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 439375010865 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 439375010866 putative active site [active] 439375010867 Zn binding site [ion binding]; other site 439375010868 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 439375010869 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439375010870 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 439375010871 active site 439375010872 ectoine utilization protein EutC; Validated; Region: PRK08291 439375010873 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 439375010874 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 439375010875 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 439375010876 tetramer interface [polypeptide binding]; other site 439375010877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375010878 catalytic residue [active] 439375010879 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375010880 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375010881 dimerization interface [polypeptide binding]; other site 439375010882 putative DNA binding site [nucleotide binding]; other site 439375010883 putative Zn2+ binding site [ion binding]; other site 439375010884 AsnC family; Region: AsnC_trans_reg; pfam01037 439375010885 succinic semialdehyde dehydrogenase; Region: PLN02278 439375010886 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 439375010887 tetramerization interface [polypeptide binding]; other site 439375010888 NAD(P) binding site [chemical binding]; other site 439375010889 catalytic residues [active] 439375010890 hypothetical protein; Provisional; Region: PRK07482 439375010891 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375010892 inhibitor-cofactor binding pocket; inhibition site 439375010893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375010894 catalytic residue [active] 439375010895 Uncharacterized conserved protein [Function unknown]; Region: COG3189 439375010896 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 439375010897 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375010898 N-terminal plug; other site 439375010899 ligand-binding site [chemical binding]; other site 439375010900 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 439375010901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375010902 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375010903 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 439375010904 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375010905 Walker A/P-loop; other site 439375010906 ATP binding site [chemical binding]; other site 439375010907 Q-loop/lid; other site 439375010908 ABC transporter signature motif; other site 439375010909 Walker B; other site 439375010910 D-loop; other site 439375010911 H-loop/switch region; other site 439375010912 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 439375010913 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 439375010914 C-terminal domain interface [polypeptide binding]; other site 439375010915 GSH binding site (G-site) [chemical binding]; other site 439375010916 dimer interface [polypeptide binding]; other site 439375010917 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 439375010918 N-terminal domain interface [polypeptide binding]; other site 439375010919 dimer interface [polypeptide binding]; other site 439375010920 substrate binding pocket (H-site) [chemical binding]; other site 439375010921 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439375010922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375010923 active site 439375010924 phosphorylation site [posttranslational modification] 439375010925 intermolecular recognition site; other site 439375010926 dimerization interface [polypeptide binding]; other site 439375010927 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375010928 Walker A motif; other site 439375010929 ATP binding site [chemical binding]; other site 439375010930 Walker B motif; other site 439375010931 arginine finger; other site 439375010932 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439375010933 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 439375010934 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375010935 dimer interface [polypeptide binding]; other site 439375010936 phosphorylation site [posttranslational modification] 439375010937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375010938 ATP binding site [chemical binding]; other site 439375010939 Mg2+ binding site [ion binding]; other site 439375010940 G-X-G motif; other site 439375010941 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 439375010942 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 439375010943 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 439375010944 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375010945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375010946 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 439375010947 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 439375010948 TrkA-C domain; Region: TrkA_C; pfam02080 439375010949 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 439375010950 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 439375010951 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375010952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375010953 homodimer interface [polypeptide binding]; other site 439375010954 catalytic residue [active] 439375010955 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375010956 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 439375010957 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 439375010958 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 439375010959 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375010960 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 439375010961 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375010962 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 439375010963 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 439375010964 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 439375010965 homoserine O-succinyltransferase; Provisional; Region: PRK05368 439375010966 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 439375010967 proposed active site lysine [active] 439375010968 conserved cys residue [active] 439375010969 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439375010970 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375010971 putative substrate translocation pore; other site 439375010972 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 439375010973 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 439375010974 active site 439375010975 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 439375010976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375010977 DNA-binding site [nucleotide binding]; DNA binding site 439375010978 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375010979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375010980 homodimer interface [polypeptide binding]; other site 439375010981 catalytic residue [active] 439375010982 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 439375010983 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 439375010984 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 439375010985 AsnC family; Region: AsnC_trans_reg; pfam01037 439375010986 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375010987 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375010988 substrate binding pocket [chemical binding]; other site 439375010989 membrane-bound complex binding site; other site 439375010990 hinge residues; other site 439375010991 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375010992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010993 dimer interface [polypeptide binding]; other site 439375010994 conserved gate region; other site 439375010995 putative PBP binding loops; other site 439375010996 ABC-ATPase subunit interface; other site 439375010997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375010998 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375010999 putative PBP binding loops; other site 439375011000 dimer interface [polypeptide binding]; other site 439375011001 ABC-ATPase subunit interface; other site 439375011002 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375011003 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375011004 Walker A/P-loop; other site 439375011005 ATP binding site [chemical binding]; other site 439375011006 Q-loop/lid; other site 439375011007 ABC transporter signature motif; other site 439375011008 Walker B; other site 439375011009 D-loop; other site 439375011010 H-loop/switch region; other site 439375011011 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 439375011012 putative metal binding site [ion binding]; other site 439375011013 putative dimer interface [polypeptide binding]; other site 439375011014 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 439375011015 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 439375011016 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439375011017 PYR/PP interface [polypeptide binding]; other site 439375011018 dimer interface [polypeptide binding]; other site 439375011019 TPP binding site [chemical binding]; other site 439375011020 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439375011021 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 439375011022 TPP-binding site; other site 439375011023 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375011024 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375011025 SnoaL-like domain; Region: SnoaL_2; pfam12680 439375011026 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375011027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011028 ABC-ATPase subunit interface; other site 439375011029 putative PBP binding loops; other site 439375011030 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 439375011031 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375011032 Walker A/P-loop; other site 439375011033 ATP binding site [chemical binding]; other site 439375011034 Q-loop/lid; other site 439375011035 ABC transporter signature motif; other site 439375011036 Walker B; other site 439375011037 D-loop; other site 439375011038 H-loop/switch region; other site 439375011039 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 439375011040 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375011041 substrate binding pocket [chemical binding]; other site 439375011042 membrane-bound complex binding site; other site 439375011043 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 439375011044 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375011045 DNA-binding site [nucleotide binding]; DNA binding site 439375011046 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375011047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375011048 homodimer interface [polypeptide binding]; other site 439375011049 catalytic residue [active] 439375011050 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439375011051 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439375011052 ligand binding site [chemical binding]; other site 439375011053 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 439375011054 NMT1/THI5 like; Region: NMT1; pfam09084 439375011055 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375011056 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375011057 Walker A/P-loop; other site 439375011058 ATP binding site [chemical binding]; other site 439375011059 Q-loop/lid; other site 439375011060 ABC transporter signature motif; other site 439375011061 Walker B; other site 439375011062 D-loop; other site 439375011063 H-loop/switch region; other site 439375011064 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375011065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011066 dimer interface [polypeptide binding]; other site 439375011067 conserved gate region; other site 439375011068 putative PBP binding loops; other site 439375011069 ABC-ATPase subunit interface; other site 439375011070 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 439375011071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375011072 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 439375011073 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375011074 dimer interface [polypeptide binding]; other site 439375011075 phosphorylation site [posttranslational modification] 439375011076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375011077 ATP binding site [chemical binding]; other site 439375011078 Mg2+ binding site [ion binding]; other site 439375011079 G-X-G motif; other site 439375011080 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375011081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375011082 active site 439375011083 phosphorylation site [posttranslational modification] 439375011084 intermolecular recognition site; other site 439375011085 dimerization interface [polypeptide binding]; other site 439375011086 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375011087 DNA binding site [nucleotide binding] 439375011088 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375011089 Coenzyme A binding pocket [chemical binding]; other site 439375011090 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 439375011091 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 439375011092 putative metal binding site [ion binding]; other site 439375011093 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375011094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011095 dimer interface [polypeptide binding]; other site 439375011096 conserved gate region; other site 439375011097 putative PBP binding loops; other site 439375011098 ABC-ATPase subunit interface; other site 439375011099 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375011100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011101 dimer interface [polypeptide binding]; other site 439375011102 conserved gate region; other site 439375011103 putative PBP binding loops; other site 439375011104 ABC-ATPase subunit interface; other site 439375011105 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 439375011106 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375011107 Walker A/P-loop; other site 439375011108 ATP binding site [chemical binding]; other site 439375011109 Q-loop/lid; other site 439375011110 ABC transporter signature motif; other site 439375011111 Walker B; other site 439375011112 D-loop; other site 439375011113 H-loop/switch region; other site 439375011114 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 439375011115 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375011116 substrate binding pocket [chemical binding]; other site 439375011117 membrane-bound complex binding site; other site 439375011118 hinge residues; other site 439375011119 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 439375011120 MPT binding site; other site 439375011121 trimer interface [polypeptide binding]; other site 439375011122 Uncharacterized conserved protein [Function unknown]; Region: COG2308 439375011123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 439375011124 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 439375011125 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 439375011126 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 439375011127 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 439375011128 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 439375011129 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 439375011130 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375011131 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 439375011132 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 439375011133 dimer interface [polypeptide binding]; other site 439375011134 FMN binding site [chemical binding]; other site 439375011135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 439375011136 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 439375011137 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 439375011138 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439375011139 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 439375011140 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 439375011141 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 439375011142 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 439375011143 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 439375011144 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439375011145 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 439375011146 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 439375011147 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 439375011148 Predicted transcriptional regulators [Transcription]; Region: COG1510 439375011149 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375011150 dimerization interface [polypeptide binding]; other site 439375011151 putative DNA binding site [nucleotide binding]; other site 439375011152 putative Zn2+ binding site [ion binding]; other site 439375011153 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 439375011154 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439375011155 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 439375011156 Walker A/P-loop; other site 439375011157 ATP binding site [chemical binding]; other site 439375011158 Q-loop/lid; other site 439375011159 ABC transporter signature motif; other site 439375011160 Walker B; other site 439375011161 D-loop; other site 439375011162 H-loop/switch region; other site 439375011163 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 439375011164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375011165 Walker A/P-loop; other site 439375011166 ATP binding site [chemical binding]; other site 439375011167 Q-loop/lid; other site 439375011168 ABC transporter signature motif; other site 439375011169 Walker B; other site 439375011170 D-loop; other site 439375011171 H-loop/switch region; other site 439375011172 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 439375011173 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 439375011174 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 439375011175 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 439375011176 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 439375011177 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439375011178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375011179 DNA-binding site [nucleotide binding]; DNA binding site 439375011180 UTRA domain; Region: UTRA; pfam07702 439375011181 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 439375011182 nucleotide binding site [chemical binding]; other site 439375011183 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375011184 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375011185 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 439375011186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011187 dimer interface [polypeptide binding]; other site 439375011188 conserved gate region; other site 439375011189 putative PBP binding loops; other site 439375011190 ABC-ATPase subunit interface; other site 439375011191 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375011192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011193 dimer interface [polypeptide binding]; other site 439375011194 conserved gate region; other site 439375011195 putative PBP binding loops; other site 439375011196 ABC-ATPase subunit interface; other site 439375011197 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375011198 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375011199 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375011200 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375011201 Walker A/P-loop; other site 439375011202 ATP binding site [chemical binding]; other site 439375011203 Q-loop/lid; other site 439375011204 ABC transporter signature motif; other site 439375011205 Walker B; other site 439375011206 D-loop; other site 439375011207 H-loop/switch region; other site 439375011208 TOBE domain; Region: TOBE_2; pfam08402 439375011209 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 439375011210 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 439375011211 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 439375011212 tetramer interface [polypeptide binding]; other site 439375011213 TPP-binding site [chemical binding]; other site 439375011214 heterodimer interface [polypeptide binding]; other site 439375011215 phosphorylation loop region [posttranslational modification] 439375011216 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 439375011217 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 439375011218 alpha subunit interface [polypeptide binding]; other site 439375011219 TPP binding site [chemical binding]; other site 439375011220 heterodimer interface [polypeptide binding]; other site 439375011221 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375011222 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 439375011223 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375011224 E3 interaction surface; other site 439375011225 lipoyl attachment site [posttranslational modification]; other site 439375011226 e3 binding domain; Region: E3_binding; pfam02817 439375011227 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 439375011228 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 439375011229 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375011230 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439375011231 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 439375011232 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 439375011233 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 439375011234 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 439375011235 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 439375011236 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439375011237 Walker A/P-loop; other site 439375011238 ATP binding site [chemical binding]; other site 439375011239 Q-loop/lid; other site 439375011240 ABC transporter signature motif; other site 439375011241 Walker B; other site 439375011242 D-loop; other site 439375011243 H-loop/switch region; other site 439375011244 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439375011245 FtsX-like permease family; Region: FtsX; pfam02687 439375011246 macrolide transporter subunit MacA; Provisional; Region: PRK11578 439375011247 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375011248 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375011249 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 439375011250 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 439375011251 homodimer interface [polypeptide binding]; other site 439375011252 homotetramer interface [polypeptide binding]; other site 439375011253 active site pocket [active] 439375011254 cleavage site 439375011255 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439375011256 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 439375011257 homodimer interface [polypeptide binding]; other site 439375011258 substrate-cofactor binding pocket; other site 439375011259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375011260 catalytic residue [active] 439375011261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375011262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375011263 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375011264 dimerization interface [polypeptide binding]; other site 439375011265 benzoate transport; Region: 2A0115; TIGR00895 439375011266 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375011267 putative substrate translocation pore; other site 439375011268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375011269 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 439375011270 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 439375011271 N- and C-terminal domain interface [polypeptide binding]; other site 439375011272 putative active site [active] 439375011273 putative MgATP binding site [chemical binding]; other site 439375011274 putative catalytic site [active] 439375011275 metal binding site [ion binding]; metal-binding site 439375011276 putative carbohydrate binding site [chemical binding]; other site 439375011277 Domain of unknown function (DUF718); Region: DUF718; pfam05336 439375011278 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375011279 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375011280 TM-ABC transporter signature motif; other site 439375011281 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375011282 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375011283 TM-ABC transporter signature motif; other site 439375011284 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375011285 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375011286 Walker A/P-loop; other site 439375011287 ATP binding site [chemical binding]; other site 439375011288 Q-loop/lid; other site 439375011289 ABC transporter signature motif; other site 439375011290 Walker B; other site 439375011291 D-loop; other site 439375011292 H-loop/switch region; other site 439375011293 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375011294 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 439375011295 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 439375011296 ligand binding site [chemical binding]; other site 439375011297 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 439375011298 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 439375011299 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 439375011300 short chain dehydrogenase; Validated; Region: PRK08324 439375011301 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 439375011302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375011303 NAD(P) binding site [chemical binding]; other site 439375011304 active site 439375011305 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 439375011306 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 439375011307 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 439375011308 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 439375011309 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375011310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375011311 homodimer interface [polypeptide binding]; other site 439375011312 catalytic residue [active] 439375011313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375011314 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 439375011315 NAD(P) binding site [chemical binding]; other site 439375011316 active site 439375011317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375011318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375011319 Walker A/P-loop; other site 439375011320 ATP binding site [chemical binding]; other site 439375011321 Q-loop/lid; other site 439375011322 ABC transporter signature motif; other site 439375011323 Walker B; other site 439375011324 D-loop; other site 439375011325 H-loop/switch region; other site 439375011326 TOBE domain; Region: TOBE_2; pfam08402 439375011327 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375011328 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375011329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011330 dimer interface [polypeptide binding]; other site 439375011331 conserved gate region; other site 439375011332 putative PBP binding loops; other site 439375011333 ABC-ATPase subunit interface; other site 439375011334 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375011335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011336 dimer interface [polypeptide binding]; other site 439375011337 conserved gate region; other site 439375011338 putative PBP binding loops; other site 439375011339 ABC-ATPase subunit interface; other site 439375011340 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 439375011341 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 439375011342 NAD binding site [chemical binding]; other site 439375011343 dimerization interface [polypeptide binding]; other site 439375011344 product binding site; other site 439375011345 substrate binding site [chemical binding]; other site 439375011346 zinc binding site [ion binding]; other site 439375011347 catalytic residues [active] 439375011348 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439375011349 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439375011350 NAD(P) binding site [chemical binding]; other site 439375011351 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 439375011352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375011353 DNA-binding site [nucleotide binding]; DNA binding site 439375011354 UTRA domain; Region: UTRA; pfam07702 439375011355 Predicted transcriptional regulator [Transcription]; Region: COG1959 439375011356 Transcriptional regulator; Region: Rrf2; pfam02082 439375011357 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 439375011358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375011359 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375011360 EamA-like transporter family; Region: EamA; pfam00892 439375011361 EamA-like transporter family; Region: EamA; pfam00892 439375011362 Predicted membrane protein [Function unknown]; Region: COG4125 439375011363 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 439375011364 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 439375011365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375011366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375011367 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375011368 dimerization interface [polypeptide binding]; other site 439375011369 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 439375011370 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 439375011371 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375011372 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011373 dimer interface [polypeptide binding]; other site 439375011374 conserved gate region; other site 439375011375 putative PBP binding loops; other site 439375011376 ABC-ATPase subunit interface; other site 439375011377 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375011378 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375011379 Walker A/P-loop; other site 439375011380 ATP binding site [chemical binding]; other site 439375011381 Q-loop/lid; other site 439375011382 ABC transporter signature motif; other site 439375011383 Walker B; other site 439375011384 D-loop; other site 439375011385 H-loop/switch region; other site 439375011386 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375011387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011388 dimer interface [polypeptide binding]; other site 439375011389 conserved gate region; other site 439375011390 putative PBP binding loops; other site 439375011391 ABC-ATPase subunit interface; other site 439375011392 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375011393 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375011394 Walker A/P-loop; other site 439375011395 ATP binding site [chemical binding]; other site 439375011396 Q-loop/lid; other site 439375011397 ABC transporter signature motif; other site 439375011398 Walker B; other site 439375011399 D-loop; other site 439375011400 H-loop/switch region; other site 439375011401 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 439375011402 NMT1/THI5 like; Region: NMT1; pfam09084 439375011403 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439375011404 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 439375011405 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 439375011406 peptide binding site [polypeptide binding]; other site 439375011407 Porin subfamily; Region: Porin_2; pfam02530 439375011408 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 439375011409 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 439375011410 peptide binding site [polypeptide binding]; other site 439375011411 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 439375011412 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 439375011413 peptide binding site [polypeptide binding]; other site 439375011414 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 439375011415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011416 dimer interface [polypeptide binding]; other site 439375011417 conserved gate region; other site 439375011418 putative PBP binding loops; other site 439375011419 ABC-ATPase subunit interface; other site 439375011420 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 439375011421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011422 dimer interface [polypeptide binding]; other site 439375011423 conserved gate region; other site 439375011424 ABC-ATPase subunit interface; other site 439375011425 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 439375011426 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375011427 Walker A/P-loop; other site 439375011428 ATP binding site [chemical binding]; other site 439375011429 Q-loop/lid; other site 439375011430 ABC transporter signature motif; other site 439375011431 Walker B; other site 439375011432 D-loop; other site 439375011433 H-loop/switch region; other site 439375011434 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375011435 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375011436 Walker A/P-loop; other site 439375011437 ATP binding site [chemical binding]; other site 439375011438 Q-loop/lid; other site 439375011439 ABC transporter signature motif; other site 439375011440 Walker B; other site 439375011441 D-loop; other site 439375011442 H-loop/switch region; other site 439375011443 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375011444 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375011445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375011446 metal binding site [ion binding]; metal-binding site 439375011447 active site 439375011448 I-site; other site 439375011449 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 439375011450 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 439375011451 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 439375011452 putative NAD(P) binding site [chemical binding]; other site 439375011453 putative substrate binding site [chemical binding]; other site 439375011454 catalytic Zn binding site [ion binding]; other site 439375011455 structural Zn binding site [ion binding]; other site 439375011456 dimer interface [polypeptide binding]; other site 439375011457 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 439375011458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375011459 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375011460 Cytochrome c; Region: Cytochrom_C; pfam00034 439375011461 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 439375011462 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 439375011463 Cytochrome c; Region: Cytochrom_C; pfam00034 439375011464 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439375011465 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439375011466 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 439375011467 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 439375011468 CrcB-like protein; Region: CRCB; cl09114 439375011469 LysR family transcriptional regulator; Provisional; Region: PRK14997 439375011470 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 439375011471 putative effector binding pocket; other site 439375011472 putative dimerization interface [polypeptide binding]; other site 439375011473 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 439375011474 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375011475 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 439375011476 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 439375011477 putative deacylase active site [active] 439375011478 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 439375011479 Rrf2 family protein; Region: rrf2_super; TIGR00738 439375011480 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 439375011481 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375011482 Walker A/P-loop; other site 439375011483 ATP binding site [chemical binding]; other site 439375011484 Q-loop/lid; other site 439375011485 ABC transporter signature motif; other site 439375011486 Walker B; other site 439375011487 D-loop; other site 439375011488 H-loop/switch region; other site 439375011489 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 439375011490 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375011491 ABC-ATPase subunit interface; other site 439375011492 dimer interface [polypeptide binding]; other site 439375011493 putative PBP binding regions; other site 439375011494 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 439375011495 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 439375011496 putative hemin binding site; other site 439375011497 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 439375011498 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 439375011499 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 439375011500 Hemin uptake protein hemP; Region: hemP; pfam10636 439375011501 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 439375011502 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375011503 N-terminal plug; other site 439375011504 ligand-binding site [chemical binding]; other site 439375011505 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 439375011506 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 439375011507 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 439375011508 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 439375011509 heme binding site [chemical binding]; other site 439375011510 ferroxidase pore; other site 439375011511 ferroxidase diiron center [ion binding]; other site 439375011512 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 439375011513 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 439375011514 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 439375011515 FeS/SAM binding site; other site 439375011516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439375011517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375011518 Coenzyme A binding pocket [chemical binding]; other site 439375011519 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 439375011520 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 439375011521 putative ligand binding site [chemical binding]; other site 439375011522 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 439375011523 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375011524 TM-ABC transporter signature motif; other site 439375011525 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375011526 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 439375011527 TM-ABC transporter signature motif; other site 439375011528 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 439375011529 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375011530 Walker A/P-loop; other site 439375011531 ATP binding site [chemical binding]; other site 439375011532 Q-loop/lid; other site 439375011533 ABC transporter signature motif; other site 439375011534 Walker B; other site 439375011535 D-loop; other site 439375011536 H-loop/switch region; other site 439375011537 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375011538 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 439375011539 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 439375011540 NADP binding site [chemical binding]; other site 439375011541 dimer interface [polypeptide binding]; other site 439375011542 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 439375011543 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 439375011544 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 439375011545 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 439375011546 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 439375011547 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 439375011548 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 439375011549 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 439375011550 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 439375011551 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 439375011552 catalytic residues [active] 439375011553 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 439375011554 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 439375011555 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 439375011556 ATP binding site [chemical binding]; other site 439375011557 putative Mg++ binding site [ion binding]; other site 439375011558 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375011559 nucleotide binding region [chemical binding]; other site 439375011560 ATP-binding site [chemical binding]; other site 439375011561 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 439375011562 Uncharacterized conserved protein [Function unknown]; Region: COG2938 439375011563 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 439375011564 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 439375011565 generic binding surface II; other site 439375011566 ssDNA binding site; other site 439375011567 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 439375011568 ATP binding site [chemical binding]; other site 439375011569 putative Mg++ binding site [ion binding]; other site 439375011570 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375011571 nucleotide binding region [chemical binding]; other site 439375011572 ATP-binding site [chemical binding]; other site 439375011573 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 439375011574 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 439375011575 glutaminase active site [active] 439375011576 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 439375011577 dimer interface [polypeptide binding]; other site 439375011578 active site 439375011579 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 439375011580 dimer interface [polypeptide binding]; other site 439375011581 active site 439375011582 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 439375011583 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 439375011584 Substrate binding site; other site 439375011585 Mg++ binding site; other site 439375011586 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 439375011587 active site 439375011588 substrate binding site [chemical binding]; other site 439375011589 CoA binding site [chemical binding]; other site 439375011590 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 439375011591 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 439375011592 Predicted integral membrane protein [Function unknown]; Region: COG0392 439375011593 Uncharacterized conserved protein [Function unknown]; Region: COG2898 439375011594 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 439375011595 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 439375011596 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 439375011597 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 439375011598 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 439375011599 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 439375011600 Predicted membrane protein [Function unknown]; Region: COG4425 439375011601 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 439375011602 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 439375011603 SPFH domain / Band 7 family; Region: Band_7; pfam01145 439375011604 BA14K-like protein; Region: BA14K; pfam07886 439375011605 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375011606 PAS domain; Region: PAS_9; pfam13426 439375011607 putative active site [active] 439375011608 heme pocket [chemical binding]; other site 439375011609 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375011610 PAS fold; Region: PAS_3; pfam08447 439375011611 putative active site [active] 439375011612 heme pocket [chemical binding]; other site 439375011613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439375011614 HWE histidine kinase; Region: HWE_HK; pfam07536 439375011615 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 439375011616 heme-binding site [chemical binding]; other site 439375011617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375011618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375011619 metal binding site [ion binding]; metal-binding site 439375011620 active site 439375011621 I-site; other site 439375011622 lipoate-protein ligase B; Provisional; Region: PRK14341 439375011623 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375011624 EamA-like transporter family; Region: EamA; pfam00892 439375011625 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 439375011626 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375011627 Mg2+ binding site [ion binding]; other site 439375011628 G-X-G motif; other site 439375011629 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 439375011630 anchoring element; other site 439375011631 dimer interface [polypeptide binding]; other site 439375011632 ATP binding site [chemical binding]; other site 439375011633 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 439375011634 active site 439375011635 metal binding site [ion binding]; metal-binding site 439375011636 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 439375011637 Flagellar protein (FlbD); Region: FlbD; cl00683 439375011638 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439375011639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375011640 Coenzyme A binding pocket [chemical binding]; other site 439375011641 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 439375011642 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 439375011643 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375011644 Coenzyme A binding pocket [chemical binding]; other site 439375011645 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 439375011646 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 439375011647 metal-dependent hydrolase; Provisional; Region: PRK00685 439375011648 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 439375011649 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 439375011650 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439375011651 active site 439375011652 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 439375011653 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 439375011654 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 439375011655 dihydroorotase; Validated; Region: PRK09059 439375011656 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 439375011657 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 439375011658 active site 439375011659 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 439375011660 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 439375011661 DNA protecting protein DprA; Region: dprA; TIGR00732 439375011662 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 439375011663 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 439375011664 active site 439375011665 interdomain interaction site; other site 439375011666 putative metal-binding site [ion binding]; other site 439375011667 nucleotide binding site [chemical binding]; other site 439375011668 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 439375011669 domain I; other site 439375011670 DNA binding groove [nucleotide binding] 439375011671 phosphate binding site [ion binding]; other site 439375011672 domain II; other site 439375011673 domain III; other site 439375011674 nucleotide binding site [chemical binding]; other site 439375011675 catalytic site [active] 439375011676 domain IV; other site 439375011677 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 439375011678 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 439375011679 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 439375011680 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 439375011681 ribonuclease R; Region: RNase_R; TIGR02063 439375011682 RNB domain; Region: RNB; pfam00773 439375011683 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 439375011684 RNA binding site [nucleotide binding]; other site 439375011685 hypothetical protein; Provisional; Region: PRK05978 439375011686 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 439375011687 nudix motif; other site 439375011688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375011689 putative substrate translocation pore; other site 439375011690 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375011691 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 439375011692 response regulator PleD; Reviewed; Region: pleD; PRK09581 439375011693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375011694 active site 439375011695 phosphorylation site [posttranslational modification] 439375011696 intermolecular recognition site; other site 439375011697 dimerization interface [polypeptide binding]; other site 439375011698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375011699 active site 439375011700 phosphorylation site [posttranslational modification] 439375011701 intermolecular recognition site; other site 439375011702 dimerization interface [polypeptide binding]; other site 439375011703 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375011704 metal binding site [ion binding]; metal-binding site 439375011705 active site 439375011706 I-site; other site 439375011707 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439375011708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375011709 active site 439375011710 phosphorylation site [posttranslational modification] 439375011711 intermolecular recognition site; other site 439375011712 dimerization interface [polypeptide binding]; other site 439375011713 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 439375011714 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 439375011715 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 439375011716 DNA polymerase IV; Provisional; Region: PRK02794 439375011717 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 439375011718 active site 439375011719 DNA binding site [nucleotide binding] 439375011720 integrase; Provisional; Region: PRK09692 439375011721 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 439375011722 active site 439375011723 Int/Topo IB signature motif; other site 439375011724 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 439375011725 Helix-turn-helix domain; Region: HTH_36; pfam13730 439375011726 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 439375011727 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 439375011728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375011729 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375011730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375011731 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375011732 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 439375011733 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375011734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375011735 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 439375011736 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 439375011737 metal binding site [ion binding]; metal-binding site 439375011738 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 439375011739 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 439375011740 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 439375011741 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375011742 ABC-ATPase subunit interface; other site 439375011743 dimer interface [polypeptide binding]; other site 439375011744 putative PBP binding regions; other site 439375011745 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 439375011746 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375011747 ABC-ATPase subunit interface; other site 439375011748 dimer interface [polypeptide binding]; other site 439375011749 putative PBP binding regions; other site 439375011750 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375011751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375011752 Walker A/P-loop; other site 439375011753 ATP binding site [chemical binding]; other site 439375011754 Q-loop/lid; other site 439375011755 ABC transporter signature motif; other site 439375011756 Walker B; other site 439375011757 D-loop; other site 439375011758 H-loop/switch region; other site 439375011759 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 439375011760 hypothetical protein; Provisional; Region: PRK11622 439375011761 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011762 dimer interface [polypeptide binding]; other site 439375011763 conserved gate region; other site 439375011764 putative PBP binding loops; other site 439375011765 ABC-ATPase subunit interface; other site 439375011766 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375011767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011768 dimer interface [polypeptide binding]; other site 439375011769 conserved gate region; other site 439375011770 putative PBP binding loops; other site 439375011771 ABC-ATPase subunit interface; other site 439375011772 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375011773 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375011774 DNA binding site [nucleotide binding] 439375011775 domain linker motif; other site 439375011776 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 439375011777 putative dimerization interface [polypeptide binding]; other site 439375011778 putative ligand binding site [chemical binding]; other site 439375011779 Cyclic phosphodiesterase-like protein; Region: CPDase; pfam07823 439375011780 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 439375011781 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439375011782 active site 439375011783 catalytic tetrad [active] 439375011784 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375011785 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375011786 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375011787 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 439375011788 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375011789 substrate binding pocket [chemical binding]; other site 439375011790 membrane-bound complex binding site; other site 439375011791 hinge residues; other site 439375011792 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375011793 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375011794 substrate binding pocket [chemical binding]; other site 439375011795 membrane-bound complex binding site; other site 439375011796 hinge residues; other site 439375011797 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 439375011798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375011799 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 439375011800 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375011801 AsnC family; Region: AsnC_trans_reg; pfam01037 439375011802 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375011803 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011804 dimer interface [polypeptide binding]; other site 439375011805 conserved gate region; other site 439375011806 putative PBP binding loops; other site 439375011807 ABC-ATPase subunit interface; other site 439375011808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011809 dimer interface [polypeptide binding]; other site 439375011810 conserved gate region; other site 439375011811 putative PBP binding loops; other site 439375011812 ABC-ATPase subunit interface; other site 439375011813 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375011814 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 439375011815 Walker A/P-loop; other site 439375011816 ATP binding site [chemical binding]; other site 439375011817 Q-loop/lid; other site 439375011818 ABC transporter signature motif; other site 439375011819 Walker B; other site 439375011820 D-loop; other site 439375011821 H-loop/switch region; other site 439375011822 Protein of unknown function (DUF569); Region: DUF569; pfam04601 439375011823 TOBE domain; Region: TOBE_2; pfam08402 439375011824 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 439375011825 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375011826 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 439375011827 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 439375011828 dimer interface [polypeptide binding]; other site 439375011829 active site 439375011830 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 439375011831 Coenzyme A transferase; Region: CoA_trans; cl17247 439375011832 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 439375011833 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 439375011834 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375011835 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 439375011836 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 439375011837 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 439375011838 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439375011839 hypothetical protein; Provisional; Region: PRK07236 439375011840 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 439375011841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375011842 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375011843 dimerization interface [polypeptide binding]; other site 439375011844 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 439375011845 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 439375011846 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 439375011847 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 439375011848 active site 439375011849 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 439375011850 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 439375011851 heterodimer interface [polypeptide binding]; other site 439375011852 active site 439375011853 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 439375011854 tetramer interface [polypeptide binding]; other site 439375011855 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439375011856 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439375011857 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375011858 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375011859 TM-ABC transporter signature motif; other site 439375011860 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439375011861 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375011862 TM-ABC transporter signature motif; other site 439375011863 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375011864 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375011865 Walker A/P-loop; other site 439375011866 ATP binding site [chemical binding]; other site 439375011867 Q-loop/lid; other site 439375011868 ABC transporter signature motif; other site 439375011869 Walker B; other site 439375011870 D-loop; other site 439375011871 H-loop/switch region; other site 439375011872 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375011873 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375011874 Walker A/P-loop; other site 439375011875 ATP binding site [chemical binding]; other site 439375011876 Q-loop/lid; other site 439375011877 ABC transporter signature motif; other site 439375011878 Walker B; other site 439375011879 D-loop; other site 439375011880 H-loop/switch region; other site 439375011881 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 439375011882 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 439375011883 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 439375011884 active site 439375011885 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439375011886 Beta-lactamase; Region: Beta-lactamase; pfam00144 439375011887 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375011888 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375011889 Walker A/P-loop; other site 439375011890 ATP binding site [chemical binding]; other site 439375011891 Q-loop/lid; other site 439375011892 ABC transporter signature motif; other site 439375011893 Walker B; other site 439375011894 D-loop; other site 439375011895 H-loop/switch region; other site 439375011896 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375011897 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375011898 Walker A/P-loop; other site 439375011899 ATP binding site [chemical binding]; other site 439375011900 Q-loop/lid; other site 439375011901 ABC transporter signature motif; other site 439375011902 Walker B; other site 439375011903 D-loop; other site 439375011904 H-loop/switch region; other site 439375011905 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375011906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375011907 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 439375011908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011909 dimer interface [polypeptide binding]; other site 439375011910 conserved gate region; other site 439375011911 putative PBP binding loops; other site 439375011912 ABC-ATPase subunit interface; other site 439375011913 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375011914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011915 dimer interface [polypeptide binding]; other site 439375011916 conserved gate region; other site 439375011917 putative PBP binding loops; other site 439375011918 ABC-ATPase subunit interface; other site 439375011919 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375011920 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 439375011921 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 439375011922 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 439375011923 active site 439375011924 dimer interface [polypeptide binding]; other site 439375011925 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 439375011926 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 439375011927 putative ligand binding site [chemical binding]; other site 439375011928 NAD binding site [chemical binding]; other site 439375011929 catalytic site [active] 439375011930 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375011931 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375011932 Walker A/P-loop; other site 439375011933 ATP binding site [chemical binding]; other site 439375011934 Q-loop/lid; other site 439375011935 ABC transporter signature motif; other site 439375011936 Walker B; other site 439375011937 D-loop; other site 439375011938 H-loop/switch region; other site 439375011939 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375011940 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375011941 substrate binding pocket [chemical binding]; other site 439375011942 membrane-bound complex binding site; other site 439375011943 hinge residues; other site 439375011944 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375011945 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011946 dimer interface [polypeptide binding]; other site 439375011947 conserved gate region; other site 439375011948 putative PBP binding loops; other site 439375011949 ABC-ATPase subunit interface; other site 439375011950 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375011951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011952 dimer interface [polypeptide binding]; other site 439375011953 conserved gate region; other site 439375011954 putative PBP binding loops; other site 439375011955 ABC-ATPase subunit interface; other site 439375011956 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375011957 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375011958 DNA binding site [nucleotide binding] 439375011959 domain linker motif; other site 439375011960 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 439375011961 putative dimerization interface [polypeptide binding]; other site 439375011962 putative ligand binding site [chemical binding]; other site 439375011963 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375011964 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375011965 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 439375011966 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375011967 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375011968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375011969 dimer interface [polypeptide binding]; other site 439375011970 conserved gate region; other site 439375011971 ABC-ATPase subunit interface; other site 439375011972 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375011973 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375011974 Walker A/P-loop; other site 439375011975 ATP binding site [chemical binding]; other site 439375011976 Q-loop/lid; other site 439375011977 ABC transporter signature motif; other site 439375011978 Walker B; other site 439375011979 D-loop; other site 439375011980 H-loop/switch region; other site 439375011981 TOBE domain; Region: TOBE_2; pfam08402 439375011982 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 439375011983 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 439375011984 TrkA-C domain; Region: TrkA_C; pfam02080 439375011985 TrkA-C domain; Region: TrkA_C; pfam02080 439375011986 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 439375011987 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 439375011988 AAA domain; Region: AAA_33; pfam13671 439375011989 ATP-binding site [chemical binding]; other site 439375011990 Gluconate-6-phosphate binding site [chemical binding]; other site 439375011991 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 439375011992 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 439375011993 NADP binding site [chemical binding]; other site 439375011994 homodimer interface [polypeptide binding]; other site 439375011995 active site 439375011996 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375011997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375011998 DNA-binding site [nucleotide binding]; DNA binding site 439375011999 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375012000 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439375012001 FAD binding domain; Region: FAD_binding_4; pfam01565 439375012002 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439375012003 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 439375012004 putative NAD(P) binding site [chemical binding]; other site 439375012005 active site 439375012006 putative substrate binding site [chemical binding]; other site 439375012007 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 439375012008 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439375012009 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 439375012010 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 439375012011 active site pocket [active] 439375012012 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 439375012013 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 439375012014 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 439375012015 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 439375012016 DctM-like transporters; Region: DctM; pfam06808 439375012017 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439375012018 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 439375012019 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 439375012020 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 439375012021 AP (apurinic/apyrimidinic) site pocket; other site 439375012022 DNA interaction; other site 439375012023 Metal-binding active site; metal-binding site 439375012024 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 439375012025 nucleoside/Zn binding site; other site 439375012026 dimer interface [polypeptide binding]; other site 439375012027 catalytic motif [active] 439375012028 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 439375012029 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 439375012030 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 439375012031 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375012032 EamA-like transporter family; Region: EamA; pfam00892 439375012033 aminotransferase; Provisional; Region: PRK13356 439375012034 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439375012035 homodimer interface [polypeptide binding]; other site 439375012036 substrate-cofactor binding pocket; other site 439375012037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375012038 catalytic residue [active] 439375012039 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375012040 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 439375012041 FAD binding domain; Region: FAD_binding_2; pfam00890 439375012042 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 439375012043 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 439375012044 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375012045 Soluble P-type ATPase [General function prediction only]; Region: COG4087 439375012046 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 439375012047 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 439375012048 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 439375012049 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 439375012050 Ligand Binding Site [chemical binding]; other site 439375012051 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 439375012052 GAF domain; Region: GAF_3; pfam13492 439375012053 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375012054 dimer interface [polypeptide binding]; other site 439375012055 phosphorylation site [posttranslational modification] 439375012056 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375012057 ATP binding site [chemical binding]; other site 439375012058 Mg2+ binding site [ion binding]; other site 439375012059 G-X-G motif; other site 439375012060 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375012061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375012062 active site 439375012063 phosphorylation site [posttranslational modification] 439375012064 intermolecular recognition site; other site 439375012065 dimerization interface [polypeptide binding]; other site 439375012066 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375012067 DNA binding site [nucleotide binding] 439375012068 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 439375012069 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 439375012070 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375012071 NAD binding site [chemical binding]; other site 439375012072 catalytic residues [active] 439375012073 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 439375012074 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375012075 Walker A/P-loop; other site 439375012076 ATP binding site [chemical binding]; other site 439375012077 Q-loop/lid; other site 439375012078 ABC transporter signature motif; other site 439375012079 Walker B; other site 439375012080 D-loop; other site 439375012081 H-loop/switch region; other site 439375012082 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375012083 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439375012084 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375012085 Walker A/P-loop; other site 439375012086 ATP binding site [chemical binding]; other site 439375012087 Q-loop/lid; other site 439375012088 ABC transporter signature motif; other site 439375012089 Walker B; other site 439375012090 D-loop; other site 439375012091 H-loop/switch region; other site 439375012092 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375012093 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 439375012094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012095 dimer interface [polypeptide binding]; other site 439375012096 conserved gate region; other site 439375012097 putative PBP binding loops; other site 439375012098 ABC-ATPase subunit interface; other site 439375012099 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375012100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012101 dimer interface [polypeptide binding]; other site 439375012102 conserved gate region; other site 439375012103 putative PBP binding loops; other site 439375012104 ABC-ATPase subunit interface; other site 439375012105 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 439375012106 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 439375012107 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 439375012108 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 439375012109 active site 439375012110 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 439375012111 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 439375012112 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 439375012113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012114 dimer interface [polypeptide binding]; other site 439375012115 conserved gate region; other site 439375012116 ABC-ATPase subunit interface; other site 439375012117 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 439375012118 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 439375012119 Walker A/P-loop; other site 439375012120 ATP binding site [chemical binding]; other site 439375012121 Q-loop/lid; other site 439375012122 ABC transporter signature motif; other site 439375012123 Walker B; other site 439375012124 D-loop; other site 439375012125 H-loop/switch region; other site 439375012126 NIL domain; Region: NIL; pfam09383 439375012127 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 439375012128 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 439375012129 hypothetical protein; Provisional; Region: PRK08912 439375012130 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375012131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375012132 homodimer interface [polypeptide binding]; other site 439375012133 catalytic residue [active] 439375012134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375012135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375012136 hypothetical protein; Validated; Region: PRK09071 439375012137 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 439375012138 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 439375012139 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 439375012140 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375012141 N-terminal plug; other site 439375012142 ligand-binding site [chemical binding]; other site 439375012143 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 439375012144 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 439375012145 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 439375012146 putative ligand binding residues [chemical binding]; other site 439375012147 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439375012148 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375012149 ABC-ATPase subunit interface; other site 439375012150 dimer interface [polypeptide binding]; other site 439375012151 putative PBP binding regions; other site 439375012152 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375012153 ABC-ATPase subunit interface; other site 439375012154 dimer interface [polypeptide binding]; other site 439375012155 putative PBP binding regions; other site 439375012156 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 439375012157 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375012158 Walker A/P-loop; other site 439375012159 ATP binding site [chemical binding]; other site 439375012160 Q-loop/lid; other site 439375012161 ABC transporter signature motif; other site 439375012162 Walker B; other site 439375012163 D-loop; other site 439375012164 H-loop/switch region; other site 439375012165 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 439375012166 putative active site [active] 439375012167 Zn binding site [ion binding]; other site 439375012168 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375012169 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012170 dimer interface [polypeptide binding]; other site 439375012171 conserved gate region; other site 439375012172 putative PBP binding loops; other site 439375012173 ABC-ATPase subunit interface; other site 439375012174 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375012175 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012176 dimer interface [polypeptide binding]; other site 439375012177 conserved gate region; other site 439375012178 putative PBP binding loops; other site 439375012179 ABC-ATPase subunit interface; other site 439375012180 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375012181 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 439375012182 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375012183 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375012184 Walker A/P-loop; other site 439375012185 ATP binding site [chemical binding]; other site 439375012186 Q-loop/lid; other site 439375012187 ABC transporter signature motif; other site 439375012188 Walker B; other site 439375012189 D-loop; other site 439375012190 H-loop/switch region; other site 439375012191 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375012192 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375012193 Walker A/P-loop; other site 439375012194 ATP binding site [chemical binding]; other site 439375012195 Q-loop/lid; other site 439375012196 ABC transporter signature motif; other site 439375012197 Walker B; other site 439375012198 D-loop; other site 439375012199 H-loop/switch region; other site 439375012200 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 439375012201 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 439375012202 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375012203 5-oxoprolinase; Region: PLN02666 439375012204 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 439375012205 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 439375012206 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 439375012207 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375012208 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375012209 substrate binding pocket [chemical binding]; other site 439375012210 membrane-bound complex binding site; other site 439375012211 hinge residues; other site 439375012212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012213 dimer interface [polypeptide binding]; other site 439375012214 conserved gate region; other site 439375012215 putative PBP binding loops; other site 439375012216 ABC-ATPase subunit interface; other site 439375012217 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375012218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375012219 Walker A/P-loop; other site 439375012220 ATP binding site [chemical binding]; other site 439375012221 Q-loop/lid; other site 439375012222 ABC transporter signature motif; other site 439375012223 Walker B; other site 439375012224 D-loop; other site 439375012225 H-loop/switch region; other site 439375012226 exopolyphosphatase; Region: exo_poly_only; TIGR03706 439375012227 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 439375012228 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 439375012229 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375012230 S-adenosylmethionine binding site [chemical binding]; other site 439375012231 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012232 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375012233 putative substrate translocation pore; other site 439375012234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012235 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375012236 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375012237 Walker A/P-loop; other site 439375012238 ATP binding site [chemical binding]; other site 439375012239 Q-loop/lid; other site 439375012240 ABC transporter signature motif; other site 439375012241 Walker B; other site 439375012242 D-loop; other site 439375012243 H-loop/switch region; other site 439375012244 TOBE domain; Region: TOBE; pfam03459 439375012245 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375012246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012247 dimer interface [polypeptide binding]; other site 439375012248 conserved gate region; other site 439375012249 putative PBP binding loops; other site 439375012250 ABC-ATPase subunit interface; other site 439375012251 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012252 dimer interface [polypeptide binding]; other site 439375012253 conserved gate region; other site 439375012254 putative PBP binding loops; other site 439375012255 ABC-ATPase subunit interface; other site 439375012256 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375012257 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375012258 riboflavin synthase subunit beta; Provisional; Region: PRK12419 439375012259 active site 439375012260 homopentamer interface [polypeptide binding]; other site 439375012261 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 439375012262 Putative phosphatase (DUF442); Region: DUF442; cl17385 439375012263 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 439375012264 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 439375012265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375012266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375012267 metal binding site [ion binding]; metal-binding site 439375012268 active site 439375012269 I-site; other site 439375012270 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 439375012271 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 439375012272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012273 dimer interface [polypeptide binding]; other site 439375012274 conserved gate region; other site 439375012275 putative PBP binding loops; other site 439375012276 ABC-ATPase subunit interface; other site 439375012277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012278 dimer interface [polypeptide binding]; other site 439375012279 conserved gate region; other site 439375012280 putative PBP binding loops; other site 439375012281 ABC-ATPase subunit interface; other site 439375012282 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439375012283 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375012284 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375012285 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 439375012286 Walker A/P-loop; other site 439375012287 ATP binding site [chemical binding]; other site 439375012288 Q-loop/lid; other site 439375012289 ABC transporter signature motif; other site 439375012290 Walker B; other site 439375012291 D-loop; other site 439375012292 H-loop/switch region; other site 439375012293 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375012294 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375012295 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 439375012296 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 439375012297 E-class dimer interface [polypeptide binding]; other site 439375012298 P-class dimer interface [polypeptide binding]; other site 439375012299 active site 439375012300 Cu2+ binding site [ion binding]; other site 439375012301 Zn2+ binding site [ion binding]; other site 439375012302 multicopper oxidase; Provisional; Region: PRK10965 439375012303 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 439375012304 Multicopper oxidase; Region: Cu-oxidase; pfam00394 439375012305 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 439375012306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012307 metabolite-proton symporter; Region: 2A0106; TIGR00883 439375012308 putative substrate translocation pore; other site 439375012309 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 439375012310 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 439375012311 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 439375012312 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 439375012313 dimer interface [polypeptide binding]; other site 439375012314 decamer (pentamer of dimers) interface [polypeptide binding]; other site 439375012315 catalytic triad [active] 439375012316 peroxidatic and resolving cysteines [active] 439375012317 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 439375012318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375012319 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 439375012320 dimerization interface [polypeptide binding]; other site 439375012321 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 439375012322 HTH DNA binding domain; Region: HTH_13; pfam11972 439375012323 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375012324 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375012325 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375012326 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375012327 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375012328 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375012329 putative active site [active] 439375012330 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375012331 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 439375012332 substrate binding site [chemical binding]; other site 439375012333 ATP binding site [chemical binding]; other site 439375012334 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 439375012335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 439375012336 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 439375012337 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439375012338 PYR/PP interface [polypeptide binding]; other site 439375012339 dimer interface [polypeptide binding]; other site 439375012340 TPP binding site [chemical binding]; other site 439375012341 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439375012342 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 439375012343 TPP-binding site; other site 439375012344 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 439375012345 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 439375012346 Predicted membrane protein [Function unknown]; Region: COG2259 439375012347 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439375012348 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 439375012349 active site 439375012350 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375012351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375012352 Walker A/P-loop; other site 439375012353 ATP binding site [chemical binding]; other site 439375012354 Q-loop/lid; other site 439375012355 ABC transporter signature motif; other site 439375012356 Walker B; other site 439375012357 D-loop; other site 439375012358 H-loop/switch region; other site 439375012359 TOBE domain; Region: TOBE_2; pfam08402 439375012360 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 439375012361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012362 dimer interface [polypeptide binding]; other site 439375012363 conserved gate region; other site 439375012364 putative PBP binding loops; other site 439375012365 ABC-ATPase subunit interface; other site 439375012366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012367 dimer interface [polypeptide binding]; other site 439375012368 conserved gate region; other site 439375012369 putative PBP binding loops; other site 439375012370 ABC-ATPase subunit interface; other site 439375012371 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 439375012372 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 439375012373 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 439375012374 Glutamate binding site [chemical binding]; other site 439375012375 NAD binding site [chemical binding]; other site 439375012376 catalytic residues [active] 439375012377 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 439375012378 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 439375012379 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375012380 putative DNA binding site [nucleotide binding]; other site 439375012381 putative Zn2+ binding site [ion binding]; other site 439375012382 AsnC family; Region: AsnC_trans_reg; pfam01037 439375012383 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 439375012384 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 439375012385 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 439375012386 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439375012387 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 439375012388 putative NAD(P) binding site [chemical binding]; other site 439375012389 catalytic Zn binding site [ion binding]; other site 439375012390 sorbitol dehydrogenase; Provisional; Region: PRK07067 439375012391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375012392 NAD(P) binding site [chemical binding]; other site 439375012393 active site 439375012394 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 439375012395 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375012396 Walker A/P-loop; other site 439375012397 ATP binding site [chemical binding]; other site 439375012398 Q-loop/lid; other site 439375012399 ABC transporter signature motif; other site 439375012400 Walker B; other site 439375012401 D-loop; other site 439375012402 H-loop/switch region; other site 439375012403 TOBE domain; Region: TOBE_2; pfam08402 439375012404 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375012405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012406 dimer interface [polypeptide binding]; other site 439375012407 conserved gate region; other site 439375012408 putative PBP binding loops; other site 439375012409 ABC-ATPase subunit interface; other site 439375012410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375012411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012412 putative PBP binding loops; other site 439375012413 ABC-ATPase subunit interface; other site 439375012414 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375012415 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375012416 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375012417 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375012418 DNA binding site [nucleotide binding] 439375012419 domain linker motif; other site 439375012420 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 439375012421 dimerization interface [polypeptide binding]; other site 439375012422 ligand binding site [chemical binding]; other site 439375012423 Imelysin; Region: Peptidase_M75; pfam09375 439375012424 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 439375012425 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 439375012426 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 439375012427 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 439375012428 Imelysin; Region: Peptidase_M75; pfam09375 439375012429 Iron permease FTR1 family; Region: FTR1; cl00475 439375012430 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 439375012431 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 439375012432 glycine dehydrogenase; Provisional; Region: PRK05367 439375012433 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 439375012434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375012435 tetramer interface [polypeptide binding]; other site 439375012436 catalytic residue [active] 439375012437 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 439375012438 tetramer interface [polypeptide binding]; other site 439375012439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375012440 catalytic residue [active] 439375012441 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 439375012442 lipoyl attachment site [posttranslational modification]; other site 439375012443 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 439375012444 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 439375012445 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 439375012446 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 439375012447 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375012449 putative substrate translocation pore; other site 439375012450 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439375012451 homotrimer interaction site [polypeptide binding]; other site 439375012452 putative active site [active] 439375012453 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 439375012454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439375012455 Creatinine amidohydrolase; Region: Creatininase; pfam02633 439375012456 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375012457 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375012458 Walker A/P-loop; other site 439375012459 ATP binding site [chemical binding]; other site 439375012460 Q-loop/lid; other site 439375012461 ABC transporter signature motif; other site 439375012462 Walker B; other site 439375012463 D-loop; other site 439375012464 H-loop/switch region; other site 439375012465 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375012466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012467 dimer interface [polypeptide binding]; other site 439375012468 conserved gate region; other site 439375012469 putative PBP binding loops; other site 439375012470 ABC-ATPase subunit interface; other site 439375012471 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 439375012472 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 439375012473 active site 439375012474 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439375012475 FAD binding domain; Region: FAD_binding_4; pfam01565 439375012476 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 439375012477 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 439375012478 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375012479 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 439375012480 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375012481 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375012482 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375012483 putative active site [active] 439375012484 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 439375012485 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 439375012486 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 439375012487 DctM-like transporters; Region: DctM; pfam06808 439375012488 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 439375012489 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439375012490 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 439375012491 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 439375012492 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 439375012493 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 439375012494 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 439375012495 NAD(P) binding site [chemical binding]; other site 439375012496 catalytic residues [active] 439375012497 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439375012498 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 439375012499 putative active site [active] 439375012500 metal binding site [ion binding]; metal-binding site 439375012501 BA14K-like protein; Region: BA14K; pfam07886 439375012502 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439375012503 EamA-like transporter family; Region: EamA; pfam00892 439375012504 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 439375012505 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 439375012506 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375012507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012508 dimer interface [polypeptide binding]; other site 439375012509 conserved gate region; other site 439375012510 putative PBP binding loops; other site 439375012511 ABC-ATPase subunit interface; other site 439375012512 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 439375012513 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 439375012514 Walker A/P-loop; other site 439375012515 ATP binding site [chemical binding]; other site 439375012516 Q-loop/lid; other site 439375012517 ABC transporter signature motif; other site 439375012518 Walker B; other site 439375012519 D-loop; other site 439375012520 H-loop/switch region; other site 439375012521 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 439375012522 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 439375012523 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 439375012524 dimer interface [polypeptide binding]; other site 439375012525 active site 439375012526 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375012527 substrate binding site [chemical binding]; other site 439375012528 catalytic residue [active] 439375012529 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375012530 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375012531 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375012532 putative active site [active] 439375012533 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 439375012534 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 439375012535 Walker A/P-loop; other site 439375012536 ATP binding site [chemical binding]; other site 439375012537 Q-loop/lid; other site 439375012538 ABC transporter signature motif; other site 439375012539 Walker B; other site 439375012540 D-loop; other site 439375012541 H-loop/switch region; other site 439375012542 TOBE domain; Region: TOBE; pfam03459 439375012543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375012544 short chain dehydrogenase; Provisional; Region: PRK07074 439375012545 NAD(P) binding site [chemical binding]; other site 439375012546 active site 439375012547 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 439375012548 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375012549 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012550 dimer interface [polypeptide binding]; other site 439375012551 conserved gate region; other site 439375012552 putative PBP binding loops; other site 439375012553 ABC-ATPase subunit interface; other site 439375012554 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375012555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012556 dimer interface [polypeptide binding]; other site 439375012557 conserved gate region; other site 439375012558 putative PBP binding loops; other site 439375012559 ABC-ATPase subunit interface; other site 439375012560 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439375012561 homotrimer interaction site [polypeptide binding]; other site 439375012562 putative active site [active] 439375012563 Uncharacterized conserved protein [Function unknown]; Region: COG5476 439375012564 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 439375012565 MlrC C-terminus; Region: MlrC_C; pfam07171 439375012566 DctM-like transporters; Region: DctM; pfam06808 439375012567 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 439375012568 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 439375012569 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439375012570 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439375012571 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439375012572 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 439375012573 putative NAD(P) binding site [chemical binding]; other site 439375012574 catalytic Zn binding site [ion binding]; other site 439375012575 structural Zn binding site [ion binding]; other site 439375012576 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 439375012577 galactarate dehydratase; Region: galactar-dH20; TIGR03248 439375012578 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 439375012579 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375012580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375012581 DNA-binding site [nucleotide binding]; DNA binding site 439375012582 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375012583 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 439375012584 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 439375012585 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375012586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375012587 active site 439375012588 phosphorylation site [posttranslational modification] 439375012589 intermolecular recognition site; other site 439375012590 dimerization interface [polypeptide binding]; other site 439375012591 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375012592 DNA binding residues [nucleotide binding] 439375012593 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439375012594 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439375012595 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 439375012596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375012597 ATP binding site [chemical binding]; other site 439375012598 Mg2+ binding site [ion binding]; other site 439375012599 G-X-G motif; other site 439375012600 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 439375012601 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375012602 putative ligand binding site [chemical binding]; other site 439375012603 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375012604 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375012605 Walker A/P-loop; other site 439375012606 ATP binding site [chemical binding]; other site 439375012607 Q-loop/lid; other site 439375012608 ABC transporter signature motif; other site 439375012609 Walker B; other site 439375012610 D-loop; other site 439375012611 H-loop/switch region; other site 439375012612 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375012613 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375012614 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375012615 TM-ABC transporter signature motif; other site 439375012616 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375012617 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375012618 TM-ABC transporter signature motif; other site 439375012619 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 439375012620 Strictosidine synthase; Region: Str_synth; pfam03088 439375012621 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439375012622 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375012623 Walker A/P-loop; other site 439375012624 ATP binding site [chemical binding]; other site 439375012625 Q-loop/lid; other site 439375012626 ABC transporter signature motif; other site 439375012627 Walker B; other site 439375012628 D-loop; other site 439375012629 H-loop/switch region; other site 439375012630 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439375012631 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375012632 ABC-ATPase subunit interface; other site 439375012633 dimer interface [polypeptide binding]; other site 439375012634 putative PBP binding regions; other site 439375012635 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 439375012636 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 439375012637 putative ligand binding residues [chemical binding]; other site 439375012638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 439375012639 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 439375012640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 439375012641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 439375012642 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 439375012643 MgtC family; Region: MgtC; pfam02308 439375012644 PAS domain; Region: PAS_8; pfam13188 439375012645 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439375012646 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 439375012647 putative active site [active] 439375012648 heme pocket [chemical binding]; other site 439375012649 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375012650 dimer interface [polypeptide binding]; other site 439375012651 phosphorylation site [posttranslational modification] 439375012652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375012653 ATP binding site [chemical binding]; other site 439375012654 Mg2+ binding site [ion binding]; other site 439375012655 G-X-G motif; other site 439375012656 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 439375012657 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 439375012658 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375012659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012660 dimer interface [polypeptide binding]; other site 439375012661 conserved gate region; other site 439375012662 putative PBP binding loops; other site 439375012663 ABC-ATPase subunit interface; other site 439375012664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012665 dimer interface [polypeptide binding]; other site 439375012666 conserved gate region; other site 439375012667 putative PBP binding loops; other site 439375012668 ABC-ATPase subunit interface; other site 439375012669 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375012670 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 439375012671 Walker A/P-loop; other site 439375012672 ATP binding site [chemical binding]; other site 439375012673 Q-loop/lid; other site 439375012674 ABC transporter signature motif; other site 439375012675 Walker B; other site 439375012676 D-loop; other site 439375012677 H-loop/switch region; other site 439375012678 TOBE domain; Region: TOBE; pfam03459 439375012679 TOBE domain; Region: TOBE_2; pfam08402 439375012680 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 439375012681 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375012682 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375012683 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375012684 non-specific DNA binding site [nucleotide binding]; other site 439375012685 salt bridge; other site 439375012686 sequence-specific DNA binding site [nucleotide binding]; other site 439375012687 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 439375012688 Domain of unknown function (DUF955); Region: DUF955; pfam06114 439375012689 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 439375012690 isocitrate lyase; Provisional; Region: PRK15063 439375012691 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 439375012692 tetramer interface [polypeptide binding]; other site 439375012693 active site 439375012694 Mg2+/Mn2+ binding site [ion binding]; other site 439375012695 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 439375012696 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 439375012697 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 439375012698 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 439375012699 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375012700 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375012701 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439375012702 MarR family; Region: MarR_2; pfam12802 439375012703 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 439375012704 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 439375012705 Cl- selectivity filter; other site 439375012706 Cl- binding residues [ion binding]; other site 439375012707 pore gating glutamate residue; other site 439375012708 dimer interface [polypeptide binding]; other site 439375012709 FOG: CBS domain [General function prediction only]; Region: COG0517 439375012710 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 439375012711 Hint domain; Region: Hint_2; pfam13403 439375012712 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 439375012713 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 439375012714 putative metal binding site [ion binding]; other site 439375012715 putative homodimer interface [polypeptide binding]; other site 439375012716 putative homotetramer interface [polypeptide binding]; other site 439375012717 putative homodimer-homodimer interface [polypeptide binding]; other site 439375012718 putative allosteric switch controlling residues; other site 439375012719 arogenate dehydrogenase; Region: PLN02256 439375012720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012721 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375012722 putative substrate translocation pore; other site 439375012723 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375012724 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375012725 putative DNA binding site [nucleotide binding]; other site 439375012726 putative Zn2+ binding site [ion binding]; other site 439375012727 AsnC family; Region: AsnC_trans_reg; pfam01037 439375012728 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 439375012729 Predicted membrane protein [Function unknown]; Region: COG4541 439375012730 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 439375012731 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375012732 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 439375012733 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 439375012734 Uncharacterized conserved protein [Function unknown]; Region: COG2128 439375012735 stringent starvation protein A; Provisional; Region: sspA; PRK09481 439375012736 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 439375012737 putative C-terminal domain interface [polypeptide binding]; other site 439375012738 putative GSH binding site (G-site) [chemical binding]; other site 439375012739 putative dimer interface [polypeptide binding]; other site 439375012740 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 439375012741 dimer interface [polypeptide binding]; other site 439375012742 N-terminal domain interface [polypeptide binding]; other site 439375012743 putative substrate binding pocket (H-site) [chemical binding]; other site 439375012744 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375012745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375012746 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 439375012747 dimerization interface [polypeptide binding]; other site 439375012748 substrate binding pocket [chemical binding]; other site 439375012749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375012750 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375012751 DNA-binding site [nucleotide binding]; DNA binding site 439375012752 FCD domain; Region: FCD; pfam07729 439375012753 drug efflux system protein MdtG; Provisional; Region: PRK09874 439375012754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012755 putative substrate translocation pore; other site 439375012756 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 439375012757 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439375012758 Zn2+ binding site [ion binding]; other site 439375012759 Mg2+ binding site [ion binding]; other site 439375012760 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 439375012761 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 439375012762 putative NAD(P) binding site [chemical binding]; other site 439375012763 active site 439375012764 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 439375012765 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 439375012766 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 439375012767 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 439375012768 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 439375012769 putative active site [active] 439375012770 phosphogluconate dehydratase; Validated; Region: PRK09054 439375012771 6-phosphogluconate dehydratase; Region: edd; TIGR01196 439375012772 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 439375012773 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 439375012774 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 439375012775 homodimer interface [polypeptide binding]; other site 439375012776 NADP binding site [chemical binding]; other site 439375012777 substrate binding site [chemical binding]; other site 439375012778 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 439375012779 Chain length determinant protein; Region: Wzz; cl15801 439375012780 HD domain; Region: HD_3; pfam13023 439375012781 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 439375012782 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 439375012783 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375012784 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375012785 Walker A/P-loop; other site 439375012786 ATP binding site [chemical binding]; other site 439375012787 Q-loop/lid; other site 439375012788 ABC transporter signature motif; other site 439375012789 Walker B; other site 439375012790 D-loop; other site 439375012791 H-loop/switch region; other site 439375012792 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375012793 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 439375012794 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375012795 Walker A/P-loop; other site 439375012796 ATP binding site [chemical binding]; other site 439375012797 Q-loop/lid; other site 439375012798 ABC transporter signature motif; other site 439375012799 Walker B; other site 439375012800 D-loop; other site 439375012801 H-loop/switch region; other site 439375012802 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375012803 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375012804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012805 dimer interface [polypeptide binding]; other site 439375012806 conserved gate region; other site 439375012807 putative PBP binding loops; other site 439375012808 ABC-ATPase subunit interface; other site 439375012809 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375012810 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012811 dimer interface [polypeptide binding]; other site 439375012812 conserved gate region; other site 439375012813 putative PBP binding loops; other site 439375012814 ABC-ATPase subunit interface; other site 439375012815 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375012816 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 439375012817 tellurite resistance protein terB; Region: terB; cd07176 439375012818 putative metal binding site [ion binding]; other site 439375012819 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 439375012820 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439375012821 active site 439375012822 nucleotide binding site [chemical binding]; other site 439375012823 HIGH motif; other site 439375012824 KMSKS motif; other site 439375012825 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375012826 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375012827 DNA binding residues [nucleotide binding] 439375012828 dimerization interface [polypeptide binding]; other site 439375012829 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 439375012830 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375012831 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375012832 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 439375012833 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375012834 Walker A/P-loop; other site 439375012835 ATP binding site [chemical binding]; other site 439375012836 Q-loop/lid; other site 439375012837 ABC transporter signature motif; other site 439375012838 Walker B; other site 439375012839 D-loop; other site 439375012840 H-loop/switch region; other site 439375012841 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375012842 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 439375012843 Walker A/P-loop; other site 439375012844 ATP binding site [chemical binding]; other site 439375012845 Q-loop/lid; other site 439375012846 ABC transporter signature motif; other site 439375012847 Walker B; other site 439375012848 D-loop; other site 439375012849 H-loop/switch region; other site 439375012850 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 439375012851 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 439375012852 Walker A/P-loop; other site 439375012853 ATP binding site [chemical binding]; other site 439375012854 Q-loop/lid; other site 439375012855 ABC transporter signature motif; other site 439375012856 Walker B; other site 439375012857 D-loop; other site 439375012858 H-loop/switch region; other site 439375012859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012860 dimer interface [polypeptide binding]; other site 439375012861 conserved gate region; other site 439375012862 putative PBP binding loops; other site 439375012863 ABC-ATPase subunit interface; other site 439375012864 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 439375012865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375012866 dimer interface [polypeptide binding]; other site 439375012867 conserved gate region; other site 439375012868 putative PBP binding loops; other site 439375012869 ABC-ATPase subunit interface; other site 439375012870 Predicted small integral membrane protein [Function unknown]; Region: COG5477 439375012871 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 439375012872 Isochorismatase family; Region: Isochorismatase; pfam00857 439375012873 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 439375012874 catalytic triad [active] 439375012875 dimer interface [polypeptide binding]; other site 439375012876 conserved cis-peptide bond; other site 439375012877 Pirin-related protein [General function prediction only]; Region: COG1741 439375012878 Pirin; Region: Pirin; pfam02678 439375012879 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 439375012880 LysR family transcriptional regulator; Provisional; Region: PRK14997 439375012881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375012882 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 439375012883 putative effector binding pocket; other site 439375012884 putative dimerization interface [polypeptide binding]; other site 439375012885 LysR family transcriptional regulator; Provisional; Region: PRK14997 439375012886 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375012887 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 439375012888 putative effector binding pocket; other site 439375012889 putative dimerization interface [polypeptide binding]; other site 439375012890 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 439375012891 Isochorismatase family; Region: Isochorismatase; pfam00857 439375012892 catalytic triad [active] 439375012893 dimer interface [polypeptide binding]; other site 439375012894 conserved cis-peptide bond; other site 439375012895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375012896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375012897 The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_PnbR; cd08469 439375012898 putative substrate binding pocket [chemical binding]; other site 439375012899 putative dimerization interface [polypeptide binding]; other site 439375012900 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 439375012901 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375012902 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375012903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012904 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 439375012905 putative substrate translocation pore; other site 439375012906 Uncharacterized conserved protein [Function unknown]; Region: COG2353 439375012907 LrgB-like family; Region: LrgB; pfam04172 439375012908 LrgA family; Region: LrgA; pfam03788 439375012909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375012910 hypothetical protein; Provisional; Region: PRK07538 439375012911 hypothetical protein; Provisional; Region: PRK07236 439375012912 Cupin domain; Region: Cupin_2; pfam07883 439375012913 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439375012914 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 439375012915 putative ligand binding site [chemical binding]; other site 439375012916 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375012917 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375012918 TM-ABC transporter signature motif; other site 439375012919 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375012920 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375012921 TM-ABC transporter signature motif; other site 439375012922 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375012923 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375012924 Walker A/P-loop; other site 439375012925 ATP binding site [chemical binding]; other site 439375012926 Q-loop/lid; other site 439375012927 ABC transporter signature motif; other site 439375012928 Walker B; other site 439375012929 D-loop; other site 439375012930 H-loop/switch region; other site 439375012931 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375012932 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375012933 Walker A/P-loop; other site 439375012934 ATP binding site [chemical binding]; other site 439375012935 Q-loop/lid; other site 439375012936 ABC transporter signature motif; other site 439375012937 Walker B; other site 439375012938 D-loop; other site 439375012939 H-loop/switch region; other site 439375012940 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439375012941 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 439375012942 acyl-activating enzyme (AAE) consensus motif; other site 439375012943 AMP binding site [chemical binding]; other site 439375012944 active site 439375012945 CoA binding site [chemical binding]; other site 439375012946 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375012947 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 439375012948 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375012949 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375012950 DNA binding residues [nucleotide binding] 439375012951 dimerization interface [polypeptide binding]; other site 439375012952 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439375012953 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439375012954 active site 439375012955 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439375012956 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439375012957 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375012958 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012959 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375012960 putative substrate translocation pore; other site 439375012961 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375012962 MarR family; Region: MarR; pfam01047 439375012963 benzoate transport; Region: 2A0115; TIGR00895 439375012964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012965 putative substrate translocation pore; other site 439375012966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375012967 putative substrate translocation pore; other site 439375012968 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 439375012969 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 439375012970 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 439375012971 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 439375012972 dimer interface [polypeptide binding]; other site 439375012973 PYR/PP interface [polypeptide binding]; other site 439375012974 TPP binding site [chemical binding]; other site 439375012975 substrate binding site [chemical binding]; other site 439375012976 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 439375012977 TPP-binding site; other site 439375012978 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 439375012979 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 439375012980 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 439375012981 active site 439375012982 FMN binding site [chemical binding]; other site 439375012983 substrate binding site [chemical binding]; other site 439375012984 homotetramer interface [polypeptide binding]; other site 439375012985 catalytic residue [active] 439375012986 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439375012987 classical (c) SDRs; Region: SDR_c; cd05233 439375012988 NAD(P) binding site [chemical binding]; other site 439375012989 active site 439375012990 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439375012991 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375012992 substrate binding site [chemical binding]; other site 439375012993 oxyanion hole (OAH) forming residues; other site 439375012994 trimer interface [polypeptide binding]; other site 439375012995 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439375012996 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 439375012997 active site 439375012998 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439375012999 homotrimer interaction site [polypeptide binding]; other site 439375013000 putative active site [active] 439375013001 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 439375013002 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375013003 substrate binding site [chemical binding]; other site 439375013004 oxyanion hole (OAH) forming residues; other site 439375013005 trimer interface [polypeptide binding]; other site 439375013006 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375013007 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439375013008 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 439375013009 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 439375013010 dimer interface [polypeptide binding]; other site 439375013011 active site 439375013012 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375013013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375013014 DNA-binding site [nucleotide binding]; DNA binding site 439375013015 FCD domain; Region: FCD; pfam07729 439375013016 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 439375013017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439375013018 catalytic residue [active] 439375013019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013020 dimer interface [polypeptide binding]; other site 439375013021 conserved gate region; other site 439375013022 putative PBP binding loops; other site 439375013023 ABC-ATPase subunit interface; other site 439375013024 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375013025 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375013026 substrate binding pocket [chemical binding]; other site 439375013027 membrane-bound complex binding site; other site 439375013028 hinge residues; other site 439375013029 aspartate aminotransferase; Provisional; Region: PRK05764 439375013030 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375013031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375013032 homodimer interface [polypeptide binding]; other site 439375013033 catalytic residue [active] 439375013034 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375013035 MarR family; Region: MarR; pfam01047 439375013036 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 439375013037 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 439375013038 Predicted transcriptional regulator [Transcription]; Region: COG2932 439375013039 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 439375013040 Catalytic site [active] 439375013041 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 439375013042 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 439375013043 substrate binding site [chemical binding]; other site 439375013044 oxyanion hole (OAH) forming residues; other site 439375013045 trimer interface [polypeptide binding]; other site 439375013046 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375013047 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439375013048 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 439375013049 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 439375013050 dimer interface [polypeptide binding]; other site 439375013051 active site 439375013052 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439375013053 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439375013054 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 439375013055 FAD binding site [chemical binding]; other site 439375013056 substrate binding site [chemical binding]; other site 439375013057 catalytic residues [active] 439375013058 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439375013059 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 439375013060 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 439375013061 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 439375013062 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439375013063 DNA binding residues [nucleotide binding] 439375013064 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439375013065 Sel1-like repeats; Region: SEL1; smart00671 439375013066 Sel1-like repeats; Region: SEL1; smart00671 439375013067 Sel1-like repeats; Region: SEL1; smart00671 439375013068 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375013069 Predicted permeases [General function prediction only]; Region: COG0730 439375013070 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 439375013071 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 439375013072 active site 439375013073 metal binding site [ion binding]; metal-binding site 439375013074 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 439375013075 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 439375013076 ATP binding site [chemical binding]; other site 439375013077 putative Mg++ binding site [ion binding]; other site 439375013078 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 439375013079 nucleotide binding region [chemical binding]; other site 439375013080 ATP-binding site [chemical binding]; other site 439375013081 DEAD/H associated; Region: DEAD_assoc; pfam08494 439375013082 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 439375013083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439375013084 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 439375013085 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 439375013086 active site 439375013087 DNA binding site [nucleotide binding] 439375013088 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 439375013089 DNA binding site [nucleotide binding] 439375013090 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 439375013091 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 439375013092 FMN binding site [chemical binding]; other site 439375013093 substrate binding site [chemical binding]; other site 439375013094 putative catalytic residue [active] 439375013095 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 439375013096 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 439375013097 DNA binding residues [nucleotide binding] 439375013098 dimer interface [polypeptide binding]; other site 439375013099 copper binding site [ion binding]; other site 439375013100 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 439375013101 metal-binding site [ion binding] 439375013102 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 439375013103 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 439375013104 catalytic loop [active] 439375013105 iron binding site [ion binding]; other site 439375013106 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 439375013107 FAD binding pocket [chemical binding]; other site 439375013108 FAD binding motif [chemical binding]; other site 439375013109 phosphate binding motif [ion binding]; other site 439375013110 beta-alpha-beta structure motif; other site 439375013111 NAD binding pocket [chemical binding]; other site 439375013112 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 439375013113 catalytic residues [active] 439375013114 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439375013115 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375013116 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375013117 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 439375013118 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 439375013119 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 439375013120 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375013121 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 439375013122 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375013123 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375013124 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 439375013125 substrate binding site [chemical binding]; other site 439375013126 ATP binding site [chemical binding]; other site 439375013127 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375013128 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375013129 TM-ABC transporter signature motif; other site 439375013130 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375013131 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375013132 Walker A/P-loop; other site 439375013133 ATP binding site [chemical binding]; other site 439375013134 Q-loop/lid; other site 439375013135 ABC transporter signature motif; other site 439375013136 Walker B; other site 439375013137 D-loop; other site 439375013138 H-loop/switch region; other site 439375013139 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375013140 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 439375013141 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375013142 ligand binding site [chemical binding]; other site 439375013143 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375013144 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375013145 TM-ABC transporter signature motif; other site 439375013146 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375013147 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375013148 Walker A/P-loop; other site 439375013149 ATP binding site [chemical binding]; other site 439375013150 Q-loop/lid; other site 439375013151 ABC transporter signature motif; other site 439375013152 Walker B; other site 439375013153 D-loop; other site 439375013154 H-loop/switch region; other site 439375013155 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375013156 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375013157 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375013158 TM-ABC transporter signature motif; other site 439375013159 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 439375013160 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 439375013161 putative ligand binding site [chemical binding]; other site 439375013162 short chain dehydrogenase; Provisional; Region: PRK06841 439375013163 classical (c) SDRs; Region: SDR_c; cd05233 439375013164 NAD(P) binding site [chemical binding]; other site 439375013165 active site 439375013166 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 439375013167 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 439375013168 DAK2 domain; Region: Dak2; pfam02734 439375013169 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375013170 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375013171 DNA binding residues [nucleotide binding] 439375013172 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375013173 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 439375013174 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 439375013175 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 439375013176 DAK2 domain; Region: Dak2; cl03685 439375013177 hypothetical protein; Provisional; Region: PRK07475 439375013178 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375013179 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375013180 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375013181 Walker A/P-loop; other site 439375013182 ATP binding site [chemical binding]; other site 439375013183 Q-loop/lid; other site 439375013184 ABC transporter signature motif; other site 439375013185 Walker B; other site 439375013186 D-loop; other site 439375013187 H-loop/switch region; other site 439375013188 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013189 dimer interface [polypeptide binding]; other site 439375013190 conserved gate region; other site 439375013191 putative PBP binding loops; other site 439375013192 ABC-ATPase subunit interface; other site 439375013193 hypothetical protein; Provisional; Region: PRK07475 439375013194 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375013195 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375013196 substrate binding pocket [chemical binding]; other site 439375013197 membrane-bound complex binding site; other site 439375013198 hinge residues; other site 439375013199 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375013200 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 439375013201 dimerization interface [polypeptide binding]; other site 439375013202 putative DNA binding site [nucleotide binding]; other site 439375013203 putative Zn2+ binding site [ion binding]; other site 439375013204 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375013205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375013206 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375013207 dimerization interface [polypeptide binding]; other site 439375013208 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439375013209 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439375013210 PYR/PP interface [polypeptide binding]; other site 439375013211 dimer interface [polypeptide binding]; other site 439375013212 TPP binding site [chemical binding]; other site 439375013213 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439375013214 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 439375013215 TPP-binding site [chemical binding]; other site 439375013216 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 439375013217 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375013218 ABC-ATPase subunit interface; other site 439375013219 dimer interface [polypeptide binding]; other site 439375013220 putative PBP binding regions; other site 439375013221 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 439375013222 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375013223 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439375013224 putative PBP binding regions; other site 439375013225 ABC-ATPase subunit interface; other site 439375013226 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 439375013227 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 439375013228 intersubunit interface [polypeptide binding]; other site 439375013229 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439375013230 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439375013231 Walker A/P-loop; other site 439375013232 ATP binding site [chemical binding]; other site 439375013233 Q-loop/lid; other site 439375013234 ABC transporter signature motif; other site 439375013235 Walker B; other site 439375013236 D-loop; other site 439375013237 H-loop/switch region; other site 439375013238 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 439375013239 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375013240 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375013241 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 439375013242 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375013243 N-terminal plug; other site 439375013244 ligand-binding site [chemical binding]; other site 439375013245 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 439375013246 active site 439375013247 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 439375013248 non-prolyl cis peptide bond; other site 439375013249 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375013250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375013251 DNA-binding site [nucleotide binding]; DNA binding site 439375013252 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375013253 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439375013254 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439375013255 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 439375013256 DctM-like transporters; Region: DctM; pfam06808 439375013257 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 439375013258 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 439375013259 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 439375013260 putative NAD(P) binding site [chemical binding]; other site 439375013261 catalytic Zn binding site [ion binding]; other site 439375013262 mannonate dehydratase; Provisional; Region: PRK03906 439375013263 mannonate dehydratase; Region: uxuA; TIGR00695 439375013264 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 439375013265 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 439375013266 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 439375013267 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 439375013268 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375013269 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 439375013270 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 439375013271 DctM-like transporters; Region: DctM; pfam06808 439375013272 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 439375013273 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 439375013274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 439375013275 RNA polymerase sigma factor; Provisional; Region: PRK12536 439375013276 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375013277 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 439375013278 DNA binding residues [nucleotide binding] 439375013279 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 439375013280 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 439375013281 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 439375013282 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 439375013283 Moco binding site; other site 439375013284 metal coordination site [ion binding]; other site 439375013285 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 439375013286 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 439375013287 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 439375013288 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 439375013289 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 439375013290 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 439375013291 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 439375013292 dimerization domain swap beta strand [polypeptide binding]; other site 439375013293 regulatory protein interface [polypeptide binding]; other site 439375013294 active site 439375013295 regulatory phosphorylation site [posttranslational modification]; other site 439375013296 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 439375013297 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 439375013298 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439375013299 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 439375013300 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375013301 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375013302 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 439375013303 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 439375013304 E3 interaction surface; other site 439375013305 lipoyl attachment site [posttranslational modification]; other site 439375013306 e3 binding domain; Region: E3_binding; pfam02817 439375013307 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439375013308 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 439375013309 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 439375013310 alpha subunit interface [polypeptide binding]; other site 439375013311 TPP binding site [chemical binding]; other site 439375013312 heterodimer interface [polypeptide binding]; other site 439375013313 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375013314 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 439375013315 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 439375013316 tetramer interface [polypeptide binding]; other site 439375013317 TPP-binding site [chemical binding]; other site 439375013318 heterodimer interface [polypeptide binding]; other site 439375013319 phosphorylation loop region [posttranslational modification] 439375013320 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 439375013321 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 439375013322 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 439375013323 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 439375013324 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 439375013325 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 439375013326 active site 439375013327 phosphorylation site [posttranslational modification] 439375013328 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 439375013329 active site 439375013330 P-loop; other site 439375013331 phosphorylation site [posttranslational modification] 439375013332 carboxy-terminal protease; Provisional; Region: PRK11186 439375013333 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 439375013334 protein binding site [polypeptide binding]; other site 439375013335 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 439375013336 Catalytic dyad [active] 439375013337 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 439375013338 Domain of unknown function (DUF336); Region: DUF336; cl01249 439375013339 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 439375013340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375013341 active site 439375013342 phosphorylation site [posttranslational modification] 439375013343 intermolecular recognition site; other site 439375013344 dimerization interface [polypeptide binding]; other site 439375013345 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375013346 dimerization interface [polypeptide binding]; other site 439375013347 DNA binding residues [nucleotide binding] 439375013348 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375013349 ATP binding site [chemical binding]; other site 439375013350 Mg2+ binding site [ion binding]; other site 439375013351 G-X-G motif; other site 439375013352 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375013353 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375013354 Walker A/P-loop; other site 439375013355 ATP binding site [chemical binding]; other site 439375013356 Q-loop/lid; other site 439375013357 ABC transporter signature motif; other site 439375013358 Walker B; other site 439375013359 D-loop; other site 439375013360 H-loop/switch region; other site 439375013361 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375013362 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375013363 Walker A/P-loop; other site 439375013364 ATP binding site [chemical binding]; other site 439375013365 Q-loop/lid; other site 439375013366 ABC transporter signature motif; other site 439375013367 Walker B; other site 439375013368 D-loop; other site 439375013369 H-loop/switch region; other site 439375013370 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375013371 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 439375013372 putative hydrophobic ligand binding site [chemical binding]; other site 439375013373 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375013374 dimerization interface [polypeptide binding]; other site 439375013375 putative DNA binding site [nucleotide binding]; other site 439375013376 putative Zn2+ binding site [ion binding]; other site 439375013377 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 439375013378 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 439375013379 N-terminal plug; other site 439375013380 ligand-binding site [chemical binding]; other site 439375013381 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 439375013382 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 439375013383 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 439375013384 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 439375013385 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 439375013386 intersubunit interface [polypeptide binding]; other site 439375013387 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 439375013388 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375013389 catalytic residue [active] 439375013390 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 439375013391 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375013392 DNA-binding site [nucleotide binding]; DNA binding site 439375013393 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 439375013394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375013395 homodimer interface [polypeptide binding]; other site 439375013396 catalytic residue [active] 439375013397 benzoate transporter; Region: benE; TIGR00843 439375013398 Benzoate membrane transport protein; Region: BenE; pfam03594 439375013399 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 439375013400 dimer interface [polypeptide binding]; other site 439375013401 pyridoxamine kinase; Validated; Region: PRK05756 439375013402 pyridoxal binding site [chemical binding]; other site 439375013403 ATP binding site [chemical binding]; other site 439375013404 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 439375013405 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375013406 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439375013407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375013408 DNA-binding site [nucleotide binding]; DNA binding site 439375013409 UTRA domain; Region: UTRA; pfam07702 439375013410 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 439375013411 dimer interface [polypeptide binding]; other site 439375013412 ADP-ribose binding site [chemical binding]; other site 439375013413 active site 439375013414 nudix motif; other site 439375013415 metal binding site [ion binding]; metal-binding site 439375013416 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 439375013417 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 439375013418 putative active site pocket [active] 439375013419 dimerization interface [polypeptide binding]; other site 439375013420 putative catalytic residue [active] 439375013421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375013422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375013423 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375013424 dimerization interface [polypeptide binding]; other site 439375013425 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 439375013426 nitrilase; Region: PLN02798 439375013427 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 439375013428 putative active site [active] 439375013429 catalytic triad [active] 439375013430 dimer interface [polypeptide binding]; other site 439375013431 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 439375013432 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375013433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013434 dimer interface [polypeptide binding]; other site 439375013435 conserved gate region; other site 439375013436 putative PBP binding loops; other site 439375013437 ABC-ATPase subunit interface; other site 439375013438 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375013439 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 439375013440 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375013441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375013442 Walker A/P-loop; other site 439375013443 ATP binding site [chemical binding]; other site 439375013444 Q-loop/lid; other site 439375013445 ABC transporter signature motif; other site 439375013446 Walker B; other site 439375013447 D-loop; other site 439375013448 H-loop/switch region; other site 439375013449 TOBE domain; Region: TOBE_2; pfam08402 439375013450 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 439375013451 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375013452 glutamine synthetase; Region: PLN02284 439375013453 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 439375013454 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 439375013455 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 439375013456 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 439375013457 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 439375013458 hexamer interface [polypeptide binding]; other site 439375013459 ligand binding site [chemical binding]; other site 439375013460 putative active site [active] 439375013461 NAD(P) binding site [chemical binding]; other site 439375013462 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439375013463 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375013464 putative DNA binding site [nucleotide binding]; other site 439375013465 putative Zn2+ binding site [ion binding]; other site 439375013466 AsnC family; Region: AsnC_trans_reg; pfam01037 439375013467 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 439375013468 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 439375013469 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 439375013470 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 439375013471 TrkA-N domain; Region: TrkA_N; pfam02254 439375013472 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439375013473 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 439375013474 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375013475 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375013476 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 439375013477 homotrimer interaction site [polypeptide binding]; other site 439375013478 putative active site [active] 439375013479 transcriptional regulator SlyA; Provisional; Region: PRK03573 439375013480 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 439375013481 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 439375013482 Predicted membrane protein [Function unknown]; Region: COG2261 439375013483 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 439375013484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375013485 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 439375013486 nucleotide binding site [chemical binding]; other site 439375013487 Rrf2 family protein; Region: rrf2_super; TIGR00738 439375013488 Transcriptional regulator; Region: Rrf2; pfam02082 439375013489 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 439375013490 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 439375013491 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 439375013492 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 439375013493 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439375013494 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 439375013495 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 439375013496 metal binding site [ion binding]; metal-binding site 439375013497 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 439375013498 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 439375013499 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 439375013500 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 439375013501 ABC-ATPase subunit interface; other site 439375013502 dimer interface [polypeptide binding]; other site 439375013503 putative PBP binding regions; other site 439375013504 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439375013505 metal binding site 2 [ion binding]; metal-binding site 439375013506 putative DNA binding helix; other site 439375013507 metal binding site 1 [ion binding]; metal-binding site 439375013508 dimer interface [polypeptide binding]; other site 439375013509 structural Zn2+ binding site [ion binding]; other site 439375013510 Rod binding protein; Region: Rod-binding; pfam10135 439375013511 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 439375013512 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 439375013513 FHIPEP family; Region: FHIPEP; pfam00771 439375013514 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 439375013515 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 439375013516 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 439375013517 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 439375013518 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 439375013519 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 439375013520 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 439375013521 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 439375013522 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 439375013523 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 439375013524 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439375013525 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 439375013526 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 439375013527 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 439375013528 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439375013529 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439375013530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 439375013531 active site 439375013532 dimerization interface [polypeptide binding]; other site 439375013533 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 439375013534 DNA binding site [nucleotide binding] 439375013535 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375013536 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375013537 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375013538 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 439375013539 chemotaxis protein; Reviewed; Region: PRK12798 439375013540 flagellar motor protein MotB; Validated; Region: motB; PRK05996 439375013541 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 439375013542 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439375013543 ligand binding site [chemical binding]; other site 439375013544 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 439375013545 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 439375013546 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 439375013547 flagellin; Reviewed; Region: PRK12687 439375013548 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 439375013549 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 439375013550 FliP family; Region: FliP; cl00593 439375013551 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 439375013552 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 439375013553 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 439375013554 Uncharacterized conserved protein [Function unknown]; Region: COG3334 439375013555 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 439375013556 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 439375013557 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 439375013558 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 439375013559 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 439375013560 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439375013561 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 439375013562 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 439375013563 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 439375013564 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439375013565 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 439375013566 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 439375013567 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375013568 Walker A motif; other site 439375013569 ATP binding site [chemical binding]; other site 439375013570 Walker B motif; other site 439375013571 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 439375013572 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 439375013573 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 439375013574 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 439375013575 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 439375013576 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 439375013577 flagellar motor protein MotA; Validated; Region: PRK09110 439375013578 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 439375013579 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 439375013580 rod shape-determining protein MreC; Provisional; Region: PRK13922 439375013581 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 439375013582 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 439375013583 FliG C-terminal domain; Region: FliG_C; pfam01706 439375013584 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 439375013585 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 439375013586 Autoinducer binding domain; Region: Autoind_bind; pfam03472 439375013587 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375013588 DNA binding residues [nucleotide binding] 439375013589 dimerization interface [polypeptide binding]; other site 439375013590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375013591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375013592 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 439375013593 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 439375013594 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375013595 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375013596 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 439375013597 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375013598 putative substrate translocation pore; other site 439375013599 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375013600 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439375013601 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375013602 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013603 dimer interface [polypeptide binding]; other site 439375013604 conserved gate region; other site 439375013605 putative PBP binding loops; other site 439375013606 ABC-ATPase subunit interface; other site 439375013607 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375013608 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013609 dimer interface [polypeptide binding]; other site 439375013610 conserved gate region; other site 439375013611 putative PBP binding loops; other site 439375013612 ABC-ATPase subunit interface; other site 439375013613 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375013614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375013615 Walker A/P-loop; other site 439375013616 ATP binding site [chemical binding]; other site 439375013617 Q-loop/lid; other site 439375013618 ABC transporter signature motif; other site 439375013619 Walker B; other site 439375013620 D-loop; other site 439375013621 H-loop/switch region; other site 439375013622 TOBE domain; Region: TOBE_2; pfam08402 439375013623 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 439375013624 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439375013625 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 439375013626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 439375013627 MOSC domain; Region: MOSC; pfam03473 439375013628 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375013629 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375013630 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439375013631 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439375013632 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439375013633 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439375013634 O-Antigen ligase; Region: Wzy_C; pfam04932 439375013635 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439375013636 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 439375013637 active site 439375013638 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 439375013639 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 439375013640 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 439375013641 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 439375013642 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 439375013643 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 439375013644 Chain length determinant protein; Region: Wzz; cl15801 439375013645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375013646 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 439375013647 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 439375013648 active site 439375013649 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439375013650 dimer interface [polypeptide binding]; other site 439375013651 catalytic residues [active] 439375013652 substrate binding site [chemical binding]; other site 439375013653 amidase; Provisional; Region: PRK08310 439375013654 indole-3-acetamide amidohydrolase; Region: PLN02722 439375013655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375013656 LysR family transcriptional regulator; Provisional; Region: PRK14997 439375013657 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 439375013658 putative effector binding pocket; other site 439375013659 dimerization interface [polypeptide binding]; other site 439375013660 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 439375013661 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 439375013662 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 439375013663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439375013664 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 439375013665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375013666 Walker A/P-loop; other site 439375013667 ATP binding site [chemical binding]; other site 439375013668 Q-loop/lid; other site 439375013669 ABC transporter signature motif; other site 439375013670 Walker B; other site 439375013671 D-loop; other site 439375013672 H-loop/switch region; other site 439375013673 TOBE domain; Region: TOBE; cl01440 439375013674 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013675 dimer interface [polypeptide binding]; other site 439375013676 conserved gate region; other site 439375013677 ABC-ATPase subunit interface; other site 439375013678 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 439375013679 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375013680 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 439375013681 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 439375013682 active site residue [active] 439375013683 Apyrase; Region: Apyrase; cl05556 439375013684 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 439375013685 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 439375013686 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 439375013687 active site 439375013688 intersubunit interface [polypeptide binding]; other site 439375013689 catalytic residue [active] 439375013690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 439375013691 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 439375013692 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439375013693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375013694 active site 439375013695 phosphorylation site [posttranslational modification] 439375013696 intermolecular recognition site; other site 439375013697 dimerization interface [polypeptide binding]; other site 439375013698 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375013699 Walker A motif; other site 439375013700 ATP binding site [chemical binding]; other site 439375013701 Walker B motif; other site 439375013702 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439375013703 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 439375013704 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 439375013705 active site 439375013706 Zn binding site [ion binding]; other site 439375013707 aminodeoxychorismate synthase; Provisional; Region: PRK07508 439375013708 chorismate binding enzyme; Region: Chorismate_bind; cl10555 439375013709 hypothetical protein; Provisional; Region: PRK07546 439375013710 substrate-cofactor binding pocket; other site 439375013711 homodimer interface [polypeptide binding]; other site 439375013712 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439375013713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375013714 catalytic residue [active] 439375013715 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 439375013716 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 439375013717 ferrochelatase; Reviewed; Region: hemH; PRK00035 439375013718 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 439375013719 C-terminal domain interface [polypeptide binding]; other site 439375013720 active site 439375013721 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 439375013722 active site 439375013723 N-terminal domain interface [polypeptide binding]; other site 439375013724 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 439375013725 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 439375013726 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 439375013727 KpsF/GutQ family protein; Region: kpsF; TIGR00393 439375013728 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 439375013729 putative active site [active] 439375013730 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 439375013731 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 439375013732 GntP family permease; Region: GntP_permease; pfam02447 439375013733 fructuronate transporter; Provisional; Region: PRK10034; cl15264 439375013734 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 439375013735 active site 439375013736 tetramer interface; other site 439375013737 lytic murein transglycosylase; Region: MltB_2; TIGR02283 439375013738 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375013739 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375013740 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439375013741 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 439375013742 active site 439375013743 catalytic triad [active] 439375013744 oxyanion hole [active] 439375013745 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 439375013746 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 439375013747 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 439375013748 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 439375013749 active site 439375013750 dimer interface [polypeptide binding]; other site 439375013751 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 439375013752 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 439375013753 active site 439375013754 FMN binding site [chemical binding]; other site 439375013755 substrate binding site [chemical binding]; other site 439375013756 3Fe-4S cluster binding site [ion binding]; other site 439375013757 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 439375013758 domain interface; other site 439375013759 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 439375013760 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 439375013761 tetramer interface [polypeptide binding]; other site 439375013762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375013763 catalytic residue [active] 439375013764 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375013765 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 439375013766 putative dimer interface [polypeptide binding]; other site 439375013767 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 439375013768 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 439375013769 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439375013770 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 439375013771 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439375013772 active site 439375013773 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 439375013774 Response regulator receiver domain; Region: Response_reg; pfam00072 439375013775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375013776 active site 439375013777 phosphorylation site [posttranslational modification] 439375013778 intermolecular recognition site; other site 439375013779 dimerization interface [polypeptide binding]; other site 439375013780 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 439375013781 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375013782 S-adenosylmethionine binding site [chemical binding]; other site 439375013783 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439375013784 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439375013785 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 439375013786 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 439375013787 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 439375013788 dimerization interface [polypeptide binding]; other site 439375013789 metal binding site [ion binding]; metal-binding site 439375013790 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 439375013791 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375013792 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 439375013793 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 439375013794 Fe-S cluster binding site [ion binding]; other site 439375013795 active site 439375013796 RNA polymerase sigma factor; Provisional; Region: PRK12547 439375013797 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375013798 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375013799 DNA binding residues [nucleotide binding] 439375013800 response regulator; Provisional; Region: PRK13435 439375013801 short chain dehydrogenase; Provisional; Region: PRK06701 439375013802 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 439375013803 NAD binding site [chemical binding]; other site 439375013804 metal binding site [ion binding]; metal-binding site 439375013805 active site 439375013806 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 439375013807 trimer interface [polypeptide binding]; other site 439375013808 putative Zn binding site [ion binding]; other site 439375013809 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375013810 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375013811 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 439375013812 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375013813 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375013814 ligand binding site [chemical binding]; other site 439375013815 flexible hinge region; other site 439375013816 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 439375013817 RNA polymerase sigma factor; Provisional; Region: PRK12547 439375013818 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439375013819 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 439375013820 DNA binding residues [nucleotide binding] 439375013821 Isochorismatase family; Region: Isochorismatase; pfam00857 439375013822 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 439375013823 catalytic triad [active] 439375013824 conserved cis-peptide bond; other site 439375013825 PAS fold; Region: PAS_4; pfam08448 439375013826 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439375013827 HWE histidine kinase; Region: HWE_HK; smart00911 439375013828 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 439375013829 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 439375013830 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 439375013831 active site 439375013832 DNA binding site [nucleotide binding] 439375013833 Int/Topo IB signature motif; other site 439375013834 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 439375013835 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 439375013836 putative DNA binding site [nucleotide binding]; other site 439375013837 putative homodimer interface [polypeptide binding]; other site 439375013838 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 439375013839 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 439375013840 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 439375013841 active site 439375013842 DNA binding site [nucleotide binding] 439375013843 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 439375013844 DNA binding site [nucleotide binding] 439375013845 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 439375013846 nucleotide binding site [chemical binding]; other site 439375013847 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 439375013848 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 439375013849 putative DNA binding site [nucleotide binding]; other site 439375013850 putative homodimer interface [polypeptide binding]; other site 439375013851 Helix-turn-helix domain; Region: HTH_17; pfam12728 439375013852 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 439375013853 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 439375013854 active site 439375013855 catalytic residues [active] 439375013856 DNA binding site [nucleotide binding] 439375013857 Int/Topo IB signature motif; other site 439375013858 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 439375013859 Short C-terminal domain; Region: SHOCT; pfam09851 439375013860 Protein of unknown function (DUF805); Region: DUF805; pfam05656 439375013861 Short C-terminal domain; Region: SHOCT; pfam09851 439375013862 Transposase; Region: HTH_Tnp_1; pfam01527 439375013863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375013864 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375013865 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375013866 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375013867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375013868 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375013869 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375013870 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375013871 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 439375013872 Protein of unknown function (DUF805); Region: DUF805; pfam05656 439375013873 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375013874 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375013875 non-specific DNA binding site [nucleotide binding]; other site 439375013876 salt bridge; other site 439375013877 sequence-specific DNA binding site [nucleotide binding]; other site 439375013878 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 439375013879 Viral (Superfamily 1) RNA helicase; Region: Viral_helicase1; pfam01443 439375013880 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375013881 active site 439375013882 Int/Topo IB signature motif; other site 439375013883 DNA binding site [nucleotide binding] 439375013884 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 439375013885 DNA-binding interface [nucleotide binding]; DNA binding site 439375013886 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 439375013887 HTH-like domain; Region: HTH_21; pfam13276 439375013888 Integrase core domain; Region: rve; pfam00665 439375013889 Integrase core domain; Region: rve_3; pfam13683 439375013890 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 439375013891 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 439375013892 dimerization interface [polypeptide binding]; other site 439375013893 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 439375013894 active site 439375013895 DNA binding site [nucleotide binding] 439375013896 Int/Topo IB signature motif; other site 439375013897 ApbE family; Region: ApbE; pfam02424 439375013898 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 439375013899 NosL; Region: NosL; cl01769 439375013900 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 439375013901 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 439375013902 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439375013903 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439375013904 Walker A/P-loop; other site 439375013905 ATP binding site [chemical binding]; other site 439375013906 Q-loop/lid; other site 439375013907 ABC transporter signature motif; other site 439375013908 Walker B; other site 439375013909 D-loop; other site 439375013910 H-loop/switch region; other site 439375013911 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 439375013912 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 439375013913 nitrous-oxide reductase; Validated; Region: PRK02888 439375013914 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 439375013915 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 439375013916 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 439375013917 4Fe-4S binding domain; Region: Fer4_5; pfam12801 439375013918 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 439375013919 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 439375013920 putative catalytic residue [active] 439375013921 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375013922 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375013923 substrate binding pocket [chemical binding]; other site 439375013924 membrane-bound complex binding site; other site 439375013925 hinge residues; other site 439375013926 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375013927 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375013928 substrate binding pocket [chemical binding]; other site 439375013929 membrane-bound complex binding site; other site 439375013930 hinge residues; other site 439375013931 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 439375013932 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375013933 putative PBP binding loops; other site 439375013934 dimer interface [polypeptide binding]; other site 439375013935 ABC-ATPase subunit interface; other site 439375013936 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375013937 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375013938 Walker A/P-loop; other site 439375013939 ATP binding site [chemical binding]; other site 439375013940 Q-loop/lid; other site 439375013941 ABC transporter signature motif; other site 439375013942 Walker B; other site 439375013943 D-loop; other site 439375013944 H-loop/switch region; other site 439375013945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375013946 Coenzyme A binding pocket [chemical binding]; other site 439375013947 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 439375013948 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 439375013949 metal binding site [ion binding]; metal-binding site 439375013950 putative dimer interface [polypeptide binding]; other site 439375013951 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 439375013952 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 439375013953 active site 439375013954 non-prolyl cis peptide bond; other site 439375013955 Predicted transcriptional regulator [Transcription]; Region: COG1959 439375013956 Transcriptional regulator; Region: Rrf2; pfam02082 439375013957 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 439375013958 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 439375013959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375013960 Coenzyme A binding pocket [chemical binding]; other site 439375013961 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 439375013962 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 439375013963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 439375013964 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 439375013965 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 439375013966 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439375013967 Coenzyme A binding pocket [chemical binding]; other site 439375013968 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 439375013969 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 439375013970 active site 439375013971 octamer interface [polypeptide binding]; other site 439375013972 Uncharacterized conserved protein [Function unknown]; Region: COG5476 439375013973 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 439375013974 MlrC C-terminus; Region: MlrC_C; pfam07171 439375013975 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375013976 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375013977 substrate binding pocket [chemical binding]; other site 439375013978 membrane-bound complex binding site; other site 439375013979 hinge residues; other site 439375013980 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 439375013981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375013982 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375013983 dimerization interface [polypeptide binding]; other site 439375013984 DAK2 domain; Region: Dak2; pfam02734 439375013985 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 439375013986 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 439375013987 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375013988 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375013989 TM-ABC transporter signature motif; other site 439375013990 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375013991 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375013992 Walker A/P-loop; other site 439375013993 ATP binding site [chemical binding]; other site 439375013994 Q-loop/lid; other site 439375013995 ABC transporter signature motif; other site 439375013996 Walker B; other site 439375013997 D-loop; other site 439375013998 H-loop/switch region; other site 439375013999 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375014000 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 439375014001 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375014002 ligand binding site [chemical binding]; other site 439375014003 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375014004 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375014005 TM-ABC transporter signature motif; other site 439375014006 Transcriptional regulators [Transcription]; Region: PurR; COG1609 439375014007 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 439375014008 DNA binding site [nucleotide binding] 439375014009 domain linker motif; other site 439375014010 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 439375014011 ligand binding site [chemical binding]; other site 439375014012 dimerization interface [polypeptide binding]; other site 439375014013 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 439375014014 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 439375014015 homodimer interface [polypeptide binding]; other site 439375014016 substrate-cofactor binding pocket; other site 439375014017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375014018 catalytic residue [active] 439375014019 Uncharacterized conserved protein [Function unknown]; Region: COG4309 439375014020 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 439375014021 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 439375014022 CPxP motif; other site 439375014023 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 439375014024 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 439375014025 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 439375014026 Multicopper oxidase; Region: Cu-oxidase; pfam00394 439375014027 Uncharacterized conserved protein [Function unknown]; Region: COG1262 439375014028 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439375014029 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439375014030 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375014031 ligand binding site [chemical binding]; other site 439375014032 flexible hinge region; other site 439375014033 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 439375014034 putative switch regulator; other site 439375014035 non-specific DNA interactions [nucleotide binding]; other site 439375014036 DNA binding site [nucleotide binding] 439375014037 sequence specific DNA binding site [nucleotide binding]; other site 439375014038 putative cAMP binding site [chemical binding]; other site 439375014039 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 439375014040 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 439375014041 Subunit I/III interface [polypeptide binding]; other site 439375014042 Cytochrome c; Region: Cytochrom_C; pfam00034 439375014043 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 439375014044 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 439375014045 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 439375014046 Binuclear center (active site) [active] 439375014047 K-pathway; other site 439375014048 Putative proton exit pathway; other site 439375014049 MoxR-like ATPases [General function prediction only]; Region: COG0714 439375014050 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375014051 Walker A motif; other site 439375014052 ATP binding site [chemical binding]; other site 439375014053 Walker B motif; other site 439375014054 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 439375014055 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 439375014056 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 439375014057 metal ion-dependent adhesion site (MIDAS); other site 439375014058 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375014059 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 439375014060 tetramerization interface [polypeptide binding]; other site 439375014061 NAD(P) binding site [chemical binding]; other site 439375014062 catalytic residues [active] 439375014063 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 439375014064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375014065 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 439375014066 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 439375014067 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 439375014068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375014069 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375014070 dimerization interface [polypeptide binding]; other site 439375014071 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439375014072 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 439375014073 putative ligand binding site [chemical binding]; other site 439375014074 L-aspartate dehydrogenase; Provisional; Region: PRK13303 439375014075 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 439375014076 Domain of unknown function DUF108; Region: DUF108; pfam01958 439375014077 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375014078 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375014079 Walker A/P-loop; other site 439375014080 ATP binding site [chemical binding]; other site 439375014081 Q-loop/lid; other site 439375014082 ABC transporter signature motif; other site 439375014083 Walker B; other site 439375014084 D-loop; other site 439375014085 H-loop/switch region; other site 439375014086 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375014087 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375014088 Walker A/P-loop; other site 439375014089 ATP binding site [chemical binding]; other site 439375014090 Q-loop/lid; other site 439375014091 ABC transporter signature motif; other site 439375014092 Walker B; other site 439375014093 D-loop; other site 439375014094 H-loop/switch region; other site 439375014095 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439375014096 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375014097 TM-ABC transporter signature motif; other site 439375014098 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375014099 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375014100 TM-ABC transporter signature motif; other site 439375014101 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439375014102 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 439375014103 putative ligand binding site [chemical binding]; other site 439375014104 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 439375014105 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439375014106 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 439375014107 inhibitor site; inhibition site 439375014108 active site 439375014109 dimer interface [polypeptide binding]; other site 439375014110 catalytic residue [active] 439375014111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375014112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375014113 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 439375014114 putative dimerization interface [polypeptide binding]; other site 439375014115 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375014116 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 439375014117 peptide binding site [polypeptide binding]; other site 439375014118 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 439375014119 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 439375014120 metal binding site [ion binding]; metal-binding site 439375014121 dimer interface [polypeptide binding]; other site 439375014122 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 439375014123 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 439375014124 Uncharacterized conserved protein [Function unknown]; Region: COG3791 439375014125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439375014126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375014127 Protein of unknown function (DUF995); Region: DUF995; pfam06191 439375014128 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 439375014129 Protein of unknown function (DUF995); Region: DUF995; pfam06191 439375014130 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 439375014131 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375014132 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 439375014133 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 439375014134 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 439375014135 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 439375014136 DXD motif; other site 439375014137 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 439375014138 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 439375014139 NAD binding site [chemical binding]; other site 439375014140 homodimer interface [polypeptide binding]; other site 439375014141 active site 439375014142 substrate binding site [chemical binding]; other site 439375014143 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 439375014144 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439375014145 NAD binding site [chemical binding]; other site 439375014146 putative substrate binding site 2 [chemical binding]; other site 439375014147 putative substrate binding site 1 [chemical binding]; other site 439375014148 active site 439375014149 Transcriptional regulators [Transcription]; Region: GntR; COG1802 439375014150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375014151 DNA-binding site [nucleotide binding]; DNA binding site 439375014152 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439375014153 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 439375014154 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375014155 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375014156 Walker A/P-loop; other site 439375014157 ATP binding site [chemical binding]; other site 439375014158 Q-loop/lid; other site 439375014159 ABC transporter signature motif; other site 439375014160 Walker B; other site 439375014161 D-loop; other site 439375014162 H-loop/switch region; other site 439375014163 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375014164 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375014165 Walker A/P-loop; other site 439375014166 ATP binding site [chemical binding]; other site 439375014167 Q-loop/lid; other site 439375014168 ABC transporter signature motif; other site 439375014169 Walker B; other site 439375014170 D-loop; other site 439375014171 H-loop/switch region; other site 439375014172 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439375014173 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375014174 TM-ABC transporter signature motif; other site 439375014175 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375014176 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375014177 TM-ABC transporter signature motif; other site 439375014178 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439375014179 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439375014180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375014181 Homeodomain-like domain; Region: HTH_23; pfam13384 439375014182 Homeodomain-like domain; Region: HTH_32; pfam13565 439375014183 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375014184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375014185 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 439375014186 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 439375014187 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 439375014188 shikimate binding site; other site 439375014189 NAD(P) binding site [chemical binding]; other site 439375014190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375014191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375014192 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 439375014193 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 439375014194 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 439375014195 dimer interface [polypeptide binding]; other site 439375014196 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 439375014197 active site 439375014198 Fe binding site [ion binding]; other site 439375014199 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439375014200 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 439375014201 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 439375014202 DctM-like transporters; Region: DctM; pfam06808 439375014203 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 439375014204 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 439375014205 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439375014206 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439375014207 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375014208 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375014209 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 439375014210 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439375014211 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 439375014212 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375014213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014214 dimer interface [polypeptide binding]; other site 439375014215 conserved gate region; other site 439375014216 putative PBP binding loops; other site 439375014217 ABC-ATPase subunit interface; other site 439375014218 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 439375014219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014220 dimer interface [polypeptide binding]; other site 439375014221 conserved gate region; other site 439375014222 putative PBP binding loops; other site 439375014223 ABC-ATPase subunit interface; other site 439375014224 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375014225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375014226 Walker A/P-loop; other site 439375014227 ATP binding site [chemical binding]; other site 439375014228 Q-loop/lid; other site 439375014229 ABC transporter signature motif; other site 439375014230 Walker B; other site 439375014231 D-loop; other site 439375014232 H-loop/switch region; other site 439375014233 TOBE domain; Region: TOBE_2; pfam08402 439375014234 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 439375014235 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439375014236 Bacterial transcriptional regulator; Region: IclR; pfam01614 439375014237 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 439375014238 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 439375014239 ligand binding site [chemical binding]; other site 439375014240 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 439375014241 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375014242 Walker A/P-loop; other site 439375014243 ATP binding site [chemical binding]; other site 439375014244 Q-loop/lid; other site 439375014245 ABC transporter signature motif; other site 439375014246 Walker B; other site 439375014247 D-loop; other site 439375014248 H-loop/switch region; other site 439375014249 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375014250 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375014251 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 439375014252 TM-ABC transporter signature motif; other site 439375014253 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 439375014254 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 439375014255 TM-ABC transporter signature motif; other site 439375014256 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 439375014257 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 439375014258 active site 439375014259 tetramer interface [polypeptide binding]; other site 439375014260 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439375014261 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 439375014262 substrate binding site [chemical binding]; other site 439375014263 dimer interface [polypeptide binding]; other site 439375014264 ATP binding site [chemical binding]; other site 439375014265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 439375014266 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 439375014267 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 439375014268 putative substrate translocation pore; other site 439375014269 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439375014270 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 439375014271 replication initiation protein RepC; Provisional; Region: PRK13824 439375014272 Replication protein C N-terminal domain; Region: RP-C; pfam03428 439375014273 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 439375014274 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 439375014275 ParB-like nuclease domain; Region: ParB; smart00470 439375014276 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 439375014277 MerR family regulatory protein; Region: MerR; pfam00376 439375014278 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014279 P-loop; other site 439375014280 Magnesium ion binding site [ion binding]; other site 439375014281 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014282 P-loop; other site 439375014283 Magnesium ion binding site [ion binding]; other site 439375014284 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014285 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 439375014286 GAF domain; Region: GAF; pfam01590 439375014287 Phytochrome region; Region: PHY; pfam00360 439375014288 HWE histidine kinase; Region: HWE_HK; pfam07536 439375014289 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439375014290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375014291 active site 439375014292 phosphorylation site [posttranslational modification] 439375014293 intermolecular recognition site; other site 439375014294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014295 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 439375014296 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375014297 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439375014298 putative dimer interface [polypeptide binding]; other site 439375014299 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375014300 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439375014301 putative dimer interface [polypeptide binding]; other site 439375014302 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375014303 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439375014304 putative dimer interface [polypeptide binding]; other site 439375014305 MarR family; Region: MarR_2; pfam12802 439375014306 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439375014307 FtsH Extracellular; Region: FtsH_ext; pfam06480 439375014308 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 439375014309 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375014310 Walker A motif; other site 439375014311 ATP binding site [chemical binding]; other site 439375014312 Walker B motif; other site 439375014313 arginine finger; other site 439375014314 Peptidase family M41; Region: Peptidase_M41; pfam01434 439375014315 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 439375014316 Clp amino terminal domain; Region: Clp_N; pfam02861 439375014317 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375014318 Walker A motif; other site 439375014319 ATP binding site [chemical binding]; other site 439375014320 Walker B motif; other site 439375014321 arginine finger; other site 439375014322 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 439375014323 Walker A motif; other site 439375014324 ATP binding site [chemical binding]; other site 439375014325 Walker B motif; other site 439375014326 arginine finger; other site 439375014327 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 439375014328 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 439375014329 30S subunit binding site; other site 439375014330 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 439375014331 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 439375014332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 439375014333 Integrase core domain; Region: rve; pfam00665 439375014334 Integrase core domain; Region: rve_3; pfam13683 439375014335 YfdX protein; Region: YfdX; pfam10938 439375014336 YfdX protein; Region: YfdX; pfam10938 439375014337 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375014338 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375014339 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375014340 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 439375014341 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375014342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375014343 Winged helix-turn helix; Region: HTH_29; pfam13551 439375014344 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 439375014345 thioredoxin 2; Provisional; Region: PRK10996 439375014346 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 439375014347 catalytic residues [active] 439375014348 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 439375014349 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 439375014350 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 439375014351 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375014352 substrate binding pocket [chemical binding]; other site 439375014353 membrane-bound complex binding site; other site 439375014354 hinge residues; other site 439375014355 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 439375014356 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375014357 TM-ABC transporter signature motif; other site 439375014358 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439375014359 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439375014360 Walker A/P-loop; other site 439375014361 ATP binding site [chemical binding]; other site 439375014362 Q-loop/lid; other site 439375014363 ABC transporter signature motif; other site 439375014364 Walker B; other site 439375014365 D-loop; other site 439375014366 H-loop/switch region; other site 439375014367 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439375014368 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439375014369 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439375014370 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 439375014371 TM-ABC transporter signature motif; other site 439375014372 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439375014373 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439375014374 Walker A/P-loop; other site 439375014375 ATP binding site [chemical binding]; other site 439375014376 Q-loop/lid; other site 439375014377 ABC transporter signature motif; other site 439375014378 Walker B; other site 439375014379 D-loop; other site 439375014380 H-loop/switch region; other site 439375014381 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 439375014382 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 439375014383 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 439375014384 putative active site [active] 439375014385 Isochorismatase family; Region: Isochorismatase; pfam00857 439375014386 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 439375014387 catalytic triad [active] 439375014388 conserved cis-peptide bond; other site 439375014389 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 439375014390 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 439375014391 N-formylglutamate amidohydrolase; Region: FGase; cl01522 439375014392 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 439375014393 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 439375014394 inhibitor-cofactor binding pocket; inhibition site 439375014395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375014396 catalytic residue [active] 439375014397 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439375014398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439375014399 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439375014400 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 439375014401 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375014402 putative active site [active] 439375014403 putative NTP binding site [chemical binding]; other site 439375014404 putative nucleic acid binding site [nucleotide binding]; other site 439375014405 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375014406 putative transposase OrfB; Reviewed; Region: PHA02517 439375014407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375014408 Transposase; Region: HTH_Tnp_1; cl17663 439375014409 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375014410 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375014411 Autotransporter beta-domain; Region: Autotransporter; smart00869 439375014412 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014413 Integrase core domain; Region: rve; pfam00665 439375014414 acetylornithine deacetylase; Provisional; Region: PRK07522 439375014415 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 439375014416 metal binding site [ion binding]; metal-binding site 439375014417 putative dimer interface [polypeptide binding]; other site 439375014418 agmatinase; Region: agmatinase; TIGR01230 439375014419 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 439375014420 oligomer interface [polypeptide binding]; other site 439375014421 active site 439375014422 Mn binding site [ion binding]; other site 439375014423 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375014424 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375014425 Walker A/P-loop; other site 439375014426 ATP binding site [chemical binding]; other site 439375014427 Q-loop/lid; other site 439375014428 ABC transporter signature motif; other site 439375014429 Walker B; other site 439375014430 D-loop; other site 439375014431 H-loop/switch region; other site 439375014432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014433 dimer interface [polypeptide binding]; other site 439375014434 conserved gate region; other site 439375014435 putative PBP binding loops; other site 439375014436 ABC-ATPase subunit interface; other site 439375014437 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375014438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014439 dimer interface [polypeptide binding]; other site 439375014440 conserved gate region; other site 439375014441 putative PBP binding loops; other site 439375014442 ABC-ATPase subunit interface; other site 439375014443 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 439375014444 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375014445 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375014446 substrate binding pocket [chemical binding]; other site 439375014447 membrane-bound complex binding site; other site 439375014448 hinge residues; other site 439375014449 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439375014450 homotrimer interaction site [polypeptide binding]; other site 439375014451 putative active site [active] 439375014452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375014453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375014454 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 439375014455 dimerization interface [polypeptide binding]; other site 439375014456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439375014457 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439375014458 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439375014459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014460 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375014461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014462 Protein of unknown function (DUF904); Region: DUF904; pfam06005 439375014463 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375014464 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 439375014465 DNA binding site [nucleotide binding] 439375014466 dimer interface [polypeptide binding]; other site 439375014467 active site 439375014468 Int/Topo IB signature motif; other site 439375014469 TIGR02646 family protein; Region: TIGR02646 439375014470 P-loop containing region of AAA domain; Region: AAA_29; cl17516 439375014471 AAA domain; Region: AAA_21; pfam13304 439375014472 AIPR protein; Region: AIPR; pfam10592 439375014473 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 439375014474 DNA-binding interface [nucleotide binding]; DNA binding site 439375014475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 439375014476 HTH-like domain; Region: HTH_21; pfam13276 439375014477 Integrase core domain; Region: rve; pfam00665 439375014478 Integrase core domain; Region: rve_3; pfam13683 439375014479 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 439375014480 DNA binding residues [nucleotide binding] 439375014481 MerR family regulatory protein; Region: MerR; pfam00376 439375014482 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014483 P-loop; other site 439375014484 Magnesium ion binding site [ion binding]; other site 439375014485 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014486 Magnesium ion binding site [ion binding]; other site 439375014487 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 439375014488 ParB-like nuclease domain; Region: ParB; smart00470 439375014489 replication initiation protein RepC; Provisional; Region: PRK13824 439375014490 Replication protein C N-terminal domain; Region: RP-C; pfam03428 439375014491 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 439375014492 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 439375014493 DNA-binding site [nucleotide binding]; DNA binding site 439375014494 RNA-binding motif; other site 439375014495 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375014496 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375014497 Winged helix-turn helix; Region: HTH_29; pfam13551 439375014498 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 439375014499 Replication protein C N-terminal domain; Region: RP-C; pfam03428 439375014500 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 439375014501 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 439375014502 Protein of unknown function (DUF736); Region: DUF736; cl02303 439375014503 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 439375014504 FIC domain binding interface [polypeptide binding]; other site 439375014505 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375014506 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439375014507 putative active site [active] 439375014508 putative NTP binding site [chemical binding]; other site 439375014509 putative nucleic acid binding site [nucleotide binding]; other site 439375014510 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375014511 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 439375014512 Fic/DOC family; Region: Fic; cl00960 439375014513 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 439375014514 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 439375014515 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 439375014516 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 439375014517 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439375014518 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375014519 non-specific DNA binding site [nucleotide binding]; other site 439375014520 salt bridge; other site 439375014521 sequence-specific DNA binding site [nucleotide binding]; other site 439375014522 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014523 ParA-like protein; Provisional; Region: PHA02518 439375014524 P-loop; other site 439375014525 Magnesium ion binding site [ion binding]; other site 439375014526 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 439375014527 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 439375014528 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 439375014529 Walker A motif; other site 439375014530 ATP binding site [chemical binding]; other site 439375014531 Walker B motif; other site 439375014532 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 439375014533 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 439375014534 Walker A motif; other site 439375014535 hexamer interface [polypeptide binding]; other site 439375014536 ATP binding site [chemical binding]; other site 439375014537 Walker B motif; other site 439375014538 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 439375014539 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 439375014540 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 439375014541 VirB7 interaction site; other site 439375014542 VirB8 protein; Region: VirB8; pfam04335 439375014543 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 439375014544 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375014545 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375014546 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375014547 catalytic residue [active] 439375014548 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 439375014549 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 439375014550 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 439375014551 TrbC/VIRB2 family; Region: TrbC; pfam04956 439375014552 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439375014553 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 439375014554 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439375014555 catalytic residue [active] 439375014556 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 439375014557 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 439375014558 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 439375014559 Staphylococcal nuclease homologues; Region: SNc; smart00318 439375014560 Catalytic site; other site 439375014561 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439375014562 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 439375014563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375014564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375014565 NMT1/THI5 like; Region: NMT1; pfam09084 439375014566 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439375014567 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439375014568 Walker A/P-loop; other site 439375014569 ATP binding site [chemical binding]; other site 439375014570 Q-loop/lid; other site 439375014571 ABC transporter signature motif; other site 439375014572 Walker B; other site 439375014573 D-loop; other site 439375014574 H-loop/switch region; other site 439375014575 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439375014576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014577 dimer interface [polypeptide binding]; other site 439375014578 conserved gate region; other site 439375014579 putative PBP binding loops; other site 439375014580 ABC-ATPase subunit interface; other site 439375014581 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 439375014582 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 439375014583 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 439375014584 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 439375014585 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 439375014586 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 439375014587 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375014588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375014589 Walker A/P-loop; other site 439375014590 ATP binding site [chemical binding]; other site 439375014591 Q-loop/lid; other site 439375014592 ABC transporter signature motif; other site 439375014593 Walker B; other site 439375014594 D-loop; other site 439375014595 H-loop/switch region; other site 439375014596 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375014597 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014598 dimer interface [polypeptide binding]; other site 439375014599 conserved gate region; other site 439375014600 putative PBP binding loops; other site 439375014601 ABC-ATPase subunit interface; other site 439375014602 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375014603 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014604 dimer interface [polypeptide binding]; other site 439375014605 conserved gate region; other site 439375014606 putative PBP binding loops; other site 439375014607 ABC-ATPase subunit interface; other site 439375014608 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 439375014609 classical (c) SDRs; Region: SDR_c; cd05233 439375014610 NAD(P) binding site [chemical binding]; other site 439375014611 active site 439375014612 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375014613 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375014614 substrate binding pocket [chemical binding]; other site 439375014615 membrane-bound complex binding site; other site 439375014616 hinge residues; other site 439375014617 dihydroxy-acid dehydratase; Validated; Region: PRK06131 439375014618 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439375014619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375014620 DNA-binding site [nucleotide binding]; DNA binding site 439375014621 FCD domain; Region: FCD; pfam07729 439375014622 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 439375014623 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 439375014624 MOFRL family; Region: MOFRL; pfam05161 439375014625 enolase; Provisional; Region: eno; PRK00077 439375014626 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 439375014627 dimer interface [polypeptide binding]; other site 439375014628 metal binding site [ion binding]; metal-binding site 439375014629 substrate binding pocket [chemical binding]; other site 439375014630 ornithine cyclodeaminase; Validated; Region: PRK06199 439375014631 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 439375014632 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 439375014633 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 439375014634 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 439375014635 NAD(P) binding site [chemical binding]; other site 439375014636 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 439375014637 active site 1 [active] 439375014638 dimer interface [polypeptide binding]; other site 439375014639 hexamer interface [polypeptide binding]; other site 439375014640 active site 2 [active] 439375014641 pyruvate carboxylase; Reviewed; Region: PRK12999 439375014642 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439375014643 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 439375014644 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439375014645 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 439375014646 active site 439375014647 catalytic residues [active] 439375014648 metal binding site [ion binding]; metal-binding site 439375014649 homodimer binding site [polypeptide binding]; other site 439375014650 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 439375014651 carboxyltransferase (CT) interaction site; other site 439375014652 biotinylation site [posttranslational modification]; other site 439375014653 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 439375014654 Helix-turn-helix domain; Region: HTH_38; pfam13936 439375014655 Integrase core domain; Region: rve; pfam00665 439375014656 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439375014657 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439375014658 metal binding site [ion binding]; metal-binding site 439375014659 active site 439375014660 I-site; other site 439375014661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375014662 non-specific DNA binding site [nucleotide binding]; other site 439375014663 salt bridge; other site 439375014664 sequence-specific DNA binding site [nucleotide binding]; other site 439375014665 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 439375014666 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 439375014667 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 439375014668 putative active site [active] 439375014669 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375014670 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 439375014671 catalytic residues [active] 439375014672 catalytic nucleophile [active] 439375014673 Presynaptic Site I dimer interface [polypeptide binding]; other site 439375014674 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 439375014675 Synaptic Flat tetramer interface [polypeptide binding]; other site 439375014676 Synaptic Site I dimer interface [polypeptide binding]; other site 439375014677 DNA binding site [nucleotide binding] 439375014678 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 439375014679 HTH-like domain; Region: HTH_21; pfam13276 439375014680 Integrase core domain; Region: rve; pfam00665 439375014681 Integrase core domain; Region: rve_3; pfam13683 439375014682 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 439375014683 DNA-binding interface [nucleotide binding]; DNA binding site 439375014684 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439375014685 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 439375014686 homodimer interface [polypeptide binding]; other site 439375014687 substrate-cofactor binding pocket; other site 439375014688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439375014689 catalytic residue [active] 439375014690 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375014691 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439375014692 Walker A/P-loop; other site 439375014693 ATP binding site [chemical binding]; other site 439375014694 Q-loop/lid; other site 439375014695 ABC transporter signature motif; other site 439375014696 Walker B; other site 439375014697 D-loop; other site 439375014698 H-loop/switch region; other site 439375014699 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375014700 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439375014701 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375014702 Walker A/P-loop; other site 439375014703 ATP binding site [chemical binding]; other site 439375014704 Q-loop/lid; other site 439375014705 ABC transporter signature motif; other site 439375014706 Walker B; other site 439375014707 D-loop; other site 439375014708 H-loop/switch region; other site 439375014709 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375014710 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375014711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014712 dimer interface [polypeptide binding]; other site 439375014713 conserved gate region; other site 439375014714 putative PBP binding loops; other site 439375014715 ABC-ATPase subunit interface; other site 439375014716 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375014717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014718 dimer interface [polypeptide binding]; other site 439375014719 conserved gate region; other site 439375014720 putative PBP binding loops; other site 439375014721 ABC-ATPase subunit interface; other site 439375014722 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439375014723 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 439375014724 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439375014725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439375014726 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 439375014727 dimerization interface [polypeptide binding]; other site 439375014728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014729 Transposase; Region: HTH_Tnp_1; pfam01527 439375014730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375014731 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 439375014732 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375014733 Transposase; Region: HTH_Tnp_1; pfam01527 439375014734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375014735 Helix-turn-helix domain; Region: HTH_28; pfam13518 439375014736 Winged helix-turn helix; Region: HTH_29; pfam13551 439375014737 Homeodomain-like domain; Region: HTH_32; pfam13565 439375014738 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 439375014739 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 439375014740 putative active site [active] 439375014741 putative NTP binding site [chemical binding]; other site 439375014742 putative nucleic acid binding site [nucleotide binding]; other site 439375014743 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 439375014744 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439375014745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439375014746 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439375014747 Helix-turn-helix domain; Region: HTH_17; cl17695 439375014748 myosin-cross-reactive antigen; Provisional; Region: PRK13977 439375014749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014750 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 439375014751 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375014752 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439375014753 putative dimer interface [polypeptide binding]; other site 439375014754 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439375014755 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 439375014756 putative dimer interface [polypeptide binding]; other site 439375014757 replication initiation protein RepC; Provisional; Region: PRK13824 439375014758 Replication protein C N-terminal domain; Region: RP-C; pfam03428 439375014759 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 439375014760 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 439375014761 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 439375014762 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 439375014763 active site 439375014764 metal binding site [ion binding]; metal-binding site 439375014765 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 439375014766 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 439375014767 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 439375014768 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 439375014769 S-adenosylmethionine binding site [chemical binding]; other site 439375014770 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 439375014771 DEAD-like helicases superfamily; Region: DEXDc; smart00487 439375014772 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 439375014773 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 439375014774 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 439375014775 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 439375014776 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 439375014777 putative metal binding site [ion binding]; other site 439375014778 Uncharacterized conserved protein [Function unknown]; Region: COG1432 439375014779 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 439375014780 Predicted transcriptional regulators [Transcription]; Region: COG1733 439375014781 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 439375014782 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 439375014783 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 439375014784 oligomeric interface; other site 439375014785 putative active site [active] 439375014786 homodimer interface [polypeptide binding]; other site 439375014787 plasmid partitioning protein; Provisional; Region: PRK13832 439375014788 ParB-like nuclease domain; Region: ParB; smart00470 439375014789 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 439375014790 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 439375014791 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 439375014792 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 439375014793 Ligand Binding Site [chemical binding]; other site 439375014794 Uncharacterized conserved protein [Function unknown]; Region: COG5489 439375014795 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 439375014796 IHF dimer interface [polypeptide binding]; other site 439375014797 IHF - DNA interface [nucleotide binding]; other site 439375014798 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 439375014799 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 439375014800 Catalytic site; other site 439375014801 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 439375014802 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 439375014803 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 439375014804 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 439375014805 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 439375014806 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 439375014807 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 439375014808 Chromate transporter; Region: Chromate_transp; pfam02417 439375014809 Predicted transcriptional regulators [Transcription]; Region: COG1695 439375014810 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 439375014811 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375014812 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 439375014813 Low molecular weight phosphatase family; Region: LMWPc; cl00105 439375014814 active site 439375014815 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375014816 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 439375014817 catalytic residues [active] 439375014818 catalytic nucleophile [active] 439375014819 Presynaptic Site I dimer interface [polypeptide binding]; other site 439375014820 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 439375014821 Synaptic Flat tetramer interface [polypeptide binding]; other site 439375014822 Synaptic Site I dimer interface [polypeptide binding]; other site 439375014823 DNA binding site [nucleotide binding] 439375014824 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 439375014825 DNA-binding interface [nucleotide binding]; DNA binding site 439375014826 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 439375014827 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 439375014828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375014829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375014830 active site 439375014831 phosphorylation site [posttranslational modification] 439375014832 intermolecular recognition site; other site 439375014833 dimerization interface [polypeptide binding]; other site 439375014834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439375014835 HWE histidine kinase; Region: HWE_HK; smart00911 439375014836 CheB methylesterase; Region: CheB_methylest; pfam01339 439375014837 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439375014838 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439375014839 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439375014840 CHASE3 domain; Region: CHASE3; pfam05227 439375014841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439375014842 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 439375014843 dimer interface [polypeptide binding]; other site 439375014844 phosphorylation site [posttranslational modification] 439375014845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 439375014846 ATP binding site [chemical binding]; other site 439375014847 Mg2+ binding site [ion binding]; other site 439375014848 G-X-G motif; other site 439375014849 Response regulator receiver domain; Region: Response_reg; pfam00072 439375014850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375014851 active site 439375014852 phosphorylation site [posttranslational modification] 439375014853 intermolecular recognition site; other site 439375014854 dimerization interface [polypeptide binding]; other site 439375014855 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439375014856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375014857 active site 439375014858 phosphorylation site [posttranslational modification] 439375014859 intermolecular recognition site; other site 439375014860 dimerization interface [polypeptide binding]; other site 439375014861 Response regulator receiver domain; Region: Response_reg; pfam00072 439375014862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 439375014863 active site 439375014864 phosphorylation site [posttranslational modification] 439375014865 intermolecular recognition site; other site 439375014866 dimerization interface [polypeptide binding]; other site 439375014867 Transposase; Region: HTH_Tnp_1; pfam01527 439375014868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375014869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375014870 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375014871 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375014872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375014873 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375014874 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375014875 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375014876 hydroperoxidase II; Provisional; Region: katE; PRK11249 439375014877 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 439375014878 heme binding pocket [chemical binding]; other site 439375014879 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 439375014880 domain interactions; other site 439375014881 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 439375014882 dimerization interface [polypeptide binding]; other site 439375014883 metal binding site [ion binding]; metal-binding site 439375014884 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 439375014885 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 439375014886 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 439375014887 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439375014888 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014889 dimer interface [polypeptide binding]; other site 439375014890 conserved gate region; other site 439375014891 putative PBP binding loops; other site 439375014892 ABC-ATPase subunit interface; other site 439375014893 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439375014894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375014895 dimer interface [polypeptide binding]; other site 439375014896 conserved gate region; other site 439375014897 putative PBP binding loops; other site 439375014898 ABC-ATPase subunit interface; other site 439375014899 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 439375014900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375014901 Walker A/P-loop; other site 439375014902 ATP binding site [chemical binding]; other site 439375014903 Q-loop/lid; other site 439375014904 ABC transporter signature motif; other site 439375014905 Walker B; other site 439375014906 D-loop; other site 439375014907 H-loop/switch region; other site 439375014908 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375014909 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439375014910 Walker A/P-loop; other site 439375014911 ATP binding site [chemical binding]; other site 439375014912 Q-loop/lid; other site 439375014913 ABC transporter signature motif; other site 439375014914 Walker B; other site 439375014915 D-loop; other site 439375014916 H-loop/switch region; other site 439375014917 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375014918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375014919 Helix-turn-helix domain; Region: HTH_28; pfam13518 439375014920 putative transposase OrfB; Reviewed; Region: PHA02517 439375014921 HTH-like domain; Region: HTH_21; pfam13276 439375014922 Integrase core domain; Region: rve; pfam00665 439375014923 Integrase core domain; Region: rve_2; pfam13333 439375014924 Recombinase; Region: Recombinase; pfam07508 439375014925 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 439375014926 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 439375014927 putative heme binding pocket [chemical binding]; other site 439375014928 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 439375014929 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 439375014930 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439375014931 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439375014932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375014933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375014934 myosin-cross-reactive antigen; Provisional; Region: PRK13977 439375014935 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 439375014936 ABC-2 type transporter; Region: ABC2_membrane; cl17235 439375014937 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 439375014938 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 439375014939 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 439375014940 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439375014941 HlyD family secretion protein; Region: HlyD_3; pfam13437 439375014942 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439375014943 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439375014944 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 439375014945 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 439375014946 Transposase domain (DUF772); Region: DUF772; pfam05598 439375014947 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 439375014948 DDE superfamily endonuclease; Region: DDE_4; cl17710 439375014949 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375014950 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 439375014951 AAA domain; Region: AAA_14; pfam13173 439375014952 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 439375014953 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 439375014954 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 439375014955 putative active site [active] 439375014956 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 439375014957 DNA binding site [nucleotide binding] 439375014958 dimer interface [polypeptide binding]; other site 439375014959 Int/Topo IB signature motif; other site 439375014960 active site 439375014961 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 439375014962 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 439375014963 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014964 P-loop; other site 439375014965 Magnesium ion binding site [ion binding]; other site 439375014966 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375014967 Magnesium ion binding site [ion binding]; other site 439375014968 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 439375014969 ParB-like nuclease domain; Region: ParBc; pfam02195 439375014970 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439375014971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439375014972 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439375014973 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375014974 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 439375014975 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375014976 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375014977 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375014978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375014979 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375014980 Transposase; Region: HTH_Tnp_1; cl17663 439375014981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375014982 HTH-like domain; Region: HTH_21; pfam13276 439375014983 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 439375014984 Integrase core domain; Region: rve; pfam00665 439375014985 Integrase core domain; Region: rve_3; pfam13683 439375014986 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 439375014987 ligand binding site [chemical binding]; other site 439375014988 flexible hinge region; other site 439375014989 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 439375014990 putative switch regulator; other site 439375014991 non-specific DNA interactions [nucleotide binding]; other site 439375014992 DNA binding site [nucleotide binding] 439375014993 sequence specific DNA binding site [nucleotide binding]; other site 439375014994 putative cAMP binding site [chemical binding]; other site 439375014995 Predicted membrane protein [Function unknown]; Region: COG1288 439375014996 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 439375014997 arginine deiminase; Provisional; Region: PRK01388 439375014998 ornithine carbamoyltransferase; Validated; Region: PRK02102 439375014999 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 439375015000 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 439375015001 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 439375015002 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 439375015003 putative substrate binding site [chemical binding]; other site 439375015004 nucleotide binding site [chemical binding]; other site 439375015005 nucleotide binding site [chemical binding]; other site 439375015006 homodimer interface [polypeptide binding]; other site 439375015007 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375015008 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375015009 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 439375015010 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375015011 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439375015012 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439375015013 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439375015014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375015015 Walker A/P-loop; other site 439375015016 ATP binding site [chemical binding]; other site 439375015017 Q-loop/lid; other site 439375015018 ABC transporter signature motif; other site 439375015019 Walker B; other site 439375015020 D-loop; other site 439375015021 H-loop/switch region; other site 439375015022 acetate kinase; Provisional; Region: PRK07058 439375015023 propionate/acetate kinase; Provisional; Region: PRK12379 439375015024 putative phosphoketolase; Provisional; Region: PRK05261 439375015025 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 439375015026 TPP-binding site; other site 439375015027 XFP C-terminal domain; Region: XFP_C; pfam09363 439375015028 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 439375015029 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375015030 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 439375015031 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439375015032 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 439375015033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 439375015034 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 439375015035 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 439375015036 dimerization interface [polypeptide binding]; other site 439375015037 putative DNA binding site [nucleotide binding]; other site 439375015038 putative Zn2+ binding site [ion binding]; other site 439375015039 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375015040 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 439375015041 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439375015042 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 439375015043 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 439375015044 multiple promoter invertase; Provisional; Region: mpi; PRK13413 439375015045 catalytic residues [active] 439375015046 catalytic nucleophile [active] 439375015047 Presynaptic Site I dimer interface [polypeptide binding]; other site 439375015048 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 439375015049 Synaptic Flat tetramer interface [polypeptide binding]; other site 439375015050 Synaptic Site I dimer interface [polypeptide binding]; other site 439375015051 DNA binding site [nucleotide binding] 439375015052 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 439375015053 DNA-binding interface [nucleotide binding]; DNA binding site 439375015054 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 439375015055 Chromate transporter; Region: Chromate_transp; pfam02417 439375015056 Predicted transcriptional regulators [Transcription]; Region: COG1695 439375015057 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 439375015058 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439375015059 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 439375015060 Low molecular weight phosphatase family; Region: LMWPc; cl00105 439375015061 active site 439375015062 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375015063 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 439375015064 catalytic residues [active] 439375015065 catalytic nucleophile [active] 439375015066 Presynaptic Site I dimer interface [polypeptide binding]; other site 439375015067 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 439375015068 Synaptic Flat tetramer interface [polypeptide binding]; other site 439375015069 Synaptic Site I dimer interface [polypeptide binding]; other site 439375015070 DNA binding site [nucleotide binding] 439375015071 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 439375015072 DNA-binding interface [nucleotide binding]; DNA binding site 439375015073 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 439375015074 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 439375015075 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 439375015076 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375015077 P-loop; other site 439375015078 Magnesium ion binding site [ion binding]; other site 439375015079 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375015080 Magnesium ion binding site [ion binding]; other site 439375015081 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 439375015082 ParB-like nuclease domain; Region: ParB; smart00470 439375015083 replication initiation protein RepC; Provisional; Region: PRK13824 439375015084 Replication protein C N-terminal domain; Region: RP-C; pfam03428 439375015085 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 439375015086 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 439375015087 Bacterial SH3 domain; Region: SH3_3; pfam08239 439375015088 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 439375015089 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 439375015090 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375015091 non-specific DNA binding site [nucleotide binding]; other site 439375015092 salt bridge; other site 439375015093 sequence-specific DNA binding site [nucleotide binding]; other site 439375015094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 439375015095 HTH-like domain; Region: HTH_21; pfam13276 439375015096 Integrase core domain; Region: rve; pfam00665 439375015097 Integrase core domain; Region: rve_3; pfam13683 439375015098 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 439375015099 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 439375015100 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439375015101 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 439375015102 catalytic residues [active] 439375015103 catalytic nucleophile [active] 439375015104 Presynaptic Site I dimer interface [polypeptide binding]; other site 439375015105 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 439375015106 Synaptic Flat tetramer interface [polypeptide binding]; other site 439375015107 Synaptic Site I dimer interface [polypeptide binding]; other site 439375015108 DNA binding site [nucleotide binding] 439375015109 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 439375015110 DNA-binding interface [nucleotide binding]; DNA binding site 439375015111 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439375015112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375015113 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439375015114 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439375015115 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439375015116 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439375015117 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439375015118 Transposase; Region: HTH_Tnp_1; pfam01527 439375015119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375015120 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 439375015121 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 439375015122 Uncharacterized secreted protein [Function unknown]; Region: COG5430 439375015123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 439375015124 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 439375015125 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439375015126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439375015127 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 439375015128 homotrimer interaction site [polypeptide binding]; other site 439375015129 putative active site [active] 439375015130 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375015131 hydroxyglutarate oxidase; Provisional; Region: PRK11728 439375015132 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375015133 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375015134 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375015135 Walker A/P-loop; other site 439375015136 ATP binding site [chemical binding]; other site 439375015137 Q-loop/lid; other site 439375015138 ABC transporter signature motif; other site 439375015139 Walker B; other site 439375015140 D-loop; other site 439375015141 H-loop/switch region; other site 439375015142 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439375015143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375015144 dimer interface [polypeptide binding]; other site 439375015145 conserved gate region; other site 439375015146 putative PBP binding loops; other site 439375015147 ABC-ATPase subunit interface; other site 439375015148 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375015149 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375015150 substrate binding pocket [chemical binding]; other site 439375015151 membrane-bound complex binding site; other site 439375015152 hinge residues; other site 439375015153 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439375015154 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 439375015155 NAD(P) binding site [chemical binding]; other site 439375015156 catalytic residues [active] 439375015157 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 439375015158 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375015159 DNA-binding site [nucleotide binding]; DNA binding site 439375015160 UTRA domain; Region: UTRA; pfam07702 439375015161 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 439375015162 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 439375015163 Flavoprotein; Region: Flavoprotein; pfam02441 439375015164 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 439375015165 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 439375015166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439375015167 DNA-binding site [nucleotide binding]; DNA binding site 439375015168 UTRA domain; Region: UTRA; pfam07702 439375015169 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 439375015170 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 439375015171 putative active site [active] 439375015172 replication initiation protein RepC; Provisional; Region: PRK13824 439375015173 Replication protein C N-terminal domain; Region: RP-C; pfam03428 439375015174 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 439375015175 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 439375015176 ParB-like nuclease domain; Region: ParBc; pfam02195 439375015177 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 439375015178 MerR family regulatory protein; Region: MerR; pfam00376 439375015179 DNA binding residues [nucleotide binding] 439375015180 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 439375015181 P-loop; other site 439375015182 Magnesium ion binding site [ion binding]; other site 439375015183 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 439375015184 DNA binding site [nucleotide binding] 439375015185 dimer interface [polypeptide binding]; other site 439375015186 active site 439375015187 Int/Topo IB signature motif; other site 439375015188 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 439375015189 putative active site [active] 439375015190 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 439375015191 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 439375015192 HTH DNA binding domain; Region: HTH_13; pfam11972 439375015193 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 439375015194 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 439375015195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439375015196 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015197 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015198 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375015199 Autotransporter beta-domain; Region: Autotransporter; pfam03797 439375015200 Transposase; Region: HTH_Tnp_1; cl17663 439375015201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 439375015202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 439375015203 Integrase core domain; Region: rve; pfam00665 439375015204 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 439375015205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 439375015206 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 439375015207 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 439375015208 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 439375015209 short chain dehydrogenase; Validated; Region: PRK08324 439375015210 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 439375015211 active site 439375015212 Zn2+ binding site [ion binding]; other site 439375015213 intersubunit interface [polypeptide binding]; other site 439375015214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439375015215 NAD(P) binding site [chemical binding]; other site 439375015216 active site 439375015217 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 439375015218 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 439375015219 putative ligand binding site [chemical binding]; other site 439375015220 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 439375015221 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 439375015222 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439375015223 TM-ABC transporter signature motif; other site 439375015224 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 439375015225 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 439375015226 Walker A/P-loop; other site 439375015227 ATP binding site [chemical binding]; other site 439375015228 Q-loop/lid; other site 439375015229 ABC transporter signature motif; other site 439375015230 Walker B; other site 439375015231 D-loop; other site 439375015232 H-loop/switch region; other site 439375015233 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 439375015234 Phosphotransferase enzyme family; Region: APH; pfam01636 439375015235 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 439375015236 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 439375015237 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 439375015238 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 439375015239 TPP-binding site [chemical binding]; other site 439375015240 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 439375015241 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 439375015242 PYR/PP interface [polypeptide binding]; other site 439375015243 dimer interface [polypeptide binding]; other site 439375015244 TPP binding site [chemical binding]; other site 439375015245 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439375015246 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 439375015247 dimer interface [polypeptide binding]; other site 439375015248 active site 439375015249 catalytic residue [active] 439375015250 metal binding site [ion binding]; metal-binding site 439375015251 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 439375015252 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 439375015253 putative ligand binding site [chemical binding]; other site 439375015254 NAD binding site [chemical binding]; other site 439375015255 dimerization interface [polypeptide binding]; other site 439375015256 catalytic site [active] 439375015257 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439375015258 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439375015259 Walker A/P-loop; other site 439375015260 ATP binding site [chemical binding]; other site 439375015261 Q-loop/lid; other site 439375015262 ABC transporter signature motif; other site 439375015263 Walker B; other site 439375015264 D-loop; other site 439375015265 H-loop/switch region; other site 439375015266 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439375015267 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 439375015268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375015269 dimer interface [polypeptide binding]; other site 439375015270 conserved gate region; other site 439375015271 putative PBP binding loops; other site 439375015272 ABC-ATPase subunit interface; other site 439375015273 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439375015274 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 439375015275 substrate binding pocket [chemical binding]; other site 439375015276 membrane-bound complex binding site; other site 439375015277 hinge residues; other site 439375015278 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375015279 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375015280 Protein of unknown function, DUF288; Region: DUF288; pfam03385 439375015281 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 439375015282 sequence-specific DNA binding site [nucleotide binding]; other site 439375015283 salt bridge; other site 439375015284 Cupin domain; Region: Cupin_2; pfam07883 439375015285 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439375015286 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439375015287 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 439375015288 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 439375015289 sequence-specific DNA binding site [nucleotide binding]; other site 439375015290 salt bridge; other site 439375015291 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 439375015292 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 439375015293 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 439375015294 metal ion-dependent adhesion site (MIDAS); other site 439375015295 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 439375015296 active site 439375015297 catalytic site [active] 439375015298 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439375015299 classical (c) SDRs; Region: SDR_c; cd05233 439375015300 NAD(P) binding site [chemical binding]; other site 439375015301 active site 439375015302 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 439375015303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375015304 dimer interface [polypeptide binding]; other site 439375015305 conserved gate region; other site 439375015306 ABC-ATPase subunit interface; other site 439375015307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 439375015308 dimer interface [polypeptide binding]; other site 439375015309 conserved gate region; other site 439375015310 putative PBP binding loops; other site 439375015311 ABC-ATPase subunit interface; other site 439375015312 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 439375015313 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439375015314 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439375015315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439375015316 Walker A/P-loop; other site 439375015317 ATP binding site [chemical binding]; other site 439375015318 Q-loop/lid; other site 439375015319 ABC transporter signature motif; other site 439375015320 Walker B; other site 439375015321 D-loop; other site 439375015322 H-loop/switch region; other site 439375015323 TOBE domain; Region: TOBE_2; pfam08402 439375015324 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 439375015325 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439375015326 DNA binding residues [nucleotide binding] 439375015327 dimerization interface [polypeptide binding]; other site 439375015328 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015329 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375015330 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375015331 Autotransporter beta-domain; Region: Autotransporter; pfam03797 439375015332 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439375015333 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015334 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015335 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015336 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015337 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015338 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015339 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 439375015340 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 439375015341 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 439375015342 Autotransporter beta-domain; Region: Autotransporter; pfam03797 439375015343 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261