-- dump date 20140619_011423 -- class Genbank::misc_feature -- table misc_feature_note -- id note 520461000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 520461000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 520461000003 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 520461000004 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 520461000005 DnaA box-binding interface [nucleotide binding]; other site 520461000006 DNA polymerase III subunit beta; Validated; Region: PRK05643 520461000007 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 520461000008 putative DNA binding surface [nucleotide binding]; other site 520461000009 dimer interface [polypeptide binding]; other site 520461000010 beta-clamp/clamp loader binding surface; other site 520461000011 beta-clamp/translesion DNA polymerase binding surface; other site 520461000012 recombination protein F; Reviewed; Region: recF; PRK00064 520461000013 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 520461000014 Walker A/P-loop; other site 520461000015 ATP binding site [chemical binding]; other site 520461000016 Q-loop/lid; other site 520461000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461000018 ABC transporter signature motif; other site 520461000019 Walker B; other site 520461000020 D-loop; other site 520461000021 H-loop/switch region; other site 520461000022 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 520461000023 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 520461000024 ATP binding site [chemical binding]; other site 520461000025 substrate interface [chemical binding]; other site 520461000026 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 520461000027 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 520461000028 putative ligand binding site [chemical binding]; other site 520461000029 NAD binding site [chemical binding]; other site 520461000030 dimerization interface [polypeptide binding]; other site 520461000031 catalytic site [active] 520461000032 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 520461000033 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461000034 Walker A/P-loop; other site 520461000035 ATP binding site [chemical binding]; other site 520461000036 Q-loop/lid; other site 520461000037 ABC transporter signature motif; other site 520461000038 Walker B; other site 520461000039 D-loop; other site 520461000040 H-loop/switch region; other site 520461000041 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 520461000042 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461000043 Walker A/P-loop; other site 520461000044 ATP binding site [chemical binding]; other site 520461000045 Q-loop/lid; other site 520461000046 ABC transporter signature motif; other site 520461000047 Walker B; other site 520461000048 D-loop; other site 520461000049 H-loop/switch region; other site 520461000050 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461000051 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 520461000052 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 520461000053 dimer interface [polypeptide binding]; other site 520461000054 conserved gate region; other site 520461000055 putative PBP binding loops; other site 520461000056 ABC-ATPase subunit interface; other site 520461000057 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 520461000058 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 520461000059 dimer interface [polypeptide binding]; other site 520461000060 conserved gate region; other site 520461000061 putative PBP binding loops; other site 520461000062 ABC-ATPase subunit interface; other site 520461000063 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 520461000064 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 520461000065 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 520461000066 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 520461000067 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461000068 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 520461000069 dimerization interface [polypeptide binding]; other site 520461000070 ligand binding site [chemical binding]; other site 520461000071 enoyl-CoA hydratase; Provisional; Region: PRK07468 520461000072 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 520461000073 substrate binding site [chemical binding]; other site 520461000074 oxyanion hole (OAH) forming residues; other site 520461000075 trimer interface [polypeptide binding]; other site 520461000076 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 520461000077 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 520461000078 active site 520461000079 catalytic residues [active] 520461000080 metal binding site [ion binding]; metal-binding site 520461000081 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 520461000082 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 520461000083 ATP-grasp domain; Region: ATP-grasp_4; cl17255 520461000084 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 520461000085 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 520461000086 carboxyltransferase (CT) interaction site; other site 520461000087 biotinylation site [posttranslational modification]; other site 520461000088 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 520461000089 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 520461000090 isovaleryl-CoA dehydrogenase; Region: PLN02519 520461000091 substrate binding site [chemical binding]; other site 520461000092 FAD binding site [chemical binding]; other site 520461000093 catalytic base [active] 520461000094 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 520461000095 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 520461000096 acyl-activating enzyme (AAE) consensus motif; other site 520461000097 putative AMP binding site [chemical binding]; other site 520461000098 putative active site [active] 520461000099 putative CoA binding site [chemical binding]; other site 520461000100 CHRD domain; Region: CHRD; pfam07452 520461000101 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 520461000102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 520461000103 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 520461000104 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 520461000105 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 520461000106 hinge; other site 520461000107 active site 520461000108 cytidylate kinase; Provisional; Region: cmk; PRK00023 520461000109 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 520461000110 CMP-binding site; other site 520461000111 The sites determining sugar specificity; other site 520461000112 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 520461000113 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 520461000114 RNA binding site [nucleotide binding]; other site 520461000115 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 520461000116 RNA binding site [nucleotide binding]; other site 520461000117 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 520461000118 RNA binding site [nucleotide binding]; other site 520461000119 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 520461000120 RNA binding site [nucleotide binding]; other site 520461000121 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 520461000122 RNA binding site [nucleotide binding]; other site 520461000123 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 520461000124 RNA binding site [nucleotide binding]; other site 520461000125 Predicted membrane protein [Function unknown]; Region: COG2855 520461000126 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 520461000127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461000128 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 520461000129 putative dimerization interface [polypeptide binding]; other site 520461000130 lytic murein transglycosylase; Region: MltB_2; TIGR02283 520461000131 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 520461000132 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461000133 recombination protein RecR; Reviewed; Region: recR; PRK00076 520461000134 RecR protein; Region: RecR; pfam02132 520461000135 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 520461000136 putative active site [active] 520461000137 putative metal-binding site [ion binding]; other site 520461000138 tetramer interface [polypeptide binding]; other site 520461000139 hypothetical protein; Validated; Region: PRK00153 520461000140 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 520461000141 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 520461000142 Walker A motif; other site 520461000143 ATP binding site [chemical binding]; other site 520461000144 Walker B motif; other site 520461000145 arginine finger; other site 520461000146 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 520461000147 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 520461000148 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 520461000149 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 520461000150 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 520461000151 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 520461000152 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 520461000153 putative NADH binding site [chemical binding]; other site 520461000154 putative active site [active] 520461000155 nudix motif; other site 520461000156 putative metal binding site [ion binding]; other site 520461000157 prephenate dehydratase; Provisional; Region: PRK11899 520461000158 Prephenate dehydratase; Region: PDT; pfam00800 520461000159 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 520461000160 putative L-Phe binding site [chemical binding]; other site 520461000161 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 520461000162 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 520461000163 Ligand binding site; other site 520461000164 oligomer interface; other site 520461000165 Cytochrome c2 [Energy production and conversion]; Region: COG3474 520461000166 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 520461000167 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 520461000168 putative MPT binding site; other site 520461000169 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 520461000170 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 520461000171 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 520461000172 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 520461000173 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 520461000174 D-pathway; other site 520461000175 Putative ubiquinol binding site [chemical binding]; other site 520461000176 Low-spin heme (heme b) binding site [chemical binding]; other site 520461000177 Putative water exit pathway; other site 520461000178 Binuclear center (heme o3/CuB) [ion binding]; other site 520461000179 K-pathway; other site 520461000180 Putative proton exit pathway; other site 520461000181 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 520461000182 Subunit I/III interface [polypeptide binding]; other site 520461000183 Subunit III/IV interface [polypeptide binding]; other site 520461000184 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 520461000185 Bacterial SH3 domain; Region: SH3_3; pfam08239 520461000186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 520461000187 Family of unknown function (DUF490); Region: DUF490; pfam04357 520461000188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 520461000189 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461000190 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 520461000191 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 520461000192 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 520461000193 dimer interface [polypeptide binding]; other site 520461000194 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461000195 active site 520461000196 metal binding site [ion binding]; metal-binding site 520461000197 glutathione binding site [chemical binding]; other site 520461000198 Domain of unknown function DUF59; Region: DUF59; pfam01883 520461000199 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 520461000200 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 520461000201 Walker A motif; other site 520461000202 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 520461000203 phosphoglucomutase; Region: PLN02307 520461000204 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 520461000205 substrate binding site [chemical binding]; other site 520461000206 dimer interface [polypeptide binding]; other site 520461000207 active site 520461000208 metal binding site [ion binding]; metal-binding site 520461000209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461000210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461000211 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 520461000212 putative effector binding pocket; other site 520461000213 putative dimerization interface [polypeptide binding]; other site 520461000214 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 520461000215 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 520461000216 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 520461000217 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 520461000218 active site 520461000219 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 520461000220 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 520461000221 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 520461000222 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 520461000223 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461000224 catalytic residue [active] 520461000225 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 520461000226 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 520461000227 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 520461000228 putative active site [active] 520461000229 putative PHP Thumb interface [polypeptide binding]; other site 520461000230 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 520461000231 generic binding surface II; other site 520461000232 generic binding surface I; other site 520461000233 DNA Polymerase Y-family; Region: PolY_like; cd03468 520461000234 active site 520461000235 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 520461000236 DNA binding site [nucleotide binding] 520461000237 Uncharacterized conserved protein [Function unknown]; Region: COG4544 520461000238 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 520461000239 argininosuccinate synthase; Provisional; Region: PRK13820 520461000240 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 520461000241 ANP binding site [chemical binding]; other site 520461000242 Substrate Binding Site II [chemical binding]; other site 520461000243 Substrate Binding Site I [chemical binding]; other site 520461000244 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 520461000245 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 520461000246 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 520461000247 FeS/SAM binding site; other site 520461000248 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 520461000249 Uncharacterized conserved protein [Function unknown]; Region: COG3339 520461000250 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 520461000251 aromatic arch; other site 520461000252 DCoH dimer interaction site [polypeptide binding]; other site 520461000253 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 520461000254 DCoH tetramer interaction site [polypeptide binding]; other site 520461000255 substrate binding site [chemical binding]; other site 520461000256 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 520461000257 Low molecular weight phosphatase family; Region: LMWPc; cd00115 520461000258 active site 520461000259 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 520461000260 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 520461000261 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 520461000262 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 520461000263 active site 520461000264 catalytic triad [active] 520461000265 oxyanion hole [active] 520461000266 switch loop; other site 520461000267 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 520461000268 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 520461000269 Walker A/P-loop; other site 520461000270 ATP binding site [chemical binding]; other site 520461000271 Q-loop/lid; other site 520461000272 ABC transporter signature motif; other site 520461000273 Walker B; other site 520461000274 D-loop; other site 520461000275 H-loop/switch region; other site 520461000276 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 520461000277 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 520461000278 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 520461000279 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 520461000280 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461000281 Coenzyme A binding pocket [chemical binding]; other site 520461000282 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 520461000283 Uncharacterized secreted protein [Function unknown]; Region: COG5429 520461000284 aconitate hydratase; Validated; Region: PRK09277 520461000285 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 520461000286 substrate binding site [chemical binding]; other site 520461000287 ligand binding site [chemical binding]; other site 520461000288 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 520461000289 substrate binding site [chemical binding]; other site 520461000290 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 520461000291 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 520461000292 Walker A/P-loop; other site 520461000293 ATP binding site [chemical binding]; other site 520461000294 Q-loop/lid; other site 520461000295 ABC transporter signature motif; other site 520461000296 Walker B; other site 520461000297 D-loop; other site 520461000298 H-loop/switch region; other site 520461000299 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 520461000300 heme exporter protein CcmC; Region: ccmC; TIGR01191 520461000301 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 520461000302 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 520461000303 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 520461000304 catalytic residues [active] 520461000305 central insert; other site 520461000306 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 520461000307 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 520461000308 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461000309 AsnC family; Region: AsnC_trans_reg; pfam01037 520461000310 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 520461000311 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 520461000312 Uncharacterized conserved protein [Function unknown]; Region: COG1434 520461000313 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 520461000314 putative active site [active] 520461000315 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 520461000316 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 520461000317 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 520461000318 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 520461000319 dimer interface [polypeptide binding]; other site 520461000320 conserved gate region; other site 520461000321 putative PBP binding loops; other site 520461000322 ABC-ATPase subunit interface; other site 520461000323 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 520461000324 dimer interface [polypeptide binding]; other site 520461000325 conserved gate region; other site 520461000326 putative PBP binding loops; other site 520461000327 ABC-ATPase subunit interface; other site 520461000328 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 520461000329 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 520461000330 Walker A/P-loop; other site 520461000331 ATP binding site [chemical binding]; other site 520461000332 Q-loop/lid; other site 520461000333 ABC transporter signature motif; other site 520461000334 Walker B; other site 520461000335 D-loop; other site 520461000336 H-loop/switch region; other site 520461000337 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 520461000338 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 520461000339 active site 520461000340 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 520461000341 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 520461000342 S-adenosylmethionine binding site [chemical binding]; other site 520461000343 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 520461000344 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 520461000345 putative substrate binding site [chemical binding]; other site 520461000346 putative ATP binding site [chemical binding]; other site 520461000347 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 520461000348 classical (c) SDRs; Region: SDR_c; cd05233 520461000349 NAD(P) binding site [chemical binding]; other site 520461000350 active site 520461000351 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 520461000352 Transglycosylase; Region: Transgly; pfam00912 520461000353 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 520461000354 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461000355 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461000356 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 520461000357 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 520461000358 catalytic site [active] 520461000359 putative active site [active] 520461000360 putative substrate binding site [chemical binding]; other site 520461000361 hypothetical protein; Validated; Region: PRK09104 520461000362 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 520461000363 metal binding site [ion binding]; metal-binding site 520461000364 putative dimer interface [polypeptide binding]; other site 520461000365 DNA polymerase I; Region: pola; TIGR00593 520461000366 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 520461000367 active site 520461000368 metal binding site 1 [ion binding]; metal-binding site 520461000369 putative 5' ssDNA interaction site; other site 520461000370 metal binding site 3; metal-binding site 520461000371 metal binding site 2 [ion binding]; metal-binding site 520461000372 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 520461000373 putative DNA binding site [nucleotide binding]; other site 520461000374 putative metal binding site [ion binding]; other site 520461000375 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 520461000376 active site 520461000377 catalytic site [active] 520461000378 substrate binding site [chemical binding]; other site 520461000379 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 520461000380 active site 520461000381 DNA binding site [nucleotide binding] 520461000382 catalytic site [active] 520461000383 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 520461000384 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 520461000385 Mg2+ binding site [ion binding]; other site 520461000386 G-X-G motif; other site 520461000387 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 520461000388 anchoring element; other site 520461000389 dimer interface [polypeptide binding]; other site 520461000390 ATP binding site [chemical binding]; other site 520461000391 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 520461000392 active site 520461000393 putative metal-binding site [ion binding]; other site 520461000394 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 520461000395 S-formylglutathione hydrolase; Region: PLN02442 520461000396 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 520461000397 Predicted membrane protein [Function unknown]; Region: COG4291 520461000398 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 520461000399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461000400 Coenzyme A binding pocket [chemical binding]; other site 520461000401 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 520461000402 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 520461000403 substrate binding site [chemical binding]; other site 520461000404 catalytic Zn binding site [ion binding]; other site 520461000405 NAD binding site [chemical binding]; other site 520461000406 structural Zn binding site [ion binding]; other site 520461000407 dimer interface [polypeptide binding]; other site 520461000408 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 520461000409 putative metal binding site [ion binding]; other site 520461000410 putative homodimer interface [polypeptide binding]; other site 520461000411 putative homotetramer interface [polypeptide binding]; other site 520461000412 putative homodimer-homodimer interface [polypeptide binding]; other site 520461000413 putative allosteric switch controlling residues; other site 520461000414 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 520461000415 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 520461000416 ATP binding site [chemical binding]; other site 520461000417 putative Mg++ binding site [ion binding]; other site 520461000418 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 520461000419 nucleotide binding region [chemical binding]; other site 520461000420 ATP-binding site [chemical binding]; other site 520461000421 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 520461000422 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 520461000423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461000424 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 520461000425 ATP binding site [chemical binding]; other site 520461000426 Mg2+ binding site [ion binding]; other site 520461000427 G-X-G motif; other site 520461000428 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461000429 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 520461000430 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 520461000431 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 520461000432 active site 520461000433 phosphorylation site [posttranslational modification] 520461000434 intermolecular recognition site; other site 520461000435 dimerization interface [polypeptide binding]; other site 520461000436 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 520461000437 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 520461000438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 520461000439 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461000440 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 520461000441 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 520461000442 Universal stress protein family; Region: Usp; pfam00582 520461000443 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 520461000444 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 520461000445 active site 520461000446 HIGH motif; other site 520461000447 dimer interface [polypeptide binding]; other site 520461000448 KMSKS motif; other site 520461000449 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 520461000450 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 520461000451 PII uridylyl-transferase; Provisional; Region: PRK05092 520461000452 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 520461000453 metal binding triad; other site 520461000454 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 520461000455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 520461000456 Zn2+ binding site [ion binding]; other site 520461000457 Mg2+ binding site [ion binding]; other site 520461000458 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 520461000459 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 520461000460 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 520461000461 MutS domain I; Region: MutS_I; pfam01624 520461000462 MutS domain II; Region: MutS_II; pfam05188 520461000463 MutS domain III; Region: MutS_III; pfam05192 520461000464 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 520461000465 Walker A/P-loop; other site 520461000466 ATP binding site [chemical binding]; other site 520461000467 Q-loop/lid; other site 520461000468 ABC transporter signature motif; other site 520461000469 Walker B; other site 520461000470 D-loop; other site 520461000471 H-loop/switch region; other site 520461000472 Putative hemolysin [General function prediction only]; Region: COG3176 520461000473 lipoprotein signal peptidase; Provisional; Region: PRK14795 520461000474 lipoprotein signal peptidase; Provisional; Region: PRK14787 520461000475 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 520461000476 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 520461000477 S-adenosylmethionine binding site [chemical binding]; other site 520461000478 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 520461000479 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 520461000480 IHF dimer interface [polypeptide binding]; other site 520461000481 IHF - DNA interface [nucleotide binding]; other site 520461000482 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 520461000483 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 520461000484 tandem repeat interface [polypeptide binding]; other site 520461000485 oligomer interface [polypeptide binding]; other site 520461000486 active site residues [active] 520461000487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 520461000488 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 520461000489 OstA-like protein; Region: OstA; pfam03968 520461000490 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 520461000491 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 520461000492 Walker A/P-loop; other site 520461000493 ATP binding site [chemical binding]; other site 520461000494 Q-loop/lid; other site 520461000495 ABC transporter signature motif; other site 520461000496 Walker B; other site 520461000497 D-loop; other site 520461000498 H-loop/switch region; other site 520461000499 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 520461000500 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 520461000501 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 520461000502 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 520461000503 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 520461000504 30S subunit binding site; other site 520461000505 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 520461000506 active site 520461000507 phosphorylation site [posttranslational modification] 520461000508 Uncharacterized small protein [Function unknown]; Region: COG5568 520461000509 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 520461000510 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 520461000511 putative dimer interface [polypeptide binding]; other site 520461000512 Integral membrane protein [Function unknown]; Region: COG5488 520461000513 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 520461000514 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 520461000515 minor groove reading motif; other site 520461000516 helix-hairpin-helix signature motif; other site 520461000517 substrate binding pocket [chemical binding]; other site 520461000518 active site 520461000519 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 520461000520 CysZ-like protein; Reviewed; Region: PRK12768 520461000521 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 520461000522 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 520461000523 substrate binding site [chemical binding]; other site 520461000524 ATP binding site [chemical binding]; other site 520461000525 Predicted membrane protein [Function unknown]; Region: COG2860 520461000526 UPF0126 domain; Region: UPF0126; pfam03458 520461000527 UPF0126 domain; Region: UPF0126; pfam03458 520461000528 heat shock protein GrpE; Provisional; Region: PRK14141 520461000529 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 520461000530 dimer interface [polypeptide binding]; other site 520461000531 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 520461000532 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 520461000533 ribonuclease PH; Reviewed; Region: rph; PRK00173 520461000534 Ribonuclease PH; Region: RNase_PH_bact; cd11362 520461000535 hexamer interface [polypeptide binding]; other site 520461000536 active site 520461000537 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461000538 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 520461000539 putative metal binding site [ion binding]; other site 520461000540 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 520461000541 active site 520461000542 dimerization interface [polypeptide binding]; other site 520461000543 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 520461000544 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 520461000545 FeS/SAM binding site; other site 520461000546 HemN C-terminal domain; Region: HemN_C; pfam06969 520461000547 Predicted methyltransferases [General function prediction only]; Region: COG0313 520461000548 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 520461000549 putative SAM binding site [chemical binding]; other site 520461000550 putative homodimer interface [polypeptide binding]; other site 520461000551 hypothetical protein; Reviewed; Region: PRK12497 520461000552 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 520461000553 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 520461000554 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 520461000555 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 520461000556 active site 520461000557 SAM binding site [chemical binding]; other site 520461000558 homodimer interface [polypeptide binding]; other site 520461000559 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 520461000560 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 520461000561 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 520461000562 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 520461000563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 520461000564 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 520461000565 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 520461000566 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 520461000567 active site 520461000568 DNA binding site [nucleotide binding] 520461000569 BA14K-like protein; Region: BA14K; pfam07886 520461000570 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 520461000571 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 520461000572 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 520461000573 substrate binding pocket [chemical binding]; other site 520461000574 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 520461000575 B12 binding site [chemical binding]; other site 520461000576 cobalt ligand [ion binding]; other site 520461000577 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 520461000578 Dehydratase family; Region: ILVD_EDD; cl00340 520461000579 Autoinducer binding domain; Region: Autoind_bind; pfam03472 520461000580 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 520461000581 DNA binding residues [nucleotide binding] 520461000582 aminotransferase; Provisional; Region: PRK06105 520461000583 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 520461000584 inhibitor-cofactor binding pocket; inhibition site 520461000585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461000586 catalytic residue [active] 520461000587 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 520461000588 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 520461000589 Active Sites [active] 520461000590 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 520461000591 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 520461000592 active site 520461000593 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 520461000594 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 520461000595 ligand binding site [chemical binding]; other site 520461000596 flexible hinge region; other site 520461000597 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 520461000598 putative switch regulator; other site 520461000599 non-specific DNA interactions [nucleotide binding]; other site 520461000600 DNA binding site [nucleotide binding] 520461000601 sequence specific DNA binding site [nucleotide binding]; other site 520461000602 putative cAMP binding site [chemical binding]; other site 520461000603 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 520461000604 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 520461000605 active site 520461000606 dimerization interface [polypeptide binding]; other site 520461000607 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 520461000608 DNA binding residues [nucleotide binding] 520461000609 dimerization interface [polypeptide binding]; other site 520461000610 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 520461000611 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 520461000612 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 520461000613 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 520461000614 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 520461000615 GAF domain; Region: GAF; pfam01590 520461000616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 520461000617 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 520461000618 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461000619 NAD(P) binding site [chemical binding]; other site 520461000620 catalytic residues [active] 520461000621 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 520461000622 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 520461000623 NAD binding site [chemical binding]; other site 520461000624 substrate binding site [chemical binding]; other site 520461000625 catalytic Zn binding site [ion binding]; other site 520461000626 tetramer interface [polypeptide binding]; other site 520461000627 structural Zn binding site [ion binding]; other site 520461000628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 520461000629 Transcriptional regulators [Transcription]; Region: PurR; COG1609 520461000630 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 520461000631 DNA binding site [nucleotide binding] 520461000632 domain linker motif; other site 520461000633 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 520461000634 putative dimerization interface [polypeptide binding]; other site 520461000635 putative ligand binding site [chemical binding]; other site 520461000636 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 520461000637 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461000638 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 520461000639 Walker A/P-loop; other site 520461000640 ATP binding site [chemical binding]; other site 520461000641 Q-loop/lid; other site 520461000642 ABC transporter signature motif; other site 520461000643 Walker B; other site 520461000644 D-loop; other site 520461000645 H-loop/switch region; other site 520461000646 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 520461000647 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461000648 NAD(P) binding site [chemical binding]; other site 520461000649 catalytic residues [active] 520461000650 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 520461000651 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 520461000652 dimer interface [polypeptide binding]; other site 520461000653 conserved gate region; other site 520461000654 putative PBP binding loops; other site 520461000655 ABC-ATPase subunit interface; other site 520461000656 Putative transcription activator [Transcription]; Region: TenA; COG0819 520461000657 NMT1/THI5 like; Region: NMT1; pfam09084 520461000658 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 520461000659 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 520461000660 active site 520461000661 thiamine phosphate binding site [chemical binding]; other site 520461000662 pyrophosphate binding site [ion binding]; other site 520461000663 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 520461000664 ThiS interaction site; other site 520461000665 putative active site [active] 520461000666 tetramer interface [polypeptide binding]; other site 520461000667 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 520461000668 thiS-thiF/thiG interaction site; other site 520461000669 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 520461000670 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 520461000671 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 520461000672 dimer interface [polypeptide binding]; other site 520461000673 substrate binding site [chemical binding]; other site 520461000674 ATP binding site [chemical binding]; other site 520461000675 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 520461000676 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 520461000677 putative active site [active] 520461000678 heme pocket [chemical binding]; other site 520461000679 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 520461000680 putative active site [active] 520461000681 heme pocket [chemical binding]; other site 520461000682 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461000683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461000684 metal binding site [ion binding]; metal-binding site 520461000685 active site 520461000686 I-site; other site 520461000687 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 520461000688 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 520461000689 metal-binding site [ion binding] 520461000690 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 520461000691 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 520461000692 metal-binding site [ion binding] 520461000693 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 520461000694 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 520461000695 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 520461000696 DNA binding residues [nucleotide binding] 520461000697 dimer interface [polypeptide binding]; other site 520461000698 copper binding site [ion binding]; other site 520461000699 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 520461000700 dimer interface [polypeptide binding]; other site 520461000701 conserved gate region; other site 520461000702 putative PBP binding loops; other site 520461000703 ABC-ATPase subunit interface; other site 520461000704 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 520461000705 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 520461000706 Walker A/P-loop; other site 520461000707 ATP binding site [chemical binding]; other site 520461000708 Q-loop/lid; other site 520461000709 ABC transporter signature motif; other site 520461000710 Walker B; other site 520461000711 D-loop; other site 520461000712 H-loop/switch region; other site 520461000713 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 520461000714 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 520461000715 dimer interface [polypeptide binding]; other site 520461000716 conserved gate region; other site 520461000717 ABC-ATPase subunit interface; other site 520461000718 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 520461000719 Uncharacterized conserved protein [Function unknown]; Region: COG5514 520461000720 heme-binding site [chemical binding]; other site 520461000721 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 520461000722 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 520461000723 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 520461000724 NAD(P) binding site [chemical binding]; other site 520461000725 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 520461000726 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461000727 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 520461000728 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 520461000729 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 520461000730 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 520461000731 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 520461000732 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 520461000733 Amidohydrolase; Region: Amidohydro_2; pfam04909 520461000734 active site 520461000735 Transcriptional regulator [Transcription]; Region: IclR; COG1414 520461000736 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 520461000737 putative DNA binding site [nucleotide binding]; other site 520461000738 putative Zn2+ binding site [ion binding]; other site 520461000739 Bacterial transcriptional regulator; Region: IclR; pfam01614 520461000740 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 520461000741 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 520461000742 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 520461000743 dimer interface [polypeptide binding]; other site 520461000744 conserved gate region; other site 520461000745 putative PBP binding loops; other site 520461000746 ABC-ATPase subunit interface; other site 520461000747 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461000748 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 520461000749 dimer interface [polypeptide binding]; other site 520461000750 conserved gate region; other site 520461000751 putative PBP binding loops; other site 520461000752 ABC-ATPase subunit interface; other site 520461000753 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 520461000754 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 520461000755 Walker A/P-loop; other site 520461000756 ATP binding site [chemical binding]; other site 520461000757 Q-loop/lid; other site 520461000758 ABC transporter signature motif; other site 520461000759 Walker B; other site 520461000760 D-loop; other site 520461000761 H-loop/switch region; other site 520461000762 TOBE domain; Region: TOBE_2; pfam08402 520461000763 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 520461000764 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 520461000765 active site pocket [active] 520461000766 Uncharacterized conserved protein [Function unknown]; Region: COG3254 520461000767 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461000768 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461000769 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 520461000770 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 520461000771 NAD binding site [chemical binding]; other site 520461000772 homotetramer interface [polypeptide binding]; other site 520461000773 homodimer interface [polypeptide binding]; other site 520461000774 active site 520461000775 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 520461000776 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 520461000777 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 520461000778 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 520461000779 putative active site pocket [active] 520461000780 metal binding site [ion binding]; metal-binding site 520461000781 integrase; Provisional; Region: PRK09692 520461000782 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 520461000783 active site 520461000784 Int/Topo IB signature motif; other site 520461000785 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 520461000786 Toprim domain; Region: Toprim_3; pfam13362 520461000787 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 520461000788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461000789 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461000790 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461000791 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 520461000792 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 520461000793 SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains; Region: SANT; smart00717 520461000794 Helix-turn-helix domain; Region: HTH_19; pfam12844 520461000795 non-specific DNA binding site [nucleotide binding]; other site 520461000796 salt bridge; other site 520461000797 sequence-specific DNA binding site [nucleotide binding]; other site 520461000798 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 520461000799 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 520461000800 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 520461000801 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 520461000802 non-specific DNA binding site [nucleotide binding]; other site 520461000803 salt bridge; other site 520461000804 sequence-specific DNA binding site [nucleotide binding]; other site 520461000805 GcrA cell cycle regulator; Region: GcrA; cl11564 520461000806 TIR domain; Region: TIR_2; pfam13676 520461000807 zinc-binding protein; Provisional; Region: PRK01343 520461000808 Maf-like protein; Region: Maf; pfam02545 520461000809 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 520461000810 active site 520461000811 dimer interface [polypeptide binding]; other site 520461000812 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 520461000813 rRNA binding site [nucleotide binding]; other site 520461000814 predicted 30S ribosome binding site; other site 520461000815 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 520461000816 Low molecular weight phosphatase family; Region: LMWPc; cd00115 520461000817 active site 520461000818 hypothetical protein; Provisional; Region: PRK02853 520461000819 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 520461000820 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 520461000821 NAD binding site [chemical binding]; other site 520461000822 dimerization interface [polypeptide binding]; other site 520461000823 product binding site; other site 520461000824 substrate binding site [chemical binding]; other site 520461000825 zinc binding site [ion binding]; other site 520461000826 catalytic residues [active] 520461000827 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 520461000828 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 520461000829 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 520461000830 hinge; other site 520461000831 active site 520461000832 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 520461000833 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 520461000834 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 520461000835 active site 520461000836 DNA binding site [nucleotide binding] 520461000837 Int/Topo IB signature motif; other site 520461000838 Prophage antirepressor [Transcription]; Region: COG3617 520461000839 BRO family, N-terminal domain; Region: Bro-N; smart01040 520461000840 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 520461000841 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 520461000842 catalytic residues [active] 520461000843 catalytic nucleophile [active] 520461000844 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 520461000845 DNA-binding interface [nucleotide binding]; DNA binding site 520461000846 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 520461000847 non-specific DNA binding site [nucleotide binding]; other site 520461000848 salt bridge; other site 520461000849 sequence-specific DNA binding site [nucleotide binding]; other site 520461000850 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 520461000851 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 520461000852 alpha-gamma subunit interface [polypeptide binding]; other site 520461000853 beta-gamma subunit interface [polypeptide binding]; other site 520461000854 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 520461000855 gamma-beta subunit interface [polypeptide binding]; other site 520461000856 alpha-beta subunit interface [polypeptide binding]; other site 520461000857 urease subunit alpha; Reviewed; Region: ureC; PRK13207 520461000858 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 520461000859 subunit interactions [polypeptide binding]; other site 520461000860 active site 520461000861 flap region; other site 520461000862 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 520461000863 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 520461000864 dimer interface [polypeptide binding]; other site 520461000865 catalytic residues [active] 520461000866 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 520461000867 UreF; Region: UreF; pfam01730 520461000868 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 520461000869 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461000870 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 520461000871 ATP binding site [chemical binding]; other site 520461000872 Mg2+ binding site [ion binding]; other site 520461000873 G-X-G motif; other site 520461000874 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461000875 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461000876 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461000877 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 520461000878 phenylhydantoinase; Validated; Region: PRK08323 520461000879 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 520461000880 tetramer interface [polypeptide binding]; other site 520461000881 active site 520461000882 allantoate amidohydrolase; Reviewed; Region: PRK12893 520461000883 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 520461000884 active site 520461000885 metal binding site [ion binding]; metal-binding site 520461000886 dimer interface [polypeptide binding]; other site 520461000887 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 520461000888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461000889 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 520461000890 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 520461000891 nudix motif; other site 520461000892 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 520461000893 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 520461000894 homodimer interface [polypeptide binding]; other site 520461000895 active site 520461000896 FMN binding site [chemical binding]; other site 520461000897 substrate binding site [chemical binding]; other site 520461000898 4Fe-4S binding domain; Region: Fer4; cl02805 520461000899 4Fe-4S binding domain; Region: Fer4; pfam00037 520461000900 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 520461000901 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 520461000902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461000903 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 520461000904 putative hydrophobic ligand binding site [chemical binding]; other site 520461000905 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 520461000906 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 520461000907 active site 520461000908 dimer interface [polypeptide binding]; other site 520461000909 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 520461000910 dimer interface [polypeptide binding]; other site 520461000911 active site 520461000912 Predicted deacylase [General function prediction only]; Region: COG3608 520461000913 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 520461000914 active site 520461000915 Zn binding site [ion binding]; other site 520461000916 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 520461000917 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 520461000918 motif II; other site 520461000919 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 520461000920 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 520461000921 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 520461000922 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 520461000923 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 520461000924 acyl-activating enzyme (AAE) consensus motif; other site 520461000925 putative AMP binding site [chemical binding]; other site 520461000926 putative active site [active] 520461000927 putative CoA binding site [chemical binding]; other site 520461000928 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 520461000929 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461000930 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 520461000931 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461000932 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461000933 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461000934 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 520461000935 Protein export membrane protein; Region: SecD_SecF; cl14618 520461000936 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 520461000937 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 520461000938 substrate binding pocket [chemical binding]; other site 520461000939 membrane-bound complex binding site; other site 520461000940 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 520461000941 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 520461000942 DXD motif; other site 520461000943 Uncharacterized conserved protein [Function unknown]; Region: COG2326 520461000944 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 520461000945 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 520461000946 dimer interface [polypeptide binding]; other site 520461000947 phosphorylation site [posttranslational modification] 520461000948 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 520461000949 ATP binding site [chemical binding]; other site 520461000950 Mg2+ binding site [ion binding]; other site 520461000951 G-X-G motif; other site 520461000952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 520461000953 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 520461000954 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 520461000955 inhibitor-cofactor binding pocket; inhibition site 520461000956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461000957 catalytic residue [active] 520461000958 ornithine carbamoyltransferase; Provisional; Region: PRK00779 520461000959 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 520461000960 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 520461000961 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 520461000962 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 520461000963 dimerization interface [polypeptide binding]; other site 520461000964 domain crossover interface; other site 520461000965 redox-dependent activation switch; other site 520461000966 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 520461000967 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 520461000968 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 520461000969 homodimer interface [polypeptide binding]; other site 520461000970 substrate-cofactor binding pocket; other site 520461000971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461000972 catalytic residue [active] 520461000973 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 520461000974 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 520461000975 trimer interface [polypeptide binding]; other site 520461000976 active site 520461000977 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 520461000978 trimer interface [polypeptide binding]; other site 520461000979 active site 520461000980 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 520461000981 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 520461000982 conserved cys residue [active] 520461000983 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 520461000984 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 520461000985 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 520461000986 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 520461000987 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 520461000988 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 520461000989 quinone interaction residues [chemical binding]; other site 520461000990 active site 520461000991 catalytic residues [active] 520461000992 FMN binding site [chemical binding]; other site 520461000993 substrate binding site [chemical binding]; other site 520461000994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 520461000995 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 520461000996 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 520461000997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 520461000998 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 520461000999 active site 520461001000 phosphorylation site [posttranslational modification] 520461001001 intermolecular recognition site; other site 520461001002 dimerization interface [polypeptide binding]; other site 520461001003 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 520461001004 DNA binding residues [nucleotide binding] 520461001005 dimerization interface [polypeptide binding]; other site 520461001006 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 520461001007 Na binding site [ion binding]; other site 520461001008 PAS fold; Region: PAS_7; pfam12860 520461001009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461001010 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 520461001011 dimer interface [polypeptide binding]; other site 520461001012 phosphorylation site [posttranslational modification] 520461001013 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 520461001014 ATP binding site [chemical binding]; other site 520461001015 Mg2+ binding site [ion binding]; other site 520461001016 G-X-G motif; other site 520461001017 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 520461001018 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 520461001019 active site 520461001020 phosphorylation site [posttranslational modification] 520461001021 intermolecular recognition site; other site 520461001022 dimerization interface [polypeptide binding]; other site 520461001023 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 520461001024 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 520461001025 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 520461001026 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 520461001027 substrate-cofactor binding pocket; other site 520461001028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461001029 catalytic residue [active] 520461001030 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 520461001031 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 520461001032 putative active site [active] 520461001033 putative metal binding site [ion binding]; other site 520461001034 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 520461001035 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 520461001036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461001037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461001038 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 520461001039 putative dimerization interface [polypeptide binding]; other site 520461001040 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 520461001041 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 520461001042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 520461001043 pantoate--beta-alanine ligase; Region: panC; TIGR00018 520461001044 Pantoate-beta-alanine ligase; Region: PanC; cd00560 520461001045 active site 520461001046 ATP-binding site [chemical binding]; other site 520461001047 pantoate-binding site; other site 520461001048 HXXH motif; other site 520461001049 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 520461001050 active site 520461001051 oligomerization interface [polypeptide binding]; other site 520461001052 metal binding site [ion binding]; metal-binding site 520461001053 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 520461001054 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 520461001055 FAD binding pocket [chemical binding]; other site 520461001056 FAD binding motif [chemical binding]; other site 520461001057 phosphate binding motif [ion binding]; other site 520461001058 beta-alpha-beta structure motif; other site 520461001059 NAD binding pocket [chemical binding]; other site 520461001060 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 520461001061 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 520461001062 dimer interface [polypeptide binding]; other site 520461001063 active site 520461001064 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 520461001065 catalytic residues [active] 520461001066 substrate binding site [chemical binding]; other site 520461001067 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 520461001068 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 520461001069 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 520461001070 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 520461001071 multidrug efflux protein; Reviewed; Region: PRK01766 520461001072 cation binding site [ion binding]; other site 520461001073 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 520461001074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 520461001075 Cache domain; Region: Cache_2; pfam08269 520461001076 Histidine kinase; Region: HisKA_3; pfam07730 520461001077 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 520461001078 ATP binding site [chemical binding]; other site 520461001079 Mg2+ binding site [ion binding]; other site 520461001080 G-X-G motif; other site 520461001081 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 520461001082 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 520461001083 active site 520461001084 phosphorylation site [posttranslational modification] 520461001085 intermolecular recognition site; other site 520461001086 dimerization interface [polypeptide binding]; other site 520461001087 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 520461001088 DNA binding residues [nucleotide binding] 520461001089 dimerization interface [polypeptide binding]; other site 520461001090 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 520461001091 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 520461001092 DctM-like transporters; Region: DctM; pfam06808 520461001093 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 520461001094 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 520461001095 hypothetical protein; Provisional; Region: PRK11171 520461001096 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 520461001097 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 520461001098 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 520461001099 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 520461001100 active site 520461001101 catalytic site [active] 520461001102 tetramer interface [polypeptide binding]; other site 520461001103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 520461001104 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 520461001105 homotetramer interface [polypeptide binding]; other site 520461001106 active site 520461001107 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 520461001108 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 520461001109 catalytic loop [active] 520461001110 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 520461001111 iron binding site [ion binding]; other site 520461001112 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 520461001113 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 520461001114 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 520461001115 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 520461001116 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 520461001117 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 520461001118 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 520461001119 XdhC Rossmann domain; Region: XdhC_C; pfam13478 520461001120 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461001121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461001122 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 520461001123 putative effector binding pocket; other site 520461001124 dimerization interface [polypeptide binding]; other site 520461001125 Predicted membrane protein [Function unknown]; Region: COG3748 520461001126 Protein of unknown function (DUF989); Region: DUF989; pfam06181 520461001127 guanine deaminase; Provisional; Region: PRK09228 520461001128 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 520461001129 active site 520461001130 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 520461001131 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 520461001132 MOFRL family; Region: MOFRL; pfam05161 520461001133 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 520461001134 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 520461001135 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 520461001136 metal-binding site [ion binding] 520461001137 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 520461001138 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 520461001139 motif II; other site 520461001140 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 520461001141 FixH; Region: FixH; pfam05751 520461001142 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 520461001143 4Fe-4S binding domain; Region: Fer4_5; pfam12801 520461001144 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 520461001145 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 520461001146 Cytochrome c; Region: Cytochrom_C; pfam00034 520461001147 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 520461001148 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 520461001149 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 520461001150 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 520461001151 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 520461001152 Low-spin heme binding site [chemical binding]; other site 520461001153 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 520461001154 Putative water exit pathway; other site 520461001155 Binuclear center (active site) [active] 520461001156 Putative proton exit pathway; other site 520461001157 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 520461001158 metal binding site 2 [ion binding]; metal-binding site 520461001159 putative DNA binding helix; other site 520461001160 metal binding site 1 [ion binding]; metal-binding site 520461001161 dimer interface [polypeptide binding]; other site 520461001162 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 520461001163 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 520461001164 catalytic residues [active] 520461001165 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461001166 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 520461001167 NAD(P) binding site [chemical binding]; other site 520461001168 catalytic residues [active] 520461001169 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 520461001170 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 520461001171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461001172 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461001173 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 520461001174 DNA binding site [nucleotide binding] 520461001175 active site 520461001176 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 520461001177 ArsC family; Region: ArsC; pfam03960 520461001178 putative catalytic residues [active] 520461001179 Predicted membrane protein [Function unknown]; Region: COG4129 520461001180 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 520461001181 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 520461001182 putative substrate translocation pore; other site 520461001183 D-galactonate transporter; Region: 2A0114; TIGR00893 520461001184 microcin B17 transporter; Reviewed; Region: PRK11098 520461001185 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 520461001186 NodB motif; other site 520461001187 putative active site [active] 520461001188 putative catalytic site [active] 520461001189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 520461001190 GTP-binding protein Der; Reviewed; Region: PRK00093 520461001191 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 520461001192 G1 box; other site 520461001193 GTP/Mg2+ binding site [chemical binding]; other site 520461001194 Switch I region; other site 520461001195 G2 box; other site 520461001196 Switch II region; other site 520461001197 G3 box; other site 520461001198 G4 box; other site 520461001199 G5 box; other site 520461001200 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 520461001201 G1 box; other site 520461001202 GTP/Mg2+ binding site [chemical binding]; other site 520461001203 Switch I region; other site 520461001204 G2 box; other site 520461001205 G3 box; other site 520461001206 Switch II region; other site 520461001207 G4 box; other site 520461001208 G5 box; other site 520461001209 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 520461001210 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 520461001211 nucleotide binding site [chemical binding]; other site 520461001212 putative NEF/HSP70 interaction site [polypeptide binding]; other site 520461001213 SBD interface [polypeptide binding]; other site 520461001214 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 520461001215 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 520461001216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 520461001217 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 520461001218 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 520461001219 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 520461001220 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 520461001221 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 520461001222 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 520461001223 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 520461001224 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 520461001225 RNA/DNA hybrid binding site [nucleotide binding]; other site 520461001226 active site 520461001227 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 520461001228 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 520461001229 FeS/SAM binding site; other site 520461001230 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 520461001231 active site 520461001232 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 520461001233 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 520461001234 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 520461001235 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 520461001236 tandem repeat interface [polypeptide binding]; other site 520461001237 oligomer interface [polypeptide binding]; other site 520461001238 active site residues [active] 520461001239 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 520461001240 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 520461001241 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 520461001242 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 520461001243 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 520461001244 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 520461001245 substrate binding pocket [chemical binding]; other site 520461001246 chain length determination region; other site 520461001247 substrate-Mg2+ binding site; other site 520461001248 catalytic residues [active] 520461001249 aspartate-rich region 1; other site 520461001250 active site lid residues [active] 520461001251 aspartate-rich region 2; other site 520461001252 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 520461001253 binding surface 520461001254 TPR motif; other site 520461001255 TPR repeat; Region: TPR_11; pfam13414 520461001256 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 520461001257 binding surface 520461001258 TPR motif; other site 520461001259 TPR repeat; Region: TPR_11; pfam13414 520461001260 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 520461001261 binding surface 520461001262 TPR motif; other site 520461001263 TPR repeat; Region: TPR_11; pfam13414 520461001264 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 520461001265 dimer interface [polypeptide binding]; other site 520461001266 motif 1; other site 520461001267 active site 520461001268 motif 2; other site 520461001269 motif 3; other site 520461001270 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 520461001271 DALR anticodon binding domain; Region: DALR_1; pfam05746 520461001272 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 520461001273 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 520461001274 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 520461001275 FAD binding domain; Region: FAD_binding_4; pfam01565 520461001276 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 520461001277 Predicted transcriptional regulator [Transcription]; Region: COG3905 520461001278 enoyl-CoA hydratase; Provisional; Region: PRK06688 520461001279 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 520461001280 substrate binding site [chemical binding]; other site 520461001281 oxyanion hole (OAH) forming residues; other site 520461001282 trimer interface [polypeptide binding]; other site 520461001283 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461001284 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461001285 active site 520461001286 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 520461001287 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461001288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461001289 metal binding site [ion binding]; metal-binding site 520461001290 active site 520461001291 I-site; other site 520461001292 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 520461001293 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 520461001294 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 520461001295 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 520461001296 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 520461001297 UbiA prenyltransferase family; Region: UbiA; pfam01040 520461001298 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 520461001299 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 520461001300 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 520461001301 chaperone protein DnaJ; Provisional; Region: PRK14299 520461001302 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 520461001303 HSP70 interaction site [polypeptide binding]; other site 520461001304 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 520461001305 dimer interface [polypeptide binding]; other site 520461001306 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 520461001307 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 520461001308 NAD binding site [chemical binding]; other site 520461001309 homotetramer interface [polypeptide binding]; other site 520461001310 homodimer interface [polypeptide binding]; other site 520461001311 substrate binding site [chemical binding]; other site 520461001312 active site 520461001313 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 520461001314 catalytic core [active] 520461001315 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 520461001316 DNA-binding site [nucleotide binding]; DNA binding site 520461001317 RNA-binding motif; other site 520461001318 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 520461001319 putative acyl-acceptor binding pocket; other site 520461001320 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 520461001321 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 520461001322 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 520461001323 Tetramer interface [polypeptide binding]; other site 520461001324 active site 520461001325 FMN-binding site [chemical binding]; other site 520461001326 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 520461001327 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 520461001328 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 520461001329 dimerization interface [polypeptide binding]; other site 520461001330 active site 520461001331 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 520461001332 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 520461001333 putative active site [active] 520461001334 Zn binding site [ion binding]; other site 520461001335 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 520461001336 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 520461001337 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 520461001338 Predicted membrane protein [Function unknown]; Region: COG2261 520461001339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 520461001340 Pirin-related protein [General function prediction only]; Region: COG1741 520461001341 Pirin; Region: Pirin; pfam02678 520461001342 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 520461001343 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 520461001344 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 520461001345 TPP-binding site; other site 520461001346 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 520461001347 PYR/PP interface [polypeptide binding]; other site 520461001348 dimer interface [polypeptide binding]; other site 520461001349 TPP binding site [chemical binding]; other site 520461001350 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 520461001351 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 520461001352 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 520461001353 RNA binding surface [nucleotide binding]; other site 520461001354 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 520461001355 S-adenosylmethionine binding site [chemical binding]; other site 520461001356 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 520461001357 Methyltransferase domain; Region: Methyltransf_26; pfam13659 520461001358 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 520461001359 Predicted periplasmic protein [General function prediction only]; Region: COG3895 520461001360 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 520461001361 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 520461001362 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 520461001363 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461001364 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 520461001365 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 520461001366 Walker A/P-loop; other site 520461001367 ATP binding site [chemical binding]; other site 520461001368 Q-loop/lid; other site 520461001369 ABC transporter signature motif; other site 520461001370 Walker B; other site 520461001371 D-loop; other site 520461001372 H-loop/switch region; other site 520461001373 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 520461001374 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 520461001375 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 520461001376 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 520461001377 classical (c) SDRs; Region: SDR_c; cd05233 520461001378 NAD(P) binding site [chemical binding]; other site 520461001379 active site 520461001380 amidophosphoribosyltransferase; Provisional; Region: PRK09123 520461001381 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 520461001382 active site 520461001383 tetramer interface [polypeptide binding]; other site 520461001384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461001385 active site 520461001386 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 520461001387 Colicin V production protein; Region: Colicin_V; pfam02674 520461001388 DNA repair protein RadA; Provisional; Region: PRK11823 520461001389 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 520461001390 Walker A motif/ATP binding site; other site 520461001391 ATP binding site [chemical binding]; other site 520461001392 Walker B motif; other site 520461001393 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 520461001394 replicative DNA helicase; Provisional; Region: PRK09165 520461001395 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 520461001396 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 520461001397 Walker A motif; other site 520461001398 ATP binding site [chemical binding]; other site 520461001399 Walker B motif; other site 520461001400 DNA binding loops [nucleotide binding] 520461001401 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 520461001402 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 520461001403 S-adenosylmethionine binding site [chemical binding]; other site 520461001404 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 520461001405 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 520461001406 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 520461001407 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 520461001408 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 520461001409 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 520461001410 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 520461001411 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 520461001412 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 520461001413 NAD(P) binding site [chemical binding]; other site 520461001414 homotetramer interface [polypeptide binding]; other site 520461001415 homodimer interface [polypeptide binding]; other site 520461001416 active site 520461001417 acyl carrier protein; Provisional; Region: acpP; PRK00982 520461001418 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 520461001419 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 520461001420 dimer interface [polypeptide binding]; other site 520461001421 active site 520461001422 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 520461001423 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 520461001424 dimerization interface [polypeptide binding]; other site 520461001425 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 520461001426 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 520461001427 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 520461001428 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 520461001429 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 520461001430 catalytic site [active] 520461001431 G-X2-G-X-G-K; other site 520461001432 protease TldD; Provisional; Region: tldD; PRK10735 520461001433 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 520461001434 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 520461001435 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 520461001436 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 520461001437 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 520461001438 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 520461001439 Subunit I/III interface [polypeptide binding]; other site 520461001440 D-pathway; other site 520461001441 Subunit I/VIIc interface [polypeptide binding]; other site 520461001442 Subunit I/IV interface [polypeptide binding]; other site 520461001443 Subunit I/II interface [polypeptide binding]; other site 520461001444 Low-spin heme (heme a) binding site [chemical binding]; other site 520461001445 Subunit I/VIIa interface [polypeptide binding]; other site 520461001446 Subunit I/VIa interface [polypeptide binding]; other site 520461001447 Dimer interface; other site 520461001448 Putative water exit pathway; other site 520461001449 Binuclear center (heme a3/CuB) [ion binding]; other site 520461001450 K-pathway; other site 520461001451 Subunit I/Vb interface [polypeptide binding]; other site 520461001452 Putative proton exit pathway; other site 520461001453 Subunit I/VIb interface; other site 520461001454 Subunit I/VIc interface [polypeptide binding]; other site 520461001455 Electron transfer pathway; other site 520461001456 Subunit I/VIIIb interface [polypeptide binding]; other site 520461001457 Subunit I/VIIb interface [polypeptide binding]; other site 520461001458 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 520461001459 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 520461001460 Subunit III/VIIa interface [polypeptide binding]; other site 520461001461 Phospholipid binding site [chemical binding]; other site 520461001462 Subunit I/III interface [polypeptide binding]; other site 520461001463 Subunit III/VIb interface [polypeptide binding]; other site 520461001464 Subunit III/VIa interface; other site 520461001465 Subunit III/Vb interface [polypeptide binding]; other site 520461001466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 520461001467 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 520461001468 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 520461001469 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 520461001470 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 520461001471 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 520461001472 putative active site [active] 520461001473 putative substrate binding site [chemical binding]; other site 520461001474 ATP binding site [chemical binding]; other site 520461001475 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 520461001476 RNA/DNA hybrid binding site [nucleotide binding]; other site 520461001477 active site 520461001478 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 520461001479 catalytic triad [active] 520461001480 dimer interface [polypeptide binding]; other site 520461001481 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 520461001482 hypothetical protein; Validated; Region: PRK00228 520461001483 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 520461001484 PAS fold; Region: PAS_3; pfam08447 520461001485 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461001486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461001487 metal binding site [ion binding]; metal-binding site 520461001488 active site 520461001489 I-site; other site 520461001490 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 520461001491 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 520461001492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 520461001493 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 520461001494 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 520461001495 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 520461001496 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 520461001497 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 520461001498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461001499 catalytic residue [active] 520461001500 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 520461001501 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 520461001502 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 520461001503 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 520461001504 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 520461001505 active site 520461001506 motif I; other site 520461001507 motif II; other site 520461001508 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 520461001509 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 520461001510 Cl- selectivity filter; other site 520461001511 Cl- binding residues [ion binding]; other site 520461001512 pore gating glutamate residue; other site 520461001513 dimer interface [polypeptide binding]; other site 520461001514 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 520461001515 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 520461001516 DNA methylase; Region: N6_N4_Mtase; pfam01555 520461001517 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 520461001518 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 520461001519 motif II; other site 520461001520 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 520461001521 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 520461001522 minor groove reading motif; other site 520461001523 helix-hairpin-helix signature motif; other site 520461001524 substrate binding pocket [chemical binding]; other site 520461001525 active site 520461001526 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 520461001527 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 520461001528 DNA binding and oxoG recognition site [nucleotide binding] 520461001529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 520461001530 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 520461001531 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 520461001532 catalytic residues [active] 520461001533 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 520461001534 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 520461001535 Walker A/P-loop; other site 520461001536 ATP binding site [chemical binding]; other site 520461001537 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 520461001538 ABC transporter signature motif; other site 520461001539 Walker B; other site 520461001540 D-loop; other site 520461001541 H-loop/switch region; other site 520461001542 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 520461001543 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461001544 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 520461001545 pyruvate phosphate dikinase; Provisional; Region: PRK09279 520461001546 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 520461001547 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 520461001548 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 520461001549 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 520461001550 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 520461001551 NodB motif; other site 520461001552 putative active site [active] 520461001553 putative catalytic site [active] 520461001554 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 520461001555 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 520461001556 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 520461001557 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 520461001558 ureidoglycolate hydrolase; Provisional; Region: PRK03606 520461001559 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 520461001560 active site 520461001561 homotetramer interface [polypeptide binding]; other site 520461001562 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 520461001563 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 520461001564 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 520461001565 NAD(P) binding site [chemical binding]; other site 520461001566 homodimer interface [polypeptide binding]; other site 520461001567 substrate binding site [chemical binding]; other site 520461001568 active site 520461001569 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 520461001570 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 520461001571 Mg++ binding site [ion binding]; other site 520461001572 putative catalytic motif [active] 520461001573 putative substrate binding site [chemical binding]; other site 520461001574 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 520461001575 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001576 Homeodomain-like domain; Region: HTH_23; cl17451 520461001577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 520461001578 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 520461001579 Integrase core domain; Region: rve; pfam00665 520461001580 Integrase core domain; Region: rve_3; pfam13683 520461001581 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 520461001582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461001583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001584 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461001585 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 520461001586 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 520461001587 active site 520461001588 substrate binding site [chemical binding]; other site 520461001589 cosubstrate binding site; other site 520461001590 catalytic site [active] 520461001591 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 520461001592 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 520461001593 Walker A/P-loop; other site 520461001594 ATP binding site [chemical binding]; other site 520461001595 Q-loop/lid; other site 520461001596 ABC transporter signature motif; other site 520461001597 Walker B; other site 520461001598 D-loop; other site 520461001599 H-loop/switch region; other site 520461001600 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 520461001601 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 520461001602 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 520461001603 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 520461001604 inhibitor-cofactor binding pocket; inhibition site 520461001605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461001606 catalytic residue [active] 520461001607 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 520461001608 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 520461001609 NADP-binding site; other site 520461001610 homotetramer interface [polypeptide binding]; other site 520461001611 substrate binding site [chemical binding]; other site 520461001612 homodimer interface [polypeptide binding]; other site 520461001613 active site 520461001614 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 520461001615 Integrase core domain; Region: rve; pfam00665 520461001616 DDE domain; Region: DDE_Tnp_IS240; pfam13610 520461001617 Integrase core domain; Region: rve_3; pfam13683 520461001618 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461001619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461001620 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001621 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 520461001622 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461001623 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 520461001624 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 520461001625 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 520461001626 Integrase core domain; Region: rve; pfam00665 520461001627 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 520461001628 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461001630 Transposase; Region: HTH_Tnp_1; cl17663 520461001631 Integrase core domain; Region: rve_3; cl15866 520461001632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461001633 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001634 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461001635 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 520461001636 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 520461001637 Substrate binding site; other site 520461001638 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 520461001639 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 520461001640 dimerization interface [polypeptide binding]; other site 520461001641 putative active cleft [active] 520461001642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461001643 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_4; cd03795 520461001644 putative ADP-binding pocket [chemical binding]; other site 520461001645 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461001646 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 520461001647 TM-ABC transporter signature motif; other site 520461001648 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 520461001649 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 520461001650 putative ligand binding site [chemical binding]; other site 520461001651 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 520461001652 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 520461001653 Metal-binding active site; metal-binding site 520461001654 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 520461001655 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461001656 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461001657 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461001658 xylose isomerase; Provisional; Region: PRK05474 520461001659 xylose isomerase; Region: xylose_isom_A; TIGR02630 520461001660 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 520461001661 N- and C-terminal domain interface [polypeptide binding]; other site 520461001662 D-xylulose kinase; Region: XylB; TIGR01312 520461001663 active site 520461001664 MgATP binding site [chemical binding]; other site 520461001665 catalytic site [active] 520461001666 metal binding site [ion binding]; metal-binding site 520461001667 xylulose binding site [chemical binding]; other site 520461001668 homodimer interface [polypeptide binding]; other site 520461001669 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 520461001670 DNA binding site [nucleotide binding] 520461001671 domain linker motif; other site 520461001672 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 520461001673 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 520461001674 putative ligand binding site [chemical binding]; other site 520461001675 Helix-turn-helix domain; Region: HTH_18; pfam12833 520461001676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461001677 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 520461001678 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 520461001679 tetrameric interface [polypeptide binding]; other site 520461001680 NAD binding site [chemical binding]; other site 520461001681 catalytic residues [active] 520461001682 choline dehydrogenase; Validated; Region: PRK02106 520461001683 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 520461001684 transcriptional regulator BetI; Validated; Region: PRK00767 520461001685 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461001686 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 520461001687 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 520461001688 transcription elongation factor regulatory protein; Validated; Region: PRK06342 520461001689 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 520461001690 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 520461001691 putative addiction module antidote; Region: doc_partner; TIGR02609 520461001692 Transcriptional regulators [Transcription]; Region: FadR; COG2186 520461001693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461001694 DNA-binding site [nucleotide binding]; DNA binding site 520461001695 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 520461001696 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 520461001697 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 520461001698 putative substrate translocation pore; other site 520461001699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461001700 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001701 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; cl17722 520461001702 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 520461001703 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 520461001704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 520461001705 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461001706 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 520461001707 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 520461001708 motif II; other site 520461001709 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 520461001710 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 520461001711 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 520461001712 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 520461001713 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 520461001714 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 520461001715 Predicted transcriptional regulator [Transcription]; Region: COG4957 520461001716 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 520461001717 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 520461001718 DnaA box-binding interface [nucleotide binding]; other site 520461001719 amidase; Validated; Region: PRK05962 520461001720 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 520461001721 Flavin Reductases; Region: FlaRed; cl00801 520461001722 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; cl02459 520461001723 putative active site [active] 520461001724 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461001725 heme pocket [chemical binding]; other site 520461001726 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 520461001727 dimer interface [polypeptide binding]; other site 520461001728 phosphorylation site [posttranslational modification] 520461001729 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 520461001730 ATP binding site [chemical binding]; other site 520461001731 Mg2+ binding site [ion binding]; other site 520461001732 G-X-G motif; other site 520461001733 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 520461001734 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461001735 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461001736 Uncharacterized conserved protein [Function unknown]; Region: COG5447 520461001737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 520461001738 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 520461001739 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461001740 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461001741 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461001742 Predicted integral membrane protein [Function unknown]; Region: COG5436 520461001743 Uncharacterized conserved protein [Function unknown]; Region: COG5402 520461001744 Transglycosylase; Region: Transgly; pfam00912 520461001745 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 520461001746 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 520461001747 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 520461001748 Uncharacterized conserved protein [Function unknown]; Region: COG5323 520461001749 Terminase-like family; Region: Terminase_6; pfam03237 520461001750 Phage-related protein [Function unknown]; Region: COG4695 520461001751 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 520461001752 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 520461001753 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 520461001754 Phage capsid family; Region: Phage_capsid; pfam05065 520461001755 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 520461001756 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 520461001757 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 520461001758 oligomerization interface [polypeptide binding]; other site 520461001759 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 520461001760 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 520461001761 Predicted secreted protein [Function unknown]; Region: COG5437 520461001762 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 520461001763 Phage-related minor tail protein [Function unknown]; Region: COG5281 520461001764 TIGR02217 family protein; Region: chp_TIGR02217 520461001765 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 520461001766 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 520461001767 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 520461001768 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 520461001769 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 520461001770 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 520461001771 Putative phage tail protein; Region: Phage-tail_3; pfam13550 520461001772 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461001773 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 520461001774 active site 520461001775 phosphorylation site [posttranslational modification] 520461001776 intermolecular recognition site; other site 520461001777 dimerization interface [polypeptide binding]; other site 520461001778 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 520461001779 DNA binding site [nucleotide binding] 520461001780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461001781 HAMP domain; Region: HAMP; pfam00672 520461001782 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 520461001783 ATP binding site [chemical binding]; other site 520461001784 Mg2+ binding site [ion binding]; other site 520461001785 G-X-G motif; other site 520461001786 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 520461001787 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 520461001788 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 520461001789 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 520461001790 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 520461001791 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 520461001792 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 520461001793 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 520461001794 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 520461001795 protein binding site [polypeptide binding]; other site 520461001796 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 520461001797 protein binding site [polypeptide binding]; other site 520461001798 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461001799 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 520461001800 active site 520461001801 phosphorylation site [posttranslational modification] 520461001802 intermolecular recognition site; other site 520461001803 dimerization interface [polypeptide binding]; other site 520461001804 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 520461001805 DNA binding site [nucleotide binding] 520461001806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461001807 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 520461001808 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 520461001809 dimerization interface [polypeptide binding]; other site 520461001810 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 520461001811 dimer interface [polypeptide binding]; other site 520461001812 phosphorylation site [posttranslational modification] 520461001813 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 520461001814 ATP binding site [chemical binding]; other site 520461001815 Mg2+ binding site [ion binding]; other site 520461001816 G-X-G motif; other site 520461001817 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 520461001818 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 520461001819 metal binding triad; other site 520461001820 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 520461001821 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 520461001822 metal binding triad; other site 520461001823 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 520461001824 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 520461001825 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; cl01298 520461001826 O-Antigen ligase; Region: Wzy_C; pfam04932 520461001827 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 520461001828 PAS fold; Region: PAS_3; pfam08447 520461001829 putative active site [active] 520461001830 heme pocket [chemical binding]; other site 520461001831 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 520461001832 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 520461001833 dimer interface [polypeptide binding]; other site 520461001834 phosphorylation site [posttranslational modification] 520461001835 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 520461001836 ATP binding site [chemical binding]; other site 520461001837 Mg2+ binding site [ion binding]; other site 520461001838 G-X-G motif; other site 520461001839 aminopeptidase N; Provisional; Region: pepN; PRK14015 520461001840 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 520461001841 active site 520461001842 Zn binding site [ion binding]; other site 520461001843 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 520461001844 EamA-like transporter family; Region: EamA; pfam00892 520461001845 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 520461001846 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461001847 putative substrate translocation pore; other site 520461001848 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 520461001849 Fe-S cluster binding site [ion binding]; other site 520461001850 active site 520461001851 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 520461001852 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461001853 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 520461001854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 520461001855 putative catalytic site [active] 520461001856 putative metal binding site [ion binding]; other site 520461001857 putative phosphate binding site [ion binding]; other site 520461001858 AMP nucleosidase; Provisional; Region: PRK08292 520461001859 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 520461001860 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 520461001861 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 520461001862 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 520461001863 C-terminal domain interface [polypeptide binding]; other site 520461001864 GSH binding site (G-site) [chemical binding]; other site 520461001865 dimer interface [polypeptide binding]; other site 520461001866 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 520461001867 N-terminal domain interface [polypeptide binding]; other site 520461001868 putative dimer interface [polypeptide binding]; other site 520461001869 active site 520461001870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 520461001871 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 520461001872 Uncharacterized conserved protein [Function unknown]; Region: COG1284 520461001873 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 520461001874 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 520461001875 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 520461001876 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 520461001877 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 520461001878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461001879 homodimer interface [polypeptide binding]; other site 520461001880 catalytic residue [active] 520461001881 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 520461001882 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 520461001883 active site 520461001884 DNA binding site [nucleotide binding] 520461001885 Int/Topo IB signature motif; other site 520461001886 Porin subfamily; Region: Porin_2; pfam02530 520461001887 Porin subfamily; Region: Porin_2; pfam02530 520461001888 Uncharacterized conserved protein [Function unknown]; Region: COG3743 520461001889 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 520461001890 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 520461001891 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461001892 catalytic residue [active] 520461001893 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 520461001894 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 520461001895 dimer interface [polypeptide binding]; other site 520461001896 active site 520461001897 catalytic residue [active] 520461001898 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 520461001899 SmpB-tmRNA interface; other site 520461001900 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 520461001901 Fe-S cluster binding site [ion binding]; other site 520461001902 DNA binding site [nucleotide binding] 520461001903 active site 520461001904 Uncharacterized conserved protein [Function unknown]; Region: COG1432 520461001905 LabA_like proteins; Region: LabA; cd10911 520461001906 putative metal binding site [ion binding]; other site 520461001907 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 520461001908 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 520461001909 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 520461001910 Zn2+ binding site [ion binding]; other site 520461001911 Mg2+ binding site [ion binding]; other site 520461001912 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 520461001913 synthetase active site [active] 520461001914 NTP binding site [chemical binding]; other site 520461001915 metal binding site [ion binding]; metal-binding site 520461001916 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 520461001917 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 520461001918 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461001919 active site 520461001920 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 520461001921 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 520461001922 ligand binding site [chemical binding]; other site 520461001923 flexible hinge region; other site 520461001924 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 520461001925 putative switch regulator; other site 520461001926 non-specific DNA interactions [nucleotide binding]; other site 520461001927 DNA binding site [nucleotide binding] 520461001928 sequence specific DNA binding site [nucleotide binding]; other site 520461001929 putative cAMP binding site [chemical binding]; other site 520461001930 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 520461001931 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461001932 putative substrate translocation pore; other site 520461001933 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 520461001934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461001935 Helix-turn-helix domain; Region: HTH_18; pfam12833 520461001936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461001937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 520461001938 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 520461001939 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 520461001940 Catalytic site [active] 520461001941 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 520461001942 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 520461001943 ribonuclease III; Reviewed; Region: PRK12371 520461001944 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 520461001945 dimerization interface [polypeptide binding]; other site 520461001946 active site 520461001947 metal binding site [ion binding]; metal-binding site 520461001948 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 520461001949 dsRNA binding site [nucleotide binding]; other site 520461001950 GTPase Era; Reviewed; Region: era; PRK00089 520461001951 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 520461001952 G1 box; other site 520461001953 GTP/Mg2+ binding site [chemical binding]; other site 520461001954 Switch I region; other site 520461001955 G2 box; other site 520461001956 Switch II region; other site 520461001957 G3 box; other site 520461001958 G4 box; other site 520461001959 G5 box; other site 520461001960 KH domain; Region: KH_2; pfam07650 520461001961 Recombination protein O N terminal; Region: RecO_N; pfam11967 520461001962 DNA repair protein RecO; Region: reco; TIGR00613 520461001963 Recombination protein O C terminal; Region: RecO_C; pfam02565 520461001964 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 520461001965 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 520461001966 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 520461001967 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 520461001968 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 520461001969 dihydroorotase; Validated; Region: PRK09060 520461001970 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 520461001971 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 520461001972 active site 520461001973 TIGR02301 family protein; Region: TIGR02301 520461001974 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 520461001975 nudix motif; other site 520461001976 Uncharacterized conserved protein [Function unknown]; Region: COG2135 520461001977 Lysine efflux permease [General function prediction only]; Region: COG1279 520461001978 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 520461001979 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461001980 active site 520461001981 HIGH motif; other site 520461001982 nucleotide binding site [chemical binding]; other site 520461001983 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 520461001984 KMSKS motif; other site 520461001985 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 520461001986 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 520461001987 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 520461001988 active site 520461001989 catalytic residues [active] 520461001990 metal binding site [ion binding]; metal-binding site 520461001991 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 520461001992 Predicted permeases [General function prediction only]; Region: RarD; COG2962 520461001993 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 520461001994 Peptidase family M23; Region: Peptidase_M23; pfam01551 520461001995 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 520461001996 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 520461001997 S-adenosylmethionine binding site [chemical binding]; other site 520461001998 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 520461001999 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 520461002000 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 520461002001 SurA N-terminal domain; Region: SurA_N; pfam09312 520461002002 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 520461002003 OstA-like protein; Region: OstA; cl00844 520461002004 Organic solvent tolerance protein; Region: OstA_C; pfam04453 520461002005 Predicted permeases [General function prediction only]; Region: COG0795 520461002006 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 520461002007 Predicted permeases [General function prediction only]; Region: COG0795 520461002008 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 520461002009 multifunctional aminopeptidase A; Provisional; Region: PRK00913 520461002010 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 520461002011 interface (dimer of trimers) [polypeptide binding]; other site 520461002012 Substrate-binding/catalytic site; other site 520461002013 Zn-binding sites [ion binding]; other site 520461002014 DNA polymerase III subunit chi; Validated; Region: PRK05728 520461002015 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 520461002016 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 520461002017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461002018 Walker A/P-loop; other site 520461002019 ATP binding site [chemical binding]; other site 520461002020 ABC transporter signature motif; other site 520461002021 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 520461002022 Walker B; other site 520461002023 D-loop; other site 520461002024 ABC transporter; Region: ABC_tran_2; pfam12848 520461002025 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 520461002026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 520461002027 DinB superfamily; Region: DinB_2; pfam12867 520461002028 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 520461002029 active site 520461002030 multimer interface [polypeptide binding]; other site 520461002031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461002032 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461002033 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461002034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 520461002035 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 520461002036 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 520461002037 MoaE homodimer interface [polypeptide binding]; other site 520461002038 MoaD interaction [polypeptide binding]; other site 520461002039 active site residues [active] 520461002040 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 520461002041 MoaE interaction surface [polypeptide binding]; other site 520461002042 MoeB interaction surface [polypeptide binding]; other site 520461002043 thiocarboxylated glycine; other site 520461002044 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 520461002045 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 520461002046 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 520461002047 GIY-YIG motif/motif A; other site 520461002048 active site 520461002049 catalytic site [active] 520461002050 putative DNA binding site [nucleotide binding]; other site 520461002051 metal binding site [ion binding]; metal-binding site 520461002052 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 520461002053 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 520461002054 short chain dehydrogenase; Provisional; Region: PRK09134 520461002055 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 520461002056 NADP binding site [chemical binding]; other site 520461002057 substrate binding pocket [chemical binding]; other site 520461002058 active site 520461002059 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461002060 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 520461002061 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 520461002062 putative C-terminal domain interface [polypeptide binding]; other site 520461002063 putative GSH binding site (G-site) [chemical binding]; other site 520461002064 putative dimer interface [polypeptide binding]; other site 520461002065 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 520461002066 dimer interface [polypeptide binding]; other site 520461002067 N-terminal domain interface [polypeptide binding]; other site 520461002068 putative substrate binding pocket (H-site) [chemical binding]; other site 520461002069 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 520461002070 B1 nucleotide binding pocket [chemical binding]; other site 520461002071 B2 nucleotide binding pocket [chemical binding]; other site 520461002072 CAS motifs; other site 520461002073 active site 520461002074 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 520461002075 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 520461002076 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 520461002077 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 520461002078 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 520461002079 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 520461002080 putative [4Fe-4S] binding site [ion binding]; other site 520461002081 putative molybdopterin cofactor binding site [chemical binding]; other site 520461002082 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 520461002083 putative molybdopterin cofactor binding site; other site 520461002084 Protein of unknown function (DUF992); Region: DUF992; pfam06186 520461002085 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 520461002086 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 520461002087 active site 520461002088 cosubstrate binding site; other site 520461002089 substrate binding site [chemical binding]; other site 520461002090 catalytic site [active] 520461002091 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 520461002092 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 520461002093 dimerization interface [polypeptide binding]; other site 520461002094 putative ATP binding site [chemical binding]; other site 520461002095 Domain of unknown function DUF20; Region: UPF0118; pfam01594 520461002096 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 520461002097 hypothetical protein; Validated; Region: PRK09087 520461002098 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 520461002099 Walker A motif; other site 520461002100 ATP binding site [chemical binding]; other site 520461002101 Walker B motif; other site 520461002102 arginine finger; other site 520461002103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461002104 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 520461002105 NAD(P) binding site [chemical binding]; other site 520461002106 active site 520461002107 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 520461002108 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 520461002109 putative NAD(P) binding site [chemical binding]; other site 520461002110 putative active site [active] 520461002111 L-lactate permease; Region: Lactate_perm; cl00701 520461002112 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 520461002113 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 520461002114 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 520461002115 active site 520461002116 catalytic site [active] 520461002117 substrate binding site [chemical binding]; other site 520461002118 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; COG2019 520461002119 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 520461002120 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 520461002121 non-specific DNA binding site [nucleotide binding]; other site 520461002122 salt bridge; other site 520461002123 sequence-specific DNA binding site [nucleotide binding]; other site 520461002124 Uncharacterized conserved protein [Function unknown]; Region: COG4933 520461002125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461002126 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461002127 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461002128 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 520461002129 Integrase core domain; Region: rve; pfam00665 520461002130 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 520461002131 TniQ; Region: TniQ; pfam06527 520461002132 Domain of unknown function (DUF955); Region: DUF955; pfam06114 520461002133 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 520461002134 TIR domain; Region: TIR_2; pfam13676 520461002135 Bacterial SH3 domain; Region: SH3_3; pfam08239 520461002136 cystathionine beta-lyase; Provisional; Region: PRK05967 520461002137 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 520461002138 homodimer interface [polypeptide binding]; other site 520461002139 substrate-cofactor binding pocket; other site 520461002140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461002141 catalytic residue [active] 520461002142 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 520461002143 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 520461002144 active site 520461002145 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 520461002146 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 520461002147 substrate binding pocket [chemical binding]; other site 520461002148 membrane-bound complex binding site; other site 520461002149 hinge residues; other site 520461002150 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 520461002151 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 520461002152 dimer interface [polypeptide binding]; other site 520461002153 conserved gate region; other site 520461002154 putative PBP binding loops; other site 520461002155 ABC-ATPase subunit interface; other site 520461002156 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 520461002157 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 520461002158 Walker A/P-loop; other site 520461002159 ATP binding site [chemical binding]; other site 520461002160 Q-loop/lid; other site 520461002161 ABC transporter signature motif; other site 520461002162 Walker B; other site 520461002163 D-loop; other site 520461002164 H-loop/switch region; other site 520461002165 salicylate hydroxylase; Provisional; Region: PRK06475 520461002166 salicylate hydroxylase; Provisional; Region: PRK08163 520461002167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 520461002168 polyphosphate kinase; Provisional; Region: PRK05443 520461002169 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 520461002170 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 520461002171 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 520461002172 putative domain interface [polypeptide binding]; other site 520461002173 putative active site [active] 520461002174 catalytic site [active] 520461002175 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 520461002176 putative domain interface [polypeptide binding]; other site 520461002177 putative active site [active] 520461002178 catalytic site [active] 520461002179 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 520461002180 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 520461002181 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 520461002182 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 520461002183 catalytic site [active] 520461002184 putative active site [active] 520461002185 putative substrate binding site [chemical binding]; other site 520461002186 HRDC domain; Region: HRDC; pfam00570 520461002187 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 520461002188 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 520461002189 dimer interface [polypeptide binding]; other site 520461002190 anticodon binding site; other site 520461002191 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 520461002192 homodimer interface [polypeptide binding]; other site 520461002193 motif 1; other site 520461002194 active site 520461002195 motif 2; other site 520461002196 GAD domain; Region: GAD; pfam02938 520461002197 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 520461002198 active site 520461002199 motif 3; other site 520461002200 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 520461002201 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 520461002202 CAP-like domain; other site 520461002203 active site 520461002204 primary dimer interface [polypeptide binding]; other site 520461002205 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 520461002206 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 520461002207 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 520461002208 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 520461002209 Predicted membrane protein/domain [Function unknown]; Region: COG1714 520461002210 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 520461002211 dimer interface [polypeptide binding]; other site 520461002212 allosteric magnesium binding site [ion binding]; other site 520461002213 active site 520461002214 aspartate-rich active site metal binding site; other site 520461002215 Schiff base residues; other site 520461002216 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 520461002217 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 520461002218 substrate binding site [chemical binding]; other site 520461002219 oxyanion hole (OAH) forming residues; other site 520461002220 trimer interface [polypeptide binding]; other site 520461002221 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 520461002222 Transcriptional regulators [Transcription]; Region: MarR; COG1846 520461002223 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 520461002224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 520461002225 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461002226 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461002227 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461002228 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 520461002229 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 520461002230 dimer interface [polypeptide binding]; other site 520461002231 active site 520461002232 glycine-pyridoxal phosphate binding site [chemical binding]; other site 520461002233 folate binding site [chemical binding]; other site 520461002234 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 520461002235 ATP cone domain; Region: ATP-cone; pfam03477 520461002236 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 520461002237 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 520461002238 catalytic motif [active] 520461002239 Zn binding site [ion binding]; other site 520461002240 RibD C-terminal domain; Region: RibD_C; cl17279 520461002241 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 520461002242 Lumazine binding domain; Region: Lum_binding; pfam00677 520461002243 Lumazine binding domain; Region: Lum_binding; pfam00677 520461002244 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 520461002245 homopentamer interface [polypeptide binding]; other site 520461002246 active site 520461002247 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 520461002248 putative RNA binding site [nucleotide binding]; other site 520461002249 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 520461002250 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 520461002251 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 520461002252 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 520461002253 Uncharacterized conserved protein [Function unknown]; Region: COG5452 520461002254 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 520461002255 putative phosphate acyltransferase; Provisional; Region: PRK05331 520461002256 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 520461002257 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 520461002258 dimer interface [polypeptide binding]; other site 520461002259 active site 520461002260 CoA binding pocket [chemical binding]; other site 520461002261 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 520461002262 IHF dimer interface [polypeptide binding]; other site 520461002263 IHF - DNA interface [nucleotide binding]; other site 520461002264 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 520461002265 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 520461002266 DNA binding residues [nucleotide binding] 520461002267 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 520461002268 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 520461002269 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 520461002270 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 520461002271 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 520461002272 SLBB domain; Region: SLBB; pfam10531 520461002273 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 520461002274 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 520461002275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461002276 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461002277 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461002278 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 520461002279 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 520461002280 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 520461002281 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 520461002282 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 520461002283 oligomer interface [polypeptide binding]; other site 520461002284 putative active site [active] 520461002285 Mn binding site [ion binding]; other site 520461002286 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 520461002287 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 520461002288 23S rRNA interface [nucleotide binding]; other site 520461002289 L3 interface [polypeptide binding]; other site 520461002290 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 520461002291 CoenzymeA binding site [chemical binding]; other site 520461002292 subunit interaction site [polypeptide binding]; other site 520461002293 PHB binding site; other site 520461002294 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 520461002295 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 520461002296 homodimer interface [polypeptide binding]; other site 520461002297 substrate-cofactor binding pocket; other site 520461002298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461002299 catalytic residue [active] 520461002300 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 520461002301 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 520461002302 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 520461002303 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 520461002304 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 520461002305 NADH dehydrogenase subunit D; Validated; Region: PRK06075 520461002306 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 520461002307 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 520461002308 putative dimer interface [polypeptide binding]; other site 520461002309 [2Fe-2S] cluster binding site [ion binding]; other site 520461002310 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 520461002311 SLBB domain; Region: SLBB; pfam10531 520461002312 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 520461002313 NADH dehydrogenase subunit G; Validated; Region: PRK09130 520461002314 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 520461002315 catalytic loop [active] 520461002316 iron binding site [ion binding]; other site 520461002317 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 520461002318 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 520461002319 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 520461002320 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 520461002321 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 520461002322 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 520461002323 4Fe-4S binding domain; Region: Fer4; pfam00037 520461002324 4Fe-4S binding domain; Region: Fer4; pfam00037 520461002325 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 520461002326 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 520461002327 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 520461002328 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 520461002329 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 520461002330 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 520461002331 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 520461002332 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 520461002333 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 520461002334 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 520461002335 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 520461002336 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 520461002337 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 520461002338 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 520461002339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 520461002340 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 520461002341 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461002342 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 520461002343 dimer interface [polypeptide binding]; other site 520461002344 substrate binding site [chemical binding]; other site 520461002345 metal binding site [ion binding]; metal-binding site 520461002346 Predicted secreted protein [Function unknown]; Region: COG5454 520461002347 prolyl-tRNA synthetase; Provisional; Region: PRK12325 520461002348 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 520461002349 dimer interface [polypeptide binding]; other site 520461002350 motif 1; other site 520461002351 active site 520461002352 motif 2; other site 520461002353 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 520461002354 active site 520461002355 motif 3; other site 520461002356 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 520461002357 anticodon binding site; other site 520461002358 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 520461002359 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 520461002360 FtsX-like permease family; Region: FtsX; pfam02687 520461002361 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 520461002362 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 520461002363 Walker A/P-loop; other site 520461002364 ATP binding site [chemical binding]; other site 520461002365 Q-loop/lid; other site 520461002366 ABC transporter signature motif; other site 520461002367 Walker B; other site 520461002368 D-loop; other site 520461002369 H-loop/switch region; other site 520461002370 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 520461002371 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 520461002372 putative active site [active] 520461002373 putative PHP Thumb interface [polypeptide binding]; other site 520461002374 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 520461002375 generic binding surface II; other site 520461002376 generic binding surface I; other site 520461002377 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 520461002378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 520461002379 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 520461002380 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 520461002381 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 520461002382 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 520461002383 RNA binding surface [nucleotide binding]; other site 520461002384 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 520461002385 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 520461002386 Ligand Binding Site [chemical binding]; other site 520461002387 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 520461002388 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 520461002389 active site 520461002390 putative lithium-binding site [ion binding]; other site 520461002391 substrate binding site [chemical binding]; other site 520461002392 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 520461002393 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 520461002394 putative substrate translocation pore; other site 520461002395 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 520461002396 putative GSH binding site [chemical binding]; other site 520461002397 catalytic residues [active] 520461002398 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 520461002399 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 520461002400 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 520461002401 dimerization interface [polypeptide binding]; other site 520461002402 ATP binding site [chemical binding]; other site 520461002403 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 520461002404 dimerization interface [polypeptide binding]; other site 520461002405 ATP binding site [chemical binding]; other site 520461002406 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 520461002407 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 520461002408 C-terminal domain interface [polypeptide binding]; other site 520461002409 GSH binding site (G-site) [chemical binding]; other site 520461002410 dimer interface [polypeptide binding]; other site 520461002411 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 520461002412 N-terminal domain interface [polypeptide binding]; other site 520461002413 dimer interface [polypeptide binding]; other site 520461002414 substrate binding pocket (H-site) [chemical binding]; other site 520461002415 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 520461002416 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 520461002417 putative active site [active] 520461002418 catalytic triad [active] 520461002419 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 520461002420 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 520461002421 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 520461002422 ATP binding site [chemical binding]; other site 520461002423 active site 520461002424 substrate binding site [chemical binding]; other site 520461002425 Uncharacterized conserved protein [Function unknown]; Region: COG5467 520461002426 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 520461002427 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 520461002428 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 520461002429 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 520461002430 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 520461002431 putative metal binding site [ion binding]; other site 520461002432 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 520461002433 active site 520461002434 adenylosuccinate lyase; Provisional; Region: PRK07492 520461002435 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 520461002436 tetramer interface [polypeptide binding]; other site 520461002437 active site 520461002438 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 520461002439 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 520461002440 substrate binding site [chemical binding]; other site 520461002441 hexamer interface [polypeptide binding]; other site 520461002442 metal binding site [ion binding]; metal-binding site 520461002443 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 520461002444 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 520461002445 putative acyl-acceptor binding pocket; other site 520461002446 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 520461002447 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 520461002448 putative NAD(P) binding site [chemical binding]; other site 520461002449 structural Zn binding site [ion binding]; other site 520461002450 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 520461002451 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 520461002452 dimer interface [polypeptide binding]; other site 520461002453 active site 520461002454 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 520461002455 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 520461002456 active site 520461002457 acyl carrier protein; Provisional; Region: PRK06508 520461002458 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 520461002459 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 520461002460 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 520461002461 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 520461002462 active site 520461002463 catalytic residues [active] 520461002464 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 520461002465 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 520461002466 substrate binding site [chemical binding]; other site 520461002467 ATP binding site [chemical binding]; other site 520461002468 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 520461002469 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 520461002470 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 520461002471 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 520461002472 active site 520461002473 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 520461002474 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 520461002475 active site 520461002476 motif I; other site 520461002477 motif II; other site 520461002478 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 520461002479 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 520461002480 substrate binding pocket [chemical binding]; other site 520461002481 membrane-bound complex binding site; other site 520461002482 hinge residues; other site 520461002483 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 520461002484 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 520461002485 FMN binding site [chemical binding]; other site 520461002486 active site 520461002487 catalytic residues [active] 520461002488 substrate binding site [chemical binding]; other site 520461002489 Predicted aspartyl protease [General function prediction only]; Region: COG3577 520461002490 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 520461002491 catalytic motif [active] 520461002492 Catalytic residue [active] 520461002493 Predicted Fe-S protein [General function prediction only]; Region: COG3313 520461002494 cobalamin synthase; Reviewed; Region: cobS; PRK00235 520461002495 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 520461002496 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 520461002497 putative dimer interface [polypeptide binding]; other site 520461002498 active site pocket [active] 520461002499 putative cataytic base [active] 520461002500 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461002501 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 520461002502 putative DNA binding site [nucleotide binding]; other site 520461002503 putative Zn2+ binding site [ion binding]; other site 520461002504 AsnC family; Region: AsnC_trans_reg; pfam01037 520461002505 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 520461002506 putative uracil binding site [chemical binding]; other site 520461002507 putative active site [active] 520461002508 Staphylococcal nuclease homologues; Region: SNc; smart00318 520461002509 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 520461002510 Catalytic site; other site 520461002511 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 520461002512 Sel1-like repeats; Region: SEL1; smart00671 520461002513 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 520461002514 putative catalytic site [active] 520461002515 putative phosphate binding site [ion binding]; other site 520461002516 active site 520461002517 metal binding site A [ion binding]; metal-binding site 520461002518 DNA binding site [nucleotide binding] 520461002519 putative AP binding site [nucleotide binding]; other site 520461002520 putative metal binding site B [ion binding]; other site 520461002521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 520461002522 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 520461002523 putative metal binding site [ion binding]; other site 520461002524 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 520461002525 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 520461002526 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 520461002527 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 520461002528 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 520461002529 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 520461002530 active site 520461002531 HIGH motif; other site 520461002532 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461002533 KMSK motif region; other site 520461002534 tRNA binding surface [nucleotide binding]; other site 520461002535 DALR anticodon binding domain; Region: DALR_1; smart00836 520461002536 anticodon binding site; other site 520461002537 Sporulation related domain; Region: SPOR; pfam05036 520461002538 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 520461002539 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 520461002540 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 520461002541 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 520461002542 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 520461002543 sec-independent translocase; Provisional; Region: PRK00708 520461002544 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 520461002545 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 520461002546 seryl-tRNA synthetase; Provisional; Region: PRK05431 520461002547 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 520461002548 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 520461002549 dimer interface [polypeptide binding]; other site 520461002550 active site 520461002551 motif 1; other site 520461002552 motif 2; other site 520461002553 motif 3; other site 520461002554 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 520461002555 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 520461002556 S-adenosylmethionine binding site [chemical binding]; other site 520461002557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461002558 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461002559 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461002560 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 520461002561 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 520461002562 Peptidase family M23; Region: Peptidase_M23; pfam01551 520461002563 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 520461002564 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 520461002565 Walker A motif; other site 520461002566 ATP binding site [chemical binding]; other site 520461002567 Walker B motif; other site 520461002568 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 520461002569 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 520461002570 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 520461002571 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 520461002572 Protein export membrane protein; Region: SecD_SecF; pfam02355 520461002573 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 520461002574 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 520461002575 substrate binding pocket [chemical binding]; other site 520461002576 substrate-Mg2+ binding site; other site 520461002577 aspartate-rich region 1; other site 520461002578 aspartate-rich region 2; other site 520461002579 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 520461002580 Glucose inhibited division protein A; Region: GIDA; pfam01134 520461002581 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 520461002582 Predicted membrane protein [Function unknown]; Region: COG4872 520461002583 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 520461002584 trigger factor; Provisional; Region: tig; PRK01490 520461002585 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 520461002586 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 520461002587 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 520461002588 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 520461002589 GatB domain; Region: GatB_Yqey; smart00845 520461002590 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 520461002591 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 520461002592 NADH dehydrogenase; Validated; Region: PRK08183 520461002593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 520461002594 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 520461002595 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 520461002596 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 520461002597 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 520461002598 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 520461002599 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 520461002600 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 520461002601 carboxyltransferase (CT) interaction site; other site 520461002602 biotinylation site [posttranslational modification]; other site 520461002603 Dehydroquinase class II; Region: DHquinase_II; pfam01220 520461002604 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 520461002605 trimer interface [polypeptide binding]; other site 520461002606 active site 520461002607 dimer interface [polypeptide binding]; other site 520461002608 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 520461002609 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 520461002610 catalytic residues [active] 520461002611 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 520461002612 Peptidase family M48; Region: Peptidase_M48; cl12018 520461002613 aspartate aminotransferase; Provisional; Region: PRK05764 520461002614 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 520461002615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461002616 homodimer interface [polypeptide binding]; other site 520461002617 catalytic residue [active] 520461002618 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 520461002619 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 520461002620 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 520461002621 AMIN domain; Region: AMIN; pfam11741 520461002622 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 520461002623 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 520461002624 active site 520461002625 metal binding site [ion binding]; metal-binding site 520461002626 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 520461002627 Transglycosylase; Region: Transgly; pfam00912 520461002628 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 520461002629 peptide chain release factor 2; Provisional; Region: PRK07342 520461002630 This domain is found in peptide chain release factors; Region: PCRF; smart00937 520461002631 RF-1 domain; Region: RF-1; pfam00472 520461002632 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461002633 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461002634 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461002635 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 520461002636 dinuclear metal binding motif [ion binding]; other site 520461002637 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 520461002638 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 520461002639 catalytic triad [active] 520461002640 AsmA family; Region: AsmA; pfam05170 520461002641 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 520461002642 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 520461002643 active site 520461002644 HIGH motif; other site 520461002645 dimer interface [polypeptide binding]; other site 520461002646 KMSKS motif; other site 520461002647 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 520461002648 RNA binding surface [nucleotide binding]; other site 520461002649 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 520461002650 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 520461002651 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 520461002652 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 520461002653 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 520461002654 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461002655 catalytic residue [active] 520461002656 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 520461002657 putative ABC transporter; Region: ycf24; CHL00085 520461002658 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 520461002659 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 520461002660 Walker A/P-loop; other site 520461002661 ATP binding site [chemical binding]; other site 520461002662 Q-loop/lid; other site 520461002663 ABC transporter signature motif; other site 520461002664 Walker B; other site 520461002665 D-loop; other site 520461002666 H-loop/switch region; other site 520461002667 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 520461002668 FeS assembly protein SufD; Region: sufD; TIGR01981 520461002669 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 520461002670 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 520461002671 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461002672 catalytic residue [active] 520461002673 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 520461002674 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 520461002675 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 520461002676 active site 520461002677 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 520461002678 ATP-NAD kinase; Region: NAD_kinase; pfam01513 520461002679 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 520461002680 helicase 45; Provisional; Region: PTZ00424 520461002681 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 520461002682 ATP binding site [chemical binding]; other site 520461002683 Mg++ binding site [ion binding]; other site 520461002684 motif III; other site 520461002685 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 520461002686 nucleotide binding region [chemical binding]; other site 520461002687 ATP-binding site [chemical binding]; other site 520461002688 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 520461002689 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 520461002690 metal-binding site [ion binding] 520461002691 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 520461002692 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 520461002693 S-adenosylmethionine binding site [chemical binding]; other site 520461002694 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 520461002695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 520461002696 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 520461002697 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 520461002698 HIGH motif; other site 520461002699 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 520461002700 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 520461002701 active site 520461002702 KMSKS motif; other site 520461002703 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 520461002704 tRNA binding surface [nucleotide binding]; other site 520461002705 anticodon binding site; other site 520461002706 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 520461002707 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 520461002708 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 520461002709 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 520461002710 Walker A motif; other site 520461002711 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 520461002712 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 520461002713 GTP binding site; other site 520461002714 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 520461002715 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 520461002716 FeS/SAM binding site; other site 520461002717 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 520461002718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 520461002719 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 520461002720 hypothetical protein; Provisional; Region: PRK06753 520461002721 fumarate hydratase; Provisional; Region: PRK15389 520461002722 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 520461002723 Fumarase C-terminus; Region: Fumerase_C; pfam05683 520461002724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 520461002725 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461002726 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461002727 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 520461002728 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 520461002729 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 520461002730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 520461002731 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461002732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461002733 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461002734 Phage portal protein; Region: Phage_portal; pfam04860 520461002735 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461002736 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 520461002737 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 520461002738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461002739 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 520461002740 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 520461002741 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 520461002742 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 520461002743 ArsC family; Region: ArsC; pfam03960 520461002744 catalytic residues [active] 520461002745 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 520461002746 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 520461002747 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 520461002748 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 520461002749 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 520461002750 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 520461002751 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 520461002752 TMP-binding site; other site 520461002753 ATP-binding site [chemical binding]; other site 520461002754 DNA polymerase III subunit delta'; Validated; Region: PRK09112 520461002755 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 520461002756 DNA polymerase III subunit delta'; Validated; Region: PRK08485 520461002757 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 520461002758 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 520461002759 active site 520461002760 HIGH motif; other site 520461002761 KMSKS motif; other site 520461002762 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 520461002763 tRNA binding surface [nucleotide binding]; other site 520461002764 anticodon binding site; other site 520461002765 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 520461002766 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 520461002767 active site 520461002768 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 520461002769 putative hydrolase; Provisional; Region: PRK02113 520461002770 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 520461002771 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461002772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461002773 Walker A/P-loop; other site 520461002774 ATP binding site [chemical binding]; other site 520461002775 Q-loop/lid; other site 520461002776 ABC transporter signature motif; other site 520461002777 Walker B; other site 520461002778 D-loop; other site 520461002779 H-loop/switch region; other site 520461002780 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 520461002781 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 520461002782 active site 520461002783 EamA-like transporter family; Region: EamA; pfam00892 520461002784 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 520461002785 EamA-like transporter family; Region: EamA; pfam00892 520461002786 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 520461002787 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; cl17915 520461002788 motif I; other site 520461002789 active site 520461002790 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 520461002791 motif II; other site 520461002792 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 520461002793 glutamine synthetase; Provisional; Region: glnA; PRK09469 520461002794 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 520461002795 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 520461002796 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 520461002797 Nitrogen regulatory protein P-II; Region: P-II; smart00938 520461002798 Uncharacterized conserved protein [Function unknown]; Region: COG0062 520461002799 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 520461002800 putative substrate binding site [chemical binding]; other site 520461002801 putative ATP binding site [chemical binding]; other site 520461002802 phosphoglycolate phosphatase; Provisional; Region: PRK13222 520461002803 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 520461002804 motif II; other site 520461002805 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 520461002806 tetramer (dimer of dimers) interface [polypeptide binding]; other site 520461002807 active site 520461002808 dimer interface [polypeptide binding]; other site 520461002809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 520461002810 glutathione reductase; Validated; Region: PRK06116 520461002811 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 520461002812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461002813 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 520461002814 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 520461002815 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 520461002816 NAD synthetase; Provisional; Region: PRK13981 520461002817 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 520461002818 multimer interface [polypeptide binding]; other site 520461002819 active site 520461002820 catalytic triad [active] 520461002821 protein interface 1 [polypeptide binding]; other site 520461002822 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 520461002823 homodimer interface [polypeptide binding]; other site 520461002824 NAD binding pocket [chemical binding]; other site 520461002825 ATP binding pocket [chemical binding]; other site 520461002826 Mg binding site [ion binding]; other site 520461002827 active-site loop [active] 520461002828 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 520461002829 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461002830 active site 520461002831 HIGH motif; other site 520461002832 nucleotide binding site [chemical binding]; other site 520461002833 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 520461002834 active site 520461002835 KMSKS motif; other site 520461002836 malic enzyme; Reviewed; Region: PRK12862 520461002837 Malic enzyme, N-terminal domain; Region: malic; pfam00390 520461002838 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 520461002839 putative NAD(P) binding site [chemical binding]; other site 520461002840 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 520461002841 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 520461002842 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 520461002843 active site 520461002844 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 520461002845 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 520461002846 Permease; Region: Permease; pfam02405 520461002847 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 520461002848 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 520461002849 Walker A/P-loop; other site 520461002850 ATP binding site [chemical binding]; other site 520461002851 Q-loop/lid; other site 520461002852 ABC transporter signature motif; other site 520461002853 Walker B; other site 520461002854 D-loop; other site 520461002855 H-loop/switch region; other site 520461002856 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 520461002857 mce related protein; Region: MCE; pfam02470 520461002858 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 520461002859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 520461002860 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 520461002861 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 520461002862 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 520461002863 catalytic loop [active] 520461002864 iron binding site [ion binding]; other site 520461002865 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 520461002866 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 520461002867 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 520461002868 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 520461002869 dihydropteroate synthase; Region: DHPS; TIGR01496 520461002870 substrate binding pocket [chemical binding]; other site 520461002871 dimer interface [polypeptide binding]; other site 520461002872 inhibitor binding site; inhibition site 520461002873 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 520461002874 homooctamer interface [polypeptide binding]; other site 520461002875 active site 520461002876 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 520461002877 catalytic center binding site [active] 520461002878 ATP binding site [chemical binding]; other site 520461002879 Predicted membrane protein [Function unknown]; Region: COG3768 520461002880 Domain of unknown function (DUF697); Region: DUF697; cl12064 520461002881 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 520461002882 catalytic core [active] 520461002883 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 520461002884 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 520461002885 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 520461002886 PAS domain; Region: PAS_9; pfam13426 520461002887 putative active site [active] 520461002888 heme pocket [chemical binding]; other site 520461002889 PAS domain; Region: PAS; smart00091 520461002890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461002891 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 520461002892 dimer interface [polypeptide binding]; other site 520461002893 phosphorylation site [posttranslational modification] 520461002894 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 520461002895 ATP binding site [chemical binding]; other site 520461002896 Mg2+ binding site [ion binding]; other site 520461002897 G-X-G motif; other site 520461002898 Response regulator receiver domain; Region: Response_reg; pfam00072 520461002899 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 520461002900 active site 520461002901 phosphorylation site [posttranslational modification] 520461002902 intermolecular recognition site; other site 520461002903 dimerization interface [polypeptide binding]; other site 520461002904 Predicted flavoproteins [General function prediction only]; Region: COG2081 520461002905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 520461002906 Beta-lactamase; Region: Beta-lactamase; pfam00144 520461002907 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 520461002908 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 520461002909 Mechanosensitive ion channel; Region: MS_channel; pfam00924 520461002910 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 520461002911 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 520461002912 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 520461002913 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 520461002914 active site 520461002915 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 520461002916 TSCPD domain; Region: TSCPD; pfam12637 520461002917 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 520461002918 nudix motif; other site 520461002919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461002920 active site 520461002921 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 520461002922 Ligand Binding Site [chemical binding]; other site 520461002923 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 520461002924 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 520461002925 putative MPT binding site; other site 520461002926 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 520461002927 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 520461002928 threonine dehydratase; Validated; Region: PRK08639 520461002929 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 520461002930 tetramer interface [polypeptide binding]; other site 520461002931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461002932 catalytic residue [active] 520461002933 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 520461002934 putative Ile/Val binding site [chemical binding]; other site 520461002935 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 520461002936 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 520461002937 dimer interface [polypeptide binding]; other site 520461002938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461002939 catalytic residue [active] 520461002940 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 520461002941 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 520461002942 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 520461002943 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 520461002944 active site residue [active] 520461002945 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 520461002946 active site residue [active] 520461002947 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 520461002948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461002949 Coenzyme A binding pocket [chemical binding]; other site 520461002950 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461002951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461002952 metal binding site [ion binding]; metal-binding site 520461002953 active site 520461002954 I-site; other site 520461002955 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 520461002956 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 520461002957 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 520461002958 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 520461002959 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461002960 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461002961 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 520461002962 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 520461002963 putative NAD(P) binding site [chemical binding]; other site 520461002964 putative substrate binding site [chemical binding]; other site 520461002965 catalytic Zn binding site [ion binding]; other site 520461002966 structural Zn binding site [ion binding]; other site 520461002967 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 520461002968 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 520461002969 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 520461002970 active site 520461002971 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 520461002972 Tetratricopeptide repeat; Region: TPR_1; pfam00515 520461002973 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 520461002974 S-adenosylmethionine binding site [chemical binding]; other site 520461002975 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 520461002976 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 520461002977 UDP-glucose 4-epimerase; Region: PLN02240 520461002978 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 520461002979 NAD binding site [chemical binding]; other site 520461002980 homodimer interface [polypeptide binding]; other site 520461002981 active site 520461002982 substrate binding site [chemical binding]; other site 520461002983 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 520461002984 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 520461002985 homodimer interface [polypeptide binding]; other site 520461002986 metal binding site [ion binding]; metal-binding site 520461002987 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 520461002988 homodimer interface [polypeptide binding]; other site 520461002989 active site 520461002990 putative chemical substrate binding site [chemical binding]; other site 520461002991 metal binding site [ion binding]; metal-binding site 520461002992 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 520461002993 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 520461002994 putative FMN binding site [chemical binding]; other site 520461002995 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 520461002996 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 520461002997 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 520461002998 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 520461002999 active site 520461003000 dimer interface [polypeptide binding]; other site 520461003001 motif 1; other site 520461003002 motif 2; other site 520461003003 motif 3; other site 520461003004 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 520461003005 anticodon binding site; other site 520461003006 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 520461003007 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 520461003008 Sporulation related domain; Region: SPOR; pfam05036 520461003009 hypothetical protein; Validated; Region: PRK00041 520461003010 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 520461003011 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 520461003012 trimerization site [polypeptide binding]; other site 520461003013 active site 520461003014 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 520461003015 homodecamer interface [polypeptide binding]; other site 520461003016 GTP cyclohydrolase I; Provisional; Region: PLN03044 520461003017 active site 520461003018 putative catalytic site residues [active] 520461003019 zinc binding site [ion binding]; other site 520461003020 GTP-CH-I/GFRP interaction surface; other site 520461003021 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 520461003022 hypothetical protein; Provisional; Region: PRK10279 520461003023 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 520461003024 nucleophile elbow; other site 520461003025 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 520461003026 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 520461003027 active site 520461003028 DNA binding site [nucleotide binding] 520461003029 Int/Topo IB signature motif; other site 520461003030 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 520461003031 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 520461003032 catalytic residues [active] 520461003033 catalytic nucleophile [active] 520461003034 Presynaptic Site I dimer interface [polypeptide binding]; other site 520461003035 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 520461003036 Synaptic Flat tetramer interface [polypeptide binding]; other site 520461003037 Synaptic Site I dimer interface [polypeptide binding]; other site 520461003038 DNA binding site [nucleotide binding] 520461003039 BRO family, N-terminal domain; Region: Bro-N; cl10591 520461003040 Prophage antirepressor [Transcription]; Region: COG3617 520461003041 BRO family, N-terminal domain; Region: Bro-N; smart01040 520461003042 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 520461003043 CoA-transferase family III; Region: CoA_transf_3; pfam02515 520461003044 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 520461003045 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461003046 FAD binding site [chemical binding]; other site 520461003047 substrate binding pocket [chemical binding]; other site 520461003048 catalytic base [active] 520461003049 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 520461003050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461003051 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 520461003052 dimerization interface [polypeptide binding]; other site 520461003053 substrate binding pocket [chemical binding]; other site 520461003054 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 520461003055 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 520461003056 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 520461003057 multidrug efflux protein; Reviewed; Region: PRK09579 520461003058 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461003059 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461003060 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461003061 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 520461003062 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461003063 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 520461003064 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 520461003065 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 520461003066 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 520461003067 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 520461003068 active site 520461003069 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 520461003070 active site 520461003071 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 520461003072 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 520461003073 active site 520461003074 (T/H)XGH motif; other site 520461003075 DNA gyrase subunit A; Validated; Region: PRK05560 520461003076 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 520461003077 CAP-like domain; other site 520461003078 active site 520461003079 primary dimer interface [polypeptide binding]; other site 520461003080 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 520461003081 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 520461003082 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 520461003083 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 520461003084 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 520461003085 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 520461003086 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 520461003087 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 520461003088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461003089 DNA-binding site [nucleotide binding]; DNA binding site 520461003090 UTRA domain; Region: UTRA; pfam07702 520461003091 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 520461003092 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 520461003093 dimer interface [polypeptide binding]; other site 520461003094 ssDNA binding site [nucleotide binding]; other site 520461003095 tetramer (dimer of dimers) interface [polypeptide binding]; other site 520461003096 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 520461003097 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 520461003098 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 520461003099 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 520461003100 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 520461003101 IHF dimer interface [polypeptide binding]; other site 520461003102 IHF - DNA interface [nucleotide binding]; other site 520461003103 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 520461003104 Found in ATP-dependent protease La (LON); Region: LON; smart00464 520461003105 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 520461003106 Walker A motif; other site 520461003107 ATP binding site [chemical binding]; other site 520461003108 Walker B motif; other site 520461003109 arginine finger; other site 520461003110 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 520461003111 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 520461003112 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 520461003113 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 520461003114 Walker A motif; other site 520461003115 ATP binding site [chemical binding]; other site 520461003116 Walker B motif; other site 520461003117 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 520461003118 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 520461003119 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 520461003120 oligomer interface [polypeptide binding]; other site 520461003121 active site residues [active] 520461003122 GTPases [General function prediction only]; Region: HflX; COG2262 520461003123 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 520461003124 HflX GTPase family; Region: HflX; cd01878 520461003125 G1 box; other site 520461003126 GTP/Mg2+ binding site [chemical binding]; other site 520461003127 Switch I region; other site 520461003128 G2 box; other site 520461003129 G3 box; other site 520461003130 Switch II region; other site 520461003131 G4 box; other site 520461003132 G5 box; other site 520461003133 bacterial Hfq-like; Region: Hfq; cd01716 520461003134 hexamer interface [polypeptide binding]; other site 520461003135 Sm1 motif; other site 520461003136 RNA binding site [nucleotide binding]; other site 520461003137 Sm2 motif; other site 520461003138 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 520461003139 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 520461003140 TrkA-N domain; Region: TrkA_N; pfam02254 520461003141 TrkA-C domain; Region: TrkA_C; pfam02080 520461003142 TrkA-N domain; Region: TrkA_N; pfam02254 520461003143 TrkA-C domain; Region: TrkA_C; pfam02080 520461003144 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 520461003145 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 520461003146 active site 520461003147 phosphorylation site [posttranslational modification] 520461003148 intermolecular recognition site; other site 520461003149 dimerization interface [polypeptide binding]; other site 520461003150 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 520461003151 Walker A motif; other site 520461003152 ATP binding site [chemical binding]; other site 520461003153 Walker B motif; other site 520461003154 arginine finger; other site 520461003155 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 520461003156 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 520461003157 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 520461003158 dimerization interface [polypeptide binding]; other site 520461003159 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 520461003160 dimer interface [polypeptide binding]; other site 520461003161 phosphorylation site [posttranslational modification] 520461003162 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 520461003163 ATP binding site [chemical binding]; other site 520461003164 Mg2+ binding site [ion binding]; other site 520461003165 G-X-G motif; other site 520461003166 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 520461003167 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 520461003168 active site 520461003169 phosphorylation site [posttranslational modification] 520461003170 intermolecular recognition site; other site 520461003171 dimerization interface [polypeptide binding]; other site 520461003172 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 520461003173 Walker A motif; other site 520461003174 ATP binding site [chemical binding]; other site 520461003175 Walker B motif; other site 520461003176 arginine finger; other site 520461003177 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 520461003178 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 520461003179 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 520461003180 dimer interface [polypeptide binding]; other site 520461003181 phosphorylation site [posttranslational modification] 520461003182 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 520461003183 ATP binding site [chemical binding]; other site 520461003184 Mg2+ binding site [ion binding]; other site 520461003185 G-X-G motif; other site 520461003186 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 520461003187 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 520461003188 FMN binding site [chemical binding]; other site 520461003189 active site 520461003190 catalytic residues [active] 520461003191 substrate binding site [chemical binding]; other site 520461003192 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 520461003193 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 520461003194 substrate binding site; other site 520461003195 dimer interface; other site 520461003196 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 520461003197 homotrimer interaction site [polypeptide binding]; other site 520461003198 zinc binding site [ion binding]; other site 520461003199 CDP-binding sites; other site 520461003200 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 520461003201 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 520461003202 classical (c) SDRs; Region: SDR_c; cd05233 520461003203 NAD(P) binding site [chemical binding]; other site 520461003204 active site 520461003205 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 520461003206 putative coenzyme Q binding site [chemical binding]; other site 520461003207 lipoyl synthase; Provisional; Region: PRK05481 520461003208 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 520461003209 FeS/SAM binding site; other site 520461003210 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 520461003211 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 520461003212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461003213 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 520461003214 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 520461003215 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 520461003216 E3 interaction surface; other site 520461003217 lipoyl attachment site [posttranslational modification]; other site 520461003218 e3 binding domain; Region: E3_binding; pfam02817 520461003219 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 520461003220 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 520461003221 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 520461003222 E3 interaction surface; other site 520461003223 lipoyl attachment site [posttranslational modification]; other site 520461003224 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 520461003225 alpha subunit interface [polypeptide binding]; other site 520461003226 TPP binding site [chemical binding]; other site 520461003227 heterodimer interface [polypeptide binding]; other site 520461003228 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 520461003229 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 520461003230 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 520461003231 tetramer interface [polypeptide binding]; other site 520461003232 TPP-binding site [chemical binding]; other site 520461003233 heterodimer interface [polypeptide binding]; other site 520461003234 phosphorylation loop region [posttranslational modification] 520461003235 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 520461003236 Septum formation initiator; Region: DivIC; pfam04977 520461003237 Methyltransferase domain; Region: Methyltransf_23; pfam13489 520461003238 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 520461003239 S-adenosylmethionine binding site [chemical binding]; other site 520461003240 enolase; Provisional; Region: eno; PRK00077 520461003241 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 520461003242 dimer interface [polypeptide binding]; other site 520461003243 metal binding site [ion binding]; metal-binding site 520461003244 substrate binding pocket [chemical binding]; other site 520461003245 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 520461003246 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 520461003247 CTP synthetase; Validated; Region: pyrG; PRK05380 520461003248 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 520461003249 Catalytic site [active] 520461003250 active site 520461003251 UTP binding site [chemical binding]; other site 520461003252 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 520461003253 active site 520461003254 putative oxyanion hole; other site 520461003255 catalytic triad [active] 520461003256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 520461003257 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461003258 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 520461003259 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 520461003260 triosephosphate isomerase; Provisional; Region: PRK14565 520461003261 substrate binding site [chemical binding]; other site 520461003262 dimer interface [polypeptide binding]; other site 520461003263 catalytic triad [active] 520461003264 SurA N-terminal domain; Region: SurA_N_3; cl07813 520461003265 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 520461003266 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 520461003267 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 520461003268 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 520461003269 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 520461003270 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 520461003271 active site 520461003272 ribulose/triose binding site [chemical binding]; other site 520461003273 phosphate binding site [ion binding]; other site 520461003274 substrate (anthranilate) binding pocket [chemical binding]; other site 520461003275 product (indole) binding pocket [chemical binding]; other site 520461003276 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 520461003277 trimer interface [polypeptide binding]; other site 520461003278 dimer interface [polypeptide binding]; other site 520461003279 putative active site [active] 520461003280 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 520461003281 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 520461003282 dimer interface [polypeptide binding]; other site 520461003283 putative functional site; other site 520461003284 putative MPT binding site; other site 520461003285 LexA repressor; Validated; Region: PRK00215 520461003286 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 520461003287 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 520461003288 Catalytic site [active] 520461003289 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 520461003290 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 520461003291 Competence protein; Region: Competence; pfam03772 520461003292 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 520461003293 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461003294 active site 520461003295 HIGH motif; other site 520461003296 nucleotide binding site [chemical binding]; other site 520461003297 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 520461003298 active site 520461003299 KMSKS motif; other site 520461003300 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 520461003301 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 520461003302 dimer interface [polypeptide binding]; other site 520461003303 active site 520461003304 citrylCoA binding site [chemical binding]; other site 520461003305 NADH binding [chemical binding]; other site 520461003306 cationic pore residues; other site 520461003307 oxalacetate/citrate binding site [chemical binding]; other site 520461003308 coenzyme A binding site [chemical binding]; other site 520461003309 catalytic triad [active] 520461003310 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 520461003311 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 520461003312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 520461003313 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 520461003314 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 520461003315 active site 520461003316 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 520461003317 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 520461003318 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 520461003319 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 520461003320 trimer interface [polypeptide binding]; other site 520461003321 active site 520461003322 UDP-GlcNAc binding site [chemical binding]; other site 520461003323 lipid binding site [chemical binding]; lipid-binding site 520461003324 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 520461003325 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 520461003326 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 520461003327 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 520461003328 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 520461003329 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 520461003330 Surface antigen; Region: Bac_surface_Ag; pfam01103 520461003331 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 520461003332 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 520461003333 active site 520461003334 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 520461003335 protein binding site [polypeptide binding]; other site 520461003336 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 520461003337 putative substrate binding region [chemical binding]; other site 520461003338 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 520461003339 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 520461003340 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 520461003341 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 520461003342 catalytic residue [active] 520461003343 putative FPP diphosphate binding site; other site 520461003344 putative FPP binding hydrophobic cleft; other site 520461003345 dimer interface [polypeptide binding]; other site 520461003346 putative IPP diphosphate binding site; other site 520461003347 ribosome recycling factor; Reviewed; Region: frr; PRK00083 520461003348 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 520461003349 hinge region; other site 520461003350 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 520461003351 putative nucleotide binding site [chemical binding]; other site 520461003352 uridine monophosphate binding site [chemical binding]; other site 520461003353 homohexameric interface [polypeptide binding]; other site 520461003354 elongation factor Ts; Provisional; Region: tsf; PRK09377 520461003355 UBA/TS-N domain; Region: UBA; pfam00627 520461003356 Elongation factor TS; Region: EF_TS; pfam00889 520461003357 Elongation factor TS; Region: EF_TS; pfam00889 520461003358 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 520461003359 rRNA interaction site [nucleotide binding]; other site 520461003360 S8 interaction site; other site 520461003361 putative laminin-1 binding site; other site 520461003362 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 520461003363 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 520461003364 homotrimer interaction site [polypeptide binding]; other site 520461003365 putative active site [active] 520461003366 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 520461003367 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 520461003368 putative active site [active] 520461003369 catalytic site [active] 520461003370 putative metal binding site [ion binding]; other site 520461003371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 520461003372 Protein of unknown function, DUF482; Region: DUF482; pfam04339 520461003373 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 520461003374 HIT family signature motif; other site 520461003375 catalytic residue [active] 520461003376 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 520461003377 Clp amino terminal domain; Region: Clp_N; pfam02861 520461003378 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 520461003379 Walker A motif; other site 520461003380 ATP binding site [chemical binding]; other site 520461003381 Walker B motif; other site 520461003382 arginine finger; other site 520461003383 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 520461003384 Walker A motif; other site 520461003385 ATP binding site [chemical binding]; other site 520461003386 Walker B motif; other site 520461003387 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 520461003388 Uncharacterized conserved protein [Function unknown]; Region: COG2127 520461003389 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 520461003390 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 520461003391 Sporulation related domain; Region: SPOR; pfam05036 520461003392 Uncharacterized conserved protein [Function unknown]; Region: COG5458 520461003393 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 520461003394 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 520461003395 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 520461003396 Uncharacterized conserved protein [Function unknown]; Region: COG1434 520461003397 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 520461003398 putative active site [active] 520461003399 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 520461003400 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 520461003401 DNA binding residues [nucleotide binding] 520461003402 putative dimer interface [polypeptide binding]; other site 520461003403 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 520461003404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461003405 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461003406 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461003407 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 520461003408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 520461003409 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 520461003410 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 520461003411 non-specific DNA binding site [nucleotide binding]; other site 520461003412 salt bridge; other site 520461003413 sequence-specific DNA binding site [nucleotide binding]; other site 520461003414 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 520461003415 Domain of unknown function (DUF955); Region: DUF955; pfam06114 520461003416 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 520461003417 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 520461003418 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 520461003419 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 520461003420 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 520461003421 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 520461003422 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 520461003423 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 520461003424 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 520461003425 carboxyltransferase (CT) interaction site; other site 520461003426 biotinylation site [posttranslational modification]; other site 520461003427 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 520461003428 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 520461003429 active site 520461003430 substrate binding site [chemical binding]; other site 520461003431 coenzyme B12 binding site [chemical binding]; other site 520461003432 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 520461003433 B12 binding site [chemical binding]; other site 520461003434 cobalt ligand [ion binding]; other site 520461003435 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 520461003436 DctM-like transporters; Region: DctM; pfam06808 520461003437 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 520461003438 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 520461003439 glutamate racemase; Provisional; Region: PRK00865 520461003440 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 520461003441 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 520461003442 intracellular protease, PfpI family; Region: PfpI; TIGR01382 520461003443 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 520461003444 conserved cys residue [active] 520461003445 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 520461003446 isocitrate dehydrogenase; Validated; Region: PRK08299 520461003447 alkaline phosphatase; Provisional; Region: PRK10518 520461003448 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 520461003449 dimer interface [polypeptide binding]; other site 520461003450 active site 520461003451 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 520461003452 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 520461003453 motif 1; other site 520461003454 active site 520461003455 motif 2; other site 520461003456 motif 3; other site 520461003457 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 520461003458 recombinase A; Provisional; Region: recA; PRK09354 520461003459 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 520461003460 hexamer interface [polypeptide binding]; other site 520461003461 Walker A motif; other site 520461003462 ATP binding site [chemical binding]; other site 520461003463 Walker B motif; other site 520461003464 putative outer membrane lipoprotein; Provisional; Region: PRK10510 520461003465 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 520461003466 ligand binding site [chemical binding]; other site 520461003467 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 520461003468 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461003469 catalytic residue [active] 520461003470 recombination factor protein RarA; Reviewed; Region: PRK13342 520461003471 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 520461003472 Walker A motif; other site 520461003473 ATP binding site [chemical binding]; other site 520461003474 Walker B motif; other site 520461003475 arginine finger; other site 520461003476 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 520461003477 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 520461003478 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 520461003479 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 520461003480 protein binding site [polypeptide binding]; other site 520461003481 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 520461003482 protein binding site [polypeptide binding]; other site 520461003483 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 520461003484 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 520461003485 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 520461003486 alphaNTD homodimer interface [polypeptide binding]; other site 520461003487 alphaNTD - beta interaction site [polypeptide binding]; other site 520461003488 alphaNTD - beta' interaction site [polypeptide binding]; other site 520461003489 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 520461003490 30S ribosomal protein S11; Validated; Region: PRK05309 520461003491 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 520461003492 30S ribosomal protein S13; Region: bact_S13; TIGR03631 520461003493 adenylate kinase; Reviewed; Region: adk; PRK00279 520461003494 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 520461003495 AMP-binding site [chemical binding]; other site 520461003496 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 520461003497 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 520461003498 SecY translocase; Region: SecY; pfam00344 520461003499 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 520461003500 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 520461003501 23S rRNA binding site [nucleotide binding]; other site 520461003502 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 520461003503 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 520461003504 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 520461003505 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 520461003506 5S rRNA interface [nucleotide binding]; other site 520461003507 23S rRNA interface [nucleotide binding]; other site 520461003508 L5 interface [polypeptide binding]; other site 520461003509 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 520461003510 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 520461003511 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 520461003512 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 520461003513 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 520461003514 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 520461003515 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 520461003516 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 520461003517 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 520461003518 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 520461003519 RNA binding site [nucleotide binding]; other site 520461003520 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 520461003521 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 520461003522 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 520461003523 23S rRNA interface [nucleotide binding]; other site 520461003524 putative translocon interaction site; other site 520461003525 signal recognition particle (SRP54) interaction site; other site 520461003526 L23 interface [polypeptide binding]; other site 520461003527 trigger factor interaction site; other site 520461003528 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 520461003529 23S rRNA interface [nucleotide binding]; other site 520461003530 5S rRNA interface [nucleotide binding]; other site 520461003531 putative antibiotic binding site [chemical binding]; other site 520461003532 L25 interface [polypeptide binding]; other site 520461003533 L27 interface [polypeptide binding]; other site 520461003534 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 520461003535 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 520461003536 G-X-X-G motif; other site 520461003537 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 520461003538 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 520461003539 putative translocon binding site; other site 520461003540 protein-rRNA interface [nucleotide binding]; other site 520461003541 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 520461003542 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 520461003543 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 520461003544 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 520461003545 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 520461003546 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 520461003547 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 520461003548 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 520461003549 elongation factor Tu; Reviewed; Region: PRK00049 520461003550 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 520461003551 G1 box; other site 520461003552 GEF interaction site [polypeptide binding]; other site 520461003553 GTP/Mg2+ binding site [chemical binding]; other site 520461003554 Switch I region; other site 520461003555 G2 box; other site 520461003556 G3 box; other site 520461003557 Switch II region; other site 520461003558 G4 box; other site 520461003559 G5 box; other site 520461003560 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 520461003561 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 520461003562 Antibiotic Binding Site [chemical binding]; other site 520461003563 elongation factor G; Reviewed; Region: PRK00007 520461003564 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 520461003565 G1 box; other site 520461003566 putative GEF interaction site [polypeptide binding]; other site 520461003567 GTP/Mg2+ binding site [chemical binding]; other site 520461003568 Switch I region; other site 520461003569 G2 box; other site 520461003570 G3 box; other site 520461003571 Switch II region; other site 520461003572 G4 box; other site 520461003573 G5 box; other site 520461003574 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 520461003575 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 520461003576 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 520461003577 30S ribosomal protein S7; Validated; Region: PRK05302 520461003578 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 520461003579 S17 interaction site [polypeptide binding]; other site 520461003580 S8 interaction site; other site 520461003581 16S rRNA interaction site [nucleotide binding]; other site 520461003582 streptomycin interaction site [chemical binding]; other site 520461003583 23S rRNA interaction site [nucleotide binding]; other site 520461003584 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 520461003585 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 520461003586 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 520461003587 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 520461003588 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 520461003589 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 520461003590 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 520461003591 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 520461003592 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 520461003593 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 520461003594 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 520461003595 DNA binding site [nucleotide binding] 520461003596 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 520461003597 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 520461003598 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 520461003599 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 520461003600 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 520461003601 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 520461003602 RPB11 interaction site [polypeptide binding]; other site 520461003603 RPB12 interaction site [polypeptide binding]; other site 520461003604 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 520461003605 RPB1 interaction site [polypeptide binding]; other site 520461003606 RPB11 interaction site [polypeptide binding]; other site 520461003607 RPB10 interaction site [polypeptide binding]; other site 520461003608 RPB3 interaction site [polypeptide binding]; other site 520461003609 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 520461003610 L11 interface [polypeptide binding]; other site 520461003611 putative EF-Tu interaction site [polypeptide binding]; other site 520461003612 putative EF-G interaction site [polypeptide binding]; other site 520461003613 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 520461003614 23S rRNA interface [nucleotide binding]; other site 520461003615 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 520461003616 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 520461003617 mRNA/rRNA interface [nucleotide binding]; other site 520461003618 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 520461003619 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 520461003620 23S rRNA interface [nucleotide binding]; other site 520461003621 L7/L12 interface [polypeptide binding]; other site 520461003622 putative thiostrepton binding site; other site 520461003623 L25 interface [polypeptide binding]; other site 520461003624 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 520461003625 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 520461003626 putative homodimer interface [polypeptide binding]; other site 520461003627 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 520461003628 heterodimer interface [polypeptide binding]; other site 520461003629 homodimer interface [polypeptide binding]; other site 520461003630 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 520461003631 elongation factor Tu; Reviewed; Region: PRK00049 520461003632 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 520461003633 G1 box; other site 520461003634 GEF interaction site [polypeptide binding]; other site 520461003635 GTP/Mg2+ binding site [chemical binding]; other site 520461003636 Switch I region; other site 520461003637 G2 box; other site 520461003638 G3 box; other site 520461003639 Switch II region; other site 520461003640 G4 box; other site 520461003641 G5 box; other site 520461003642 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 520461003643 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 520461003644 Antibiotic Binding Site [chemical binding]; other site 520461003645 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 520461003646 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 520461003647 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 520461003648 FOG: CBS domain [General function prediction only]; Region: COG0517 520461003649 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 520461003650 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 520461003651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 520461003652 PAS domain; Region: PAS_5; pfam07310 520461003653 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 520461003654 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 520461003655 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 520461003656 trimer interface [polypeptide binding]; other site 520461003657 putative metal binding site [ion binding]; other site 520461003658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461003659 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461003660 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461003661 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 520461003662 serine acetyltransferase; Provisional; Region: cysE; PRK11132 520461003663 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 520461003664 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 520461003665 trimer interface [polypeptide binding]; other site 520461003666 active site 520461003667 substrate binding site [chemical binding]; other site 520461003668 CoA binding site [chemical binding]; other site 520461003669 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 520461003670 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 520461003671 Uncharacterized conserved protein [Function unknown]; Region: COG1430 520461003672 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 520461003673 DNA-binding site [nucleotide binding]; DNA binding site 520461003674 RNA-binding motif; other site 520461003675 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 520461003676 DNA-binding site [nucleotide binding]; DNA binding site 520461003677 RNA-binding motif; other site 520461003678 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461003679 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 520461003680 dimer interface [polypeptide binding]; other site 520461003681 active site 520461003682 metal binding site [ion binding]; metal-binding site 520461003683 glutathione binding site [chemical binding]; other site 520461003684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 520461003685 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 520461003686 DHH family; Region: DHH; pfam01368 520461003687 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 520461003688 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 520461003689 ATP-grasp domain; Region: ATP-grasp_4; cl17255 520461003690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461003691 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461003692 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461003693 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 520461003694 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 520461003695 putative active site [active] 520461003696 homoserine dehydrogenase; Provisional; Region: PRK06349 520461003697 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 520461003698 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 520461003699 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 520461003700 aminotransferase; Validated; Region: PRK09148 520461003701 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 520461003702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461003703 homodimer interface [polypeptide binding]; other site 520461003704 catalytic residue [active] 520461003705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 520461003706 Peptidase M15; Region: Peptidase_M15_3; cl01194 520461003707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 520461003708 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 520461003709 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 520461003710 active site 520461003711 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 520461003712 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 520461003713 MPN+ (JAMM) motif; other site 520461003714 Zinc-binding site [ion binding]; other site 520461003715 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461003716 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 520461003717 active site 520461003718 SAM binding site [chemical binding]; other site 520461003719 putative homodimer interface [polypeptide binding]; other site 520461003720 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 520461003721 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 520461003722 S-adenosylmethionine binding site [chemical binding]; other site 520461003723 precorrin-3B synthase; Region: CobG; TIGR02435 520461003724 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 520461003725 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 520461003726 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 520461003727 Precorrin-8X methylmutase; Region: CbiC; pfam02570 520461003728 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 520461003729 active site 520461003730 SAM binding site [chemical binding]; other site 520461003731 homodimer interface [polypeptide binding]; other site 520461003732 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 520461003733 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 520461003734 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 520461003735 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 520461003736 active site 520461003737 SAM binding site [chemical binding]; other site 520461003738 homodimer interface [polypeptide binding]; other site 520461003739 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 520461003740 Flavin Reductases; Region: FlaRed; cl00801 520461003741 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461003742 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 520461003743 ligand binding site [chemical binding]; other site 520461003744 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 520461003745 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 520461003746 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 520461003747 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 520461003748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461003749 homodimer interface [polypeptide binding]; other site 520461003750 catalytic residue [active] 520461003751 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 520461003752 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 520461003753 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 520461003754 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 520461003755 active site 520461003756 SAM binding site [chemical binding]; other site 520461003757 homodimer interface [polypeptide binding]; other site 520461003758 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 520461003759 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 520461003760 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 520461003761 active site 520461003762 SAM binding site [chemical binding]; other site 520461003763 homodimer interface [polypeptide binding]; other site 520461003764 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 520461003765 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 520461003766 tellurium resistance terB-like protein; Region: terB_like; cd07177 520461003767 metal binding site [ion binding]; metal-binding site 520461003768 hypothetical protein; Provisional; Region: PRK10621 520461003769 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 520461003770 Predicted membrane protein [Function unknown]; Region: COG2510 520461003771 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 520461003772 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 520461003773 homodimer interface [polypeptide binding]; other site 520461003774 Walker A motif; other site 520461003775 ATP binding site [chemical binding]; other site 520461003776 hydroxycobalamin binding site [chemical binding]; other site 520461003777 Walker B motif; other site 520461003778 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 520461003779 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 520461003780 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 520461003781 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 520461003782 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 520461003783 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 520461003784 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 520461003785 homotrimer interface [polypeptide binding]; other site 520461003786 Walker A motif; other site 520461003787 GTP binding site [chemical binding]; other site 520461003788 Walker B motif; other site 520461003789 Predicted integral membrane protein [Function unknown]; Region: COG5446 520461003790 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 520461003791 cobyric acid synthase; Provisional; Region: PRK00784 520461003792 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 520461003793 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 520461003794 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 520461003795 catalytic triad [active] 520461003796 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 520461003797 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461003798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461003799 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461003800 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461003801 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 520461003802 substrate binding pocket [chemical binding]; other site 520461003803 FAD binding site [chemical binding]; other site 520461003804 catalytic base [active] 520461003805 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 520461003806 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 520461003807 Predicted small secreted protein [Function unknown]; Region: COG5510 520461003808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461003809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461003810 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 520461003811 dimerization interface [polypeptide binding]; other site 520461003812 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 520461003813 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 520461003814 conserved cys residue [active] 520461003815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461003816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461003817 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 520461003818 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461003819 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 520461003820 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 520461003821 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 520461003822 Mechanosensitive ion channel; Region: MS_channel; pfam00924 520461003823 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 520461003824 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 520461003825 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 520461003826 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 520461003827 Protein export membrane protein; Region: SecD_SecF; pfam02355 520461003828 putative cation:proton antiport protein; Provisional; Region: PRK10669 520461003829 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 520461003830 TrkA-N domain; Region: TrkA_N; pfam02254 520461003831 Predicted integral membrane protein [Function unknown]; Region: COG0392 520461003832 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 520461003833 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 520461003834 dimer interface [polypeptide binding]; other site 520461003835 conserved gate region; other site 520461003836 putative PBP binding loops; other site 520461003837 ABC-ATPase subunit interface; other site 520461003838 sulfate transport protein; Provisional; Region: cysT; CHL00187 520461003839 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 520461003840 dimer interface [polypeptide binding]; other site 520461003841 conserved gate region; other site 520461003842 putative PBP binding loops; other site 520461003843 ABC-ATPase subunit interface; other site 520461003844 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 520461003845 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 520461003846 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 520461003847 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 520461003848 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 520461003849 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 520461003850 Transporter associated domain; Region: CorC_HlyC; smart01091 520461003851 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 520461003852 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 520461003853 EF-hand domain pair; Region: EF_hand_5; pfam13499 520461003854 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 520461003855 Ca2+ binding site [ion binding]; other site 520461003856 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 520461003857 Ca2+ binding site [ion binding]; other site 520461003858 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 520461003859 short chain dehydrogenase; Provisional; Region: PRK06198 520461003860 classical (c) SDRs; Region: SDR_c; cd05233 520461003861 NAD(P) binding site [chemical binding]; other site 520461003862 active site 520461003863 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 520461003864 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461003865 Walker A/P-loop; other site 520461003866 ATP binding site [chemical binding]; other site 520461003867 Q-loop/lid; other site 520461003868 ABC transporter signature motif; other site 520461003869 Walker B; other site 520461003870 D-loop; other site 520461003871 H-loop/switch region; other site 520461003872 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 520461003873 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 520461003874 putative ligand binding site [chemical binding]; other site 520461003875 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461003876 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461003877 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461003878 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 520461003879 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 520461003880 Walker A/P-loop; other site 520461003881 ATP binding site [chemical binding]; other site 520461003882 Q-loop/lid; other site 520461003883 ABC transporter signature motif; other site 520461003884 Walker B; other site 520461003885 D-loop; other site 520461003886 H-loop/switch region; other site 520461003887 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 520461003888 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 520461003889 ABC-ATPase subunit interface; other site 520461003890 dimer interface [polypeptide binding]; other site 520461003891 putative PBP binding regions; other site 520461003892 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 520461003893 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 520461003894 intersubunit interface [polypeptide binding]; other site 520461003895 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 520461003896 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 520461003897 N-terminal plug; other site 520461003898 ligand-binding site [chemical binding]; other site 520461003899 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 520461003900 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 520461003901 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 520461003902 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 520461003903 Walker A/P-loop; other site 520461003904 ATP binding site [chemical binding]; other site 520461003905 Q-loop/lid; other site 520461003906 ABC transporter signature motif; other site 520461003907 Walker B; other site 520461003908 D-loop; other site 520461003909 H-loop/switch region; other site 520461003910 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 520461003911 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 520461003912 Walker A/P-loop; other site 520461003913 ATP binding site [chemical binding]; other site 520461003914 Q-loop/lid; other site 520461003915 ABC transporter signature motif; other site 520461003916 Walker B; other site 520461003917 D-loop; other site 520461003918 H-loop/switch region; other site 520461003919 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 520461003920 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 520461003921 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 520461003922 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461003923 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461003924 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 520461003925 alpha-gamma subunit interface [polypeptide binding]; other site 520461003926 beta-gamma subunit interface [polypeptide binding]; other site 520461003927 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 520461003928 alpha-beta subunit interface [polypeptide binding]; other site 520461003929 urease subunit alpha; Reviewed; Region: ureC; PRK13309 520461003930 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 520461003931 subunit interactions [polypeptide binding]; other site 520461003932 active site 520461003933 flap region; other site 520461003934 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 520461003935 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 520461003936 dimer interface [polypeptide binding]; other site 520461003937 catalytic residues [active] 520461003938 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 520461003939 UreF; Region: UreF; pfam01730 520461003940 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 520461003941 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 520461003942 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 520461003943 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 520461003944 cobalt transport protein CbiM; Validated; Region: PRK06265 520461003945 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 520461003946 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 520461003947 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 520461003948 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 520461003949 Walker A/P-loop; other site 520461003950 ATP binding site [chemical binding]; other site 520461003951 Q-loop/lid; other site 520461003952 ABC transporter signature motif; other site 520461003953 Walker B; other site 520461003954 D-loop; other site 520461003955 H-loop/switch region; other site 520461003956 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 520461003957 Uncharacterized conserved protein [Function unknown]; Region: COG3439 520461003958 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 520461003959 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 520461003960 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 520461003961 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 520461003962 nudix motif; other site 520461003963 BA14K-like protein; Region: BA14K; pfam07886 520461003964 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 520461003965 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 520461003966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461003967 homodimer interface [polypeptide binding]; other site 520461003968 catalytic residue [active] 520461003969 ketol-acid reductoisomerase; Provisional; Region: PRK05479 520461003970 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 520461003971 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 520461003972 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 520461003973 potassium uptake protein; Region: kup; TIGR00794 520461003974 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 520461003975 active site 520461003976 hydrophilic channel; other site 520461003977 dimerization interface [polypeptide binding]; other site 520461003978 catalytic residues [active] 520461003979 active site lid [active] 520461003980 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 520461003981 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 520461003982 AAA domain; Region: AAA_30; pfam13604 520461003983 Family description; Region: UvrD_C_2; pfam13538 520461003984 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 520461003985 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 520461003986 putative valine binding site [chemical binding]; other site 520461003987 dimer interface [polypeptide binding]; other site 520461003988 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 520461003989 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 520461003990 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 520461003991 PYR/PP interface [polypeptide binding]; other site 520461003992 dimer interface [polypeptide binding]; other site 520461003993 TPP binding site [chemical binding]; other site 520461003994 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 520461003995 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 520461003996 TPP-binding site [chemical binding]; other site 520461003997 dimer interface [polypeptide binding]; other site 520461003998 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 520461003999 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 520461004000 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 520461004001 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 520461004002 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 520461004003 motif II; other site 520461004004 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 520461004005 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 520461004006 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 520461004007 protein binding site [polypeptide binding]; other site 520461004008 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 520461004009 protein binding site [polypeptide binding]; other site 520461004010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 520461004011 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 520461004012 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 520461004013 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 520461004014 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 520461004015 HflK protein; Region: hflK; TIGR01933 520461004016 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 520461004017 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 520461004018 folate binding site [chemical binding]; other site 520461004019 NADP+ binding site [chemical binding]; other site 520461004020 thymidylate synthase; Reviewed; Region: thyA; PRK01827 520461004021 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 520461004022 dimerization interface [polypeptide binding]; other site 520461004023 active site 520461004024 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 520461004025 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 520461004026 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 520461004027 putative substrate translocation pore; other site 520461004028 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 520461004029 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461004030 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 520461004031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 520461004032 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 520461004033 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 520461004034 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 520461004035 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 520461004036 Uncharacterized conserved protein [Function unknown]; Region: COG4702 520461004037 serine/threonine protein kinase; Provisional; Region: PRK09188 520461004038 serine/threonine protein kinase; Provisional; Region: PRK12274 520461004039 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 520461004040 Part of AAA domain; Region: AAA_19; pfam13245 520461004041 Family description; Region: UvrD_C_2; pfam13538 520461004042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 520461004043 CreA protein; Region: CreA; pfam05981 520461004044 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 520461004045 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 520461004046 trimer interface [polypeptide binding]; other site 520461004047 active site 520461004048 substrate binding site [chemical binding]; other site 520461004049 CoA binding site [chemical binding]; other site 520461004050 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 520461004051 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 520461004052 Cu(I) binding site [ion binding]; other site 520461004053 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 520461004054 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 520461004055 S-adenosylmethionine binding site [chemical binding]; other site 520461004056 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 520461004057 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 520461004058 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 520461004059 active site 520461004060 Uncharacterized conserved protein [Function unknown]; Region: COG5587 520461004061 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 520461004062 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 520461004063 nucleotide binding pocket [chemical binding]; other site 520461004064 K-X-D-G motif; other site 520461004065 catalytic site [active] 520461004066 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 520461004067 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 520461004068 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 520461004069 Dimer interface [polypeptide binding]; other site 520461004070 BRCT sequence motif; other site 520461004071 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 520461004072 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 520461004073 Walker A/P-loop; other site 520461004074 ATP binding site [chemical binding]; other site 520461004075 Q-loop/lid; other site 520461004076 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 520461004077 ABC transporter signature motif; other site 520461004078 Walker B; other site 520461004079 D-loop; other site 520461004080 H-loop/switch region; other site 520461004081 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 520461004082 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 520461004083 binding surface 520461004084 TPR motif; other site 520461004085 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 520461004086 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 520461004087 cell division protein FtsZ; Validated; Region: PRK09330 520461004088 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 520461004089 nucleotide binding site [chemical binding]; other site 520461004090 SulA interaction site; other site 520461004091 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 520461004092 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 520461004093 Cell division protein FtsA; Region: FtsA; smart00842 520461004094 Cell division protein FtsA; Region: FtsA; pfam14450 520461004095 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 520461004096 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 520461004097 Cell division protein FtsQ; Region: FtsQ; pfam03799 520461004098 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 520461004099 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 520461004100 ATP-grasp domain; Region: ATP-grasp_4; cl17255 520461004101 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 520461004102 FAD binding domain; Region: FAD_binding_4; pfam01565 520461004103 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 520461004104 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 520461004105 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 520461004106 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 520461004107 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 520461004108 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 520461004109 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 520461004110 active site 520461004111 homodimer interface [polypeptide binding]; other site 520461004112 cell division protein FtsW; Region: ftsW; TIGR02614 520461004113 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 520461004114 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 520461004115 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 520461004116 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 520461004117 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 520461004118 Mg++ binding site [ion binding]; other site 520461004119 putative catalytic motif [active] 520461004120 putative substrate binding site [chemical binding]; other site 520461004121 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 520461004122 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 520461004123 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 520461004124 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 520461004125 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 520461004126 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 520461004127 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 520461004128 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 520461004129 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 520461004130 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 520461004131 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 520461004132 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 520461004133 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 520461004134 MraW methylase family; Region: Methyltransf_5; cl17771 520461004135 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 520461004136 manganese transport protein MntH; Reviewed; Region: PRK00701 520461004137 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 520461004138 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 520461004139 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 520461004140 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461004141 catalytic residue [active] 520461004142 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 520461004143 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 520461004144 amidase catalytic site [active] 520461004145 Zn binding residues [ion binding]; other site 520461004146 substrate binding site [chemical binding]; other site 520461004147 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461004148 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 520461004149 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 520461004150 putative metal binding site [ion binding]; other site 520461004151 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 520461004152 HSP70 interaction site [polypeptide binding]; other site 520461004153 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 520461004154 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 520461004155 active site 520461004156 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 520461004157 murein hydrolase B; Provisional; Region: PRK10760; cl17906 520461004158 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461004159 Predicted permeases [General function prediction only]; Region: COG0679 520461004160 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 520461004161 FAD binding site [chemical binding]; other site 520461004162 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 520461004163 dimerization interface [polypeptide binding]; other site 520461004164 putative DNA binding site [nucleotide binding]; other site 520461004165 putative Zn2+ binding site [ion binding]; other site 520461004166 Methyltransferase domain; Region: Methyltransf_23; pfam13489 520461004167 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 520461004168 S-adenosylmethionine binding site [chemical binding]; other site 520461004169 Uncharacterized conserved protein [Function unknown]; Region: COG5586 520461004170 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 520461004171 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 520461004172 putative substrate translocation pore; other site 520461004173 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 520461004174 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 520461004175 S-adenosylmethionine binding site [chemical binding]; other site 520461004176 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 520461004177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461004178 Walker A/P-loop; other site 520461004179 ATP binding site [chemical binding]; other site 520461004180 Q-loop/lid; other site 520461004181 ABC transporter signature motif; other site 520461004182 Walker B; other site 520461004183 D-loop; other site 520461004184 H-loop/switch region; other site 520461004185 ABC transporter; Region: ABC_tran_2; pfam12848 520461004186 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 520461004187 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 520461004188 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 520461004189 PGAP1-like protein; Region: PGAP1; pfam07819 520461004190 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 520461004191 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 520461004192 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 520461004193 [2Fe-2S] cluster binding site [ion binding]; other site 520461004194 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 520461004195 putative alpha subunit interface [polypeptide binding]; other site 520461004196 putative active site [active] 520461004197 putative substrate binding site [chemical binding]; other site 520461004198 Fe binding site [ion binding]; other site 520461004199 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 520461004200 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 520461004201 FAD binding pocket [chemical binding]; other site 520461004202 FAD binding motif [chemical binding]; other site 520461004203 phosphate binding motif [ion binding]; other site 520461004204 beta-alpha-beta structure motif; other site 520461004205 NAD binding pocket [chemical binding]; other site 520461004206 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 520461004207 catalytic loop [active] 520461004208 iron binding site [ion binding]; other site 520461004209 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 520461004210 PhnA protein; Region: PhnA; pfam03831 520461004211 Isochorismatase family; Region: Isochorismatase; pfam00857 520461004212 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 520461004213 catalytic triad [active] 520461004214 metal binding site [ion binding]; metal-binding site 520461004215 conserved cis-peptide bond; other site 520461004216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 520461004217 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 520461004218 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 520461004219 active site 520461004220 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 520461004221 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 520461004222 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 520461004223 active site 520461004224 catalytic residues [active] 520461004225 DNA binding site [nucleotide binding] 520461004226 Int/Topo IB signature motif; other site 520461004227 Uncharacterized conserved protein [Function unknown]; Region: COG2968 520461004228 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 520461004229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461004230 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461004231 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461004232 hypothetical protein; Provisional; Region: PRK05170 520461004233 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 520461004234 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 520461004235 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 520461004236 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 520461004237 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 520461004238 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 520461004239 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 520461004240 DNA binding residues [nucleotide binding] 520461004241 DNA primase; Validated; Region: dnaG; PRK05667 520461004242 CHC2 zinc finger; Region: zf-CHC2; pfam01807 520461004243 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 520461004244 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 520461004245 active site 520461004246 metal binding site [ion binding]; metal-binding site 520461004247 interdomain interaction site; other site 520461004248 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 520461004249 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 520461004250 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 520461004251 PhoU domain; Region: PhoU; pfam01895 520461004252 PhoU domain; Region: PhoU; pfam01895 520461004253 Uncharacterized conserved protein [Function unknown]; Region: COG1610 520461004254 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 520461004255 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 520461004256 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 520461004257 catalytic site [active] 520461004258 subunit interface [polypeptide binding]; other site 520461004259 Predicted metalloprotease [General function prediction only]; Region: COG2321 520461004260 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 520461004261 Predicted membrane protein [Function unknown]; Region: COG5395 520461004262 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 520461004263 LytTr DNA-binding domain; Region: LytTR; pfam04397 520461004264 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 520461004265 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 520461004266 ATP-grasp domain; Region: ATP-grasp_4; cl17255 520461004267 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 520461004268 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 520461004269 ATP-grasp domain; Region: ATP-grasp_4; cl17255 520461004270 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 520461004271 IMP binding site; other site 520461004272 dimer interface [polypeptide binding]; other site 520461004273 partial ornithine binding site; other site 520461004274 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 520461004275 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 520461004276 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 520461004277 NUDIX domain; Region: NUDIX; pfam00293 520461004278 nudix motif; other site 520461004279 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 520461004280 DNA-binding site [nucleotide binding]; DNA binding site 520461004281 RNA-binding motif; other site 520461004282 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 520461004283 GST_N family, unknown subfamily 4; 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_4; cd03056 520461004284 putative C-terminal domain interface [polypeptide binding]; other site 520461004285 putative GSH binding site (G-site) [chemical binding]; other site 520461004286 putative dimer interface [polypeptide binding]; other site 520461004287 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 520461004288 N-terminal domain interface [polypeptide binding]; other site 520461004289 dimer interface [polypeptide binding]; other site 520461004290 substrate binding pocket (H-site) [chemical binding]; other site 520461004291 aspartate aminotransferase; Provisional; Region: PRK05764 520461004292 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 520461004293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461004294 homodimer interface [polypeptide binding]; other site 520461004295 catalytic residue [active] 520461004296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461004297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461004298 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 520461004299 putative effector binding pocket; other site 520461004300 dimerization interface [polypeptide binding]; other site 520461004301 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 520461004302 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 520461004303 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 520461004304 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 520461004305 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461004306 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 520461004307 putative DNA binding site [nucleotide binding]; other site 520461004308 putative Zn2+ binding site [ion binding]; other site 520461004309 AsnC family; Region: AsnC_trans_reg; pfam01037 520461004310 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 520461004311 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461004312 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 520461004313 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 520461004314 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 520461004315 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 520461004316 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 520461004317 EamA-like transporter family; Region: EamA; pfam00892 520461004318 EamA-like transporter family; Region: EamA; pfam00892 520461004319 Protein of unknown function, DUF486; Region: DUF486; cl01236 520461004320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 520461004321 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 520461004322 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 520461004323 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 520461004324 Bacterial SH3 domain; Region: SH3_3; pfam08239 520461004325 excinuclease ABC subunit B; Provisional; Region: PRK05298 520461004326 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 520461004327 ATP binding site [chemical binding]; other site 520461004328 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 520461004329 nucleotide binding region [chemical binding]; other site 520461004330 ATP-binding site [chemical binding]; other site 520461004331 Ultra-violet resistance protein B; Region: UvrB; pfam12344 520461004332 UvrB/uvrC motif; Region: UVR; pfam02151 520461004333 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 520461004334 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461004335 catalytic residue [active] 520461004336 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 520461004337 DNA-binding site [nucleotide binding]; DNA binding site 520461004338 RNA-binding motif; other site 520461004339 BA14K-like protein; Region: BA14K; pfam07886 520461004340 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 520461004341 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 520461004342 MarR family; Region: MarR_2; pfam12802 520461004343 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461004344 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 520461004345 active site 520461004346 phosphorylation site [posttranslational modification] 520461004347 intermolecular recognition site; other site 520461004348 dimerization interface [polypeptide binding]; other site 520461004349 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 520461004350 DNA binding site [nucleotide binding] 520461004351 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 520461004352 dimer interface [polypeptide binding]; other site 520461004353 phosphorylation site [posttranslational modification] 520461004354 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 520461004355 ATP binding site [chemical binding]; other site 520461004356 Mg2+ binding site [ion binding]; other site 520461004357 G-X-G motif; other site 520461004358 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 520461004359 dimer interface [polypeptide binding]; other site 520461004360 putative tRNA-binding site [nucleotide binding]; other site 520461004361 Uncharacterized conserved protein [Function unknown]; Region: COG5465 520461004362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 520461004363 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 520461004364 Uncharacterized conserved protein [Function unknown]; Region: COG1565 520461004365 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 520461004366 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 520461004367 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 520461004368 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 520461004369 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 520461004370 active site 520461004371 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 520461004372 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 520461004373 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461004374 active site 520461004375 HerA helicase [Replication, recombination, and repair]; Region: COG0433 520461004376 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 520461004377 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 520461004378 5S rRNA interface [nucleotide binding]; other site 520461004379 CTC domain interface [polypeptide binding]; other site 520461004380 L16 interface [polypeptide binding]; other site 520461004381 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 520461004382 putative active site [active] 520461004383 catalytic residue [active] 520461004384 GTP-binding protein YchF; Reviewed; Region: PRK09601 520461004385 YchF GTPase; Region: YchF; cd01900 520461004386 G1 box; other site 520461004387 GTP/Mg2+ binding site [chemical binding]; other site 520461004388 Switch I region; other site 520461004389 G2 box; other site 520461004390 Switch II region; other site 520461004391 G3 box; other site 520461004392 G4 box; other site 520461004393 G5 box; other site 520461004394 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 520461004395 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 520461004396 putative active site [active] 520461004397 putative catalytic site [active] 520461004398 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 520461004399 putative active site [active] 520461004400 putative catalytic site [active] 520461004401 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461004402 active site 520461004403 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 520461004404 cytochrome b; Provisional; Region: CYTB; MTH00191 520461004405 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 520461004406 Qi binding site; other site 520461004407 intrachain domain interface; other site 520461004408 interchain domain interface [polypeptide binding]; other site 520461004409 heme bH binding site [chemical binding]; other site 520461004410 heme bL binding site [chemical binding]; other site 520461004411 Qo binding site; other site 520461004412 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 520461004413 interchain domain interface [polypeptide binding]; other site 520461004414 intrachain domain interface; other site 520461004415 Qi binding site; other site 520461004416 Qo binding site; other site 520461004417 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 520461004418 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 520461004419 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 520461004420 [2Fe-2S] cluster binding site [ion binding]; other site 520461004421 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 520461004422 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461004423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461004424 Walker A/P-loop; other site 520461004425 ATP binding site [chemical binding]; other site 520461004426 Q-loop/lid; other site 520461004427 ABC transporter signature motif; other site 520461004428 Walker B; other site 520461004429 D-loop; other site 520461004430 H-loop/switch region; other site 520461004431 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 520461004432 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461004433 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 520461004434 Walker A/P-loop; other site 520461004435 ATP binding site [chemical binding]; other site 520461004436 Q-loop/lid; other site 520461004437 ABC transporter signature motif; other site 520461004438 Walker B; other site 520461004439 D-loop; other site 520461004440 H-loop/switch region; other site 520461004441 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 520461004442 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 520461004443 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 520461004444 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 520461004445 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461004446 Coenzyme A binding pocket [chemical binding]; other site 520461004447 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 520461004448 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 520461004449 active site 520461004450 NTP binding site [chemical binding]; other site 520461004451 metal binding triad [ion binding]; metal-binding site 520461004452 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 520461004453 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 520461004454 putative active site [active] 520461004455 putative CoA binding site [chemical binding]; other site 520461004456 nudix motif; other site 520461004457 metal binding site [ion binding]; metal-binding site 520461004458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 520461004459 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 520461004460 MoxR-like ATPases [General function prediction only]; Region: COG0714 520461004461 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 520461004462 ATP binding site [chemical binding]; other site 520461004463 Walker B motif; other site 520461004464 arginine finger; other site 520461004465 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 520461004466 Protein of unknown function DUF58; Region: DUF58; pfam01882 520461004467 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 520461004468 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 520461004469 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 520461004470 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 520461004471 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 520461004472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461004473 Coenzyme A binding pocket [chemical binding]; other site 520461004474 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 520461004475 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 520461004476 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 520461004477 putative dimer interface [polypeptide binding]; other site 520461004478 N-terminal domain interface [polypeptide binding]; other site 520461004479 putative substrate binding pocket (H-site) [chemical binding]; other site 520461004480 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 520461004481 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 520461004482 nudix motif; other site 520461004483 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 520461004484 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 520461004485 active site 520461004486 metal binding site [ion binding]; metal-binding site 520461004487 2-isopropylmalate synthase; Validated; Region: PRK03739 520461004488 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 520461004489 active site 520461004490 catalytic residues [active] 520461004491 metal binding site [ion binding]; metal-binding site 520461004492 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 520461004493 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 520461004494 Cation efflux family; Region: Cation_efflux; pfam01545 520461004495 anthranilate synthase; Provisional; Region: PRK13566 520461004496 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 520461004497 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 520461004498 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 520461004499 glutamine binding [chemical binding]; other site 520461004500 catalytic triad [active] 520461004501 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 520461004502 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 520461004503 putative DNA binding site [nucleotide binding]; other site 520461004504 putative Zn2+ binding site [ion binding]; other site 520461004505 AsnC family; Region: AsnC_trans_reg; pfam01037 520461004506 Transcriptional regulators [Transcription]; Region: MarR; COG1846 520461004507 MarR family; Region: MarR_2; pfam12802 520461004508 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 520461004509 putative substrate translocation pore; other site 520461004510 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461004511 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG5459 520461004512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 520461004513 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 520461004514 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 520461004515 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 520461004516 dimer interface [polypeptide binding]; other site 520461004517 conserved gate region; other site 520461004518 putative PBP binding loops; other site 520461004519 ABC-ATPase subunit interface; other site 520461004520 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 520461004521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461004522 Walker A/P-loop; other site 520461004523 ATP binding site [chemical binding]; other site 520461004524 Q-loop/lid; other site 520461004525 ABC transporter signature motif; other site 520461004526 Walker B; other site 520461004527 D-loop; other site 520461004528 H-loop/switch region; other site 520461004529 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461004530 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 520461004531 Walker A/P-loop; other site 520461004532 ATP binding site [chemical binding]; other site 520461004533 Q-loop/lid; other site 520461004534 ABC transporter signature motif; other site 520461004535 Walker B; other site 520461004536 D-loop; other site 520461004537 H-loop/switch region; other site 520461004538 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 520461004539 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 520461004540 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461004541 Walker A/P-loop; other site 520461004542 ATP binding site [chemical binding]; other site 520461004543 Q-loop/lid; other site 520461004544 ABC transporter signature motif; other site 520461004545 Walker B; other site 520461004546 D-loop; other site 520461004547 H-loop/switch region; other site 520461004548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 520461004549 dipeptide transporter; Provisional; Region: PRK10913 520461004550 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 520461004551 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 520461004552 dimer interface [polypeptide binding]; other site 520461004553 conserved gate region; other site 520461004554 putative PBP binding loops; other site 520461004555 ABC-ATPase subunit interface; other site 520461004556 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461004557 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 520461004558 dimer interface [polypeptide binding]; other site 520461004559 conserved gate region; other site 520461004560 putative PBP binding loops; other site 520461004561 ABC-ATPase subunit interface; other site 520461004562 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461004563 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 520461004564 peptide binding site [polypeptide binding]; other site 520461004565 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 520461004566 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 520461004567 dimerization interface [polypeptide binding]; other site 520461004568 putative DNA binding site [nucleotide binding]; other site 520461004569 putative Zn2+ binding site [ion binding]; other site 520461004570 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 520461004571 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 520461004572 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 520461004573 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 520461004574 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 520461004575 Ligand Binding Site [chemical binding]; other site 520461004576 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 520461004577 Predicted acetyltransferase [General function prediction only]; Region: COG2388 520461004578 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 520461004579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 520461004580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 520461004581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461004582 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 520461004583 active site 520461004584 phosphorylation site [posttranslational modification] 520461004585 intermolecular recognition site; other site 520461004586 dimerization interface [polypeptide binding]; other site 520461004587 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 520461004588 DNA binding site [nucleotide binding] 520461004589 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 520461004590 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 520461004591 inhibitor-cofactor binding pocket; inhibition site 520461004592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461004593 catalytic residue [active] 520461004594 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461004595 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461004596 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461004597 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 520461004598 PAS domain; Region: PAS_8; pfam13188 520461004599 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 520461004600 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 520461004601 putative active site [active] 520461004602 heme pocket [chemical binding]; other site 520461004603 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 520461004604 dimer interface [polypeptide binding]; other site 520461004605 phosphorylation site [posttranslational modification] 520461004606 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 520461004607 ATP binding site [chemical binding]; other site 520461004608 Mg2+ binding site [ion binding]; other site 520461004609 G-X-G motif; other site 520461004610 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 520461004611 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 520461004612 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461004613 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 520461004614 dimer interface [polypeptide binding]; other site 520461004615 conserved gate region; other site 520461004616 putative PBP binding loops; other site 520461004617 ABC-ATPase subunit interface; other site 520461004618 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 520461004619 dimer interface [polypeptide binding]; other site 520461004620 conserved gate region; other site 520461004621 putative PBP binding loops; other site 520461004622 ABC-ATPase subunit interface; other site 520461004623 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461004624 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 520461004625 Walker A/P-loop; other site 520461004626 ATP binding site [chemical binding]; other site 520461004627 Q-loop/lid; other site 520461004628 ABC transporter signature motif; other site 520461004629 Walker B; other site 520461004630 D-loop; other site 520461004631 H-loop/switch region; other site 520461004632 TOBE domain; Region: TOBE_2; pfam08402 520461004633 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 520461004634 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461004635 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 520461004636 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 520461004637 non-specific DNA binding site [nucleotide binding]; other site 520461004638 salt bridge; other site 520461004639 sequence-specific DNA binding site [nucleotide binding]; other site 520461004640 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 520461004641 Domain of unknown function (DUF955); Region: DUF955; pfam06114 520461004642 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 520461004643 isocitrate lyase; Provisional; Region: PRK15063 520461004644 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 520461004645 tetramer interface [polypeptide binding]; other site 520461004646 active site 520461004647 Mg2+/Mn2+ binding site [ion binding]; other site 520461004648 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 520461004649 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 520461004650 NAD binding site [chemical binding]; other site 520461004651 substrate binding site [chemical binding]; other site 520461004652 homotetramer interface [polypeptide binding]; other site 520461004653 homodimer interface [polypeptide binding]; other site 520461004654 active site 520461004655 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 520461004656 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 520461004657 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461004658 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 520461004659 active site 520461004660 nucleophile elbow; other site 520461004661 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 520461004662 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 520461004663 DAK2 domain; Region: Dak2; cl03685 520461004664 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 520461004665 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 520461004666 DNA binding residues [nucleotide binding] 520461004667 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 520461004668 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 520461004669 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 520461004670 DAK2 domain; Region: Dak2; pfam02734 520461004671 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 520461004672 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 520461004673 short chain dehydrogenase; Provisional; Region: PRK06841 520461004674 classical (c) SDRs; Region: SDR_c; cd05233 520461004675 NAD(P) binding site [chemical binding]; other site 520461004676 active site 520461004677 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 520461004678 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 520461004679 putative ligand binding site [chemical binding]; other site 520461004680 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461004681 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 520461004682 TM-ABC transporter signature motif; other site 520461004683 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 520461004684 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461004685 Walker A/P-loop; other site 520461004686 ATP binding site [chemical binding]; other site 520461004687 Q-loop/lid; other site 520461004688 ABC transporter signature motif; other site 520461004689 Walker B; other site 520461004690 D-loop; other site 520461004691 H-loop/switch region; other site 520461004692 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 520461004693 Uncharacterized conserved protein [Function unknown]; Region: COG5591 520461004694 choline dehydrogenase; Validated; Region: PRK02106 520461004695 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 520461004696 succinic semialdehyde dehydrogenase; Region: PLN02278 520461004697 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 520461004698 tetramerization interface [polypeptide binding]; other site 520461004699 NAD(P) binding site [chemical binding]; other site 520461004700 catalytic residues [active] 520461004701 Predicted membrane protein [Function unknown]; Region: COG1238 520461004702 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 520461004703 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 520461004704 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 520461004705 active site 520461004706 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 520461004707 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 520461004708 helix-hairpin-helix signature motif; other site 520461004709 substrate binding pocket [chemical binding]; other site 520461004710 active site 520461004711 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 520461004712 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 520461004713 active site 520461004714 HIGH motif; other site 520461004715 nucleotide binding site [chemical binding]; other site 520461004716 active site 520461004717 KMSKS motif; other site 520461004718 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 520461004719 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461004720 Coenzyme A binding pocket [chemical binding]; other site 520461004721 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 520461004722 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 520461004723 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 520461004724 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 520461004725 DNA binding residues [nucleotide binding] 520461004726 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 520461004727 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 520461004728 RNA binding surface [nucleotide binding]; other site 520461004729 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 520461004730 active site 520461004731 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 520461004732 metal binding site 2 [ion binding]; metal-binding site 520461004733 putative DNA binding helix; other site 520461004734 metal binding site 1 [ion binding]; metal-binding site 520461004735 dimer interface [polypeptide binding]; other site 520461004736 structural Zn2+ binding site [ion binding]; other site 520461004737 PAS fold; Region: PAS_4; pfam08448 520461004738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 520461004739 HWE histidine kinase; Region: HWE_HK; pfam07536 520461004740 two-component response regulator; Provisional; Region: PRK09191 520461004741 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 520461004742 active site 520461004743 phosphorylation site [posttranslational modification] 520461004744 intermolecular recognition site; other site 520461004745 dimerization interface [polypeptide binding]; other site 520461004746 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461004747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461004748 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461004749 RNA polymerase sigma factor; Provisional; Region: PRK12516 520461004750 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 520461004751 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 520461004752 DNA binding residues [nucleotide binding] 520461004753 CHASE3 domain; Region: CHASE3; pfam05227 520461004754 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 520461004755 Histidine kinase; Region: HisKA_2; pfam07568 520461004756 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 520461004757 ATP binding site [chemical binding]; other site 520461004758 Mg2+ binding site [ion binding]; other site 520461004759 G-X-G motif; other site 520461004760 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 520461004761 PRC-barrel domain; Region: PRC; pfam05239 520461004762 PRC-barrel domain; Region: PRC; pfam05239 520461004763 tonB-system energizer ExbB; Region: exbB; TIGR02797 520461004764 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 520461004765 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 520461004766 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 520461004767 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 520461004768 Predicted periplasmic protein [Function unknown]; Region: COG3698 520461004769 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 520461004770 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 520461004771 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 520461004772 Walker A/P-loop; other site 520461004773 ATP binding site [chemical binding]; other site 520461004774 Q-loop/lid; other site 520461004775 ABC transporter signature motif; other site 520461004776 Walker B; other site 520461004777 D-loop; other site 520461004778 H-loop/switch region; other site 520461004779 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 520461004780 FtsX-like permease family; Region: FtsX; pfam02687 520461004781 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 520461004782 trimer interface [polypeptide binding]; other site 520461004783 active site 520461004784 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461004785 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 520461004786 dimerization interface [polypeptide binding]; other site 520461004787 putative DNA binding site [nucleotide binding]; other site 520461004788 putative Zn2+ binding site [ion binding]; other site 520461004789 AsnC family; Region: AsnC_trans_reg; pfam01037 520461004790 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 520461004791 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 520461004792 putative active site [active] 520461004793 putative dimer interface [polypeptide binding]; other site 520461004794 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 520461004795 diiron binding motif [ion binding]; other site 520461004796 Uncharacterized conserved protein [Function unknown]; Region: COG1633 520461004797 CCC1-related protein family; Region: CCC1_like_1; cd02437 520461004798 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 520461004799 metabolite-proton symporter; Region: 2A0106; TIGR00883 520461004800 putative substrate translocation pore; other site 520461004801 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 520461004802 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 520461004803 GDP-binding site [chemical binding]; other site 520461004804 ACT binding site; other site 520461004805 IMP binding site; other site 520461004806 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 520461004807 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461004808 Coenzyme A binding pocket [chemical binding]; other site 520461004809 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 520461004810 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 520461004811 ligand binding site [chemical binding]; other site 520461004812 NAD binding site [chemical binding]; other site 520461004813 dimerization interface [polypeptide binding]; other site 520461004814 catalytic site [active] 520461004815 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 520461004816 putative L-serine binding site [chemical binding]; other site 520461004817 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 520461004818 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461004819 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 520461004820 catalytic residue [active] 520461004821 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 520461004822 Sodium Bile acid symporter family; Region: SBF; pfam01758 520461004823 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461004824 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 520461004825 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 520461004826 active site 520461004827 substrate binding site [chemical binding]; other site 520461004828 metal binding site [ion binding]; metal-binding site 520461004829 FtsH Extracellular; Region: FtsH_ext; pfam06480 520461004830 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 520461004831 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 520461004832 Walker A motif; other site 520461004833 ATP binding site [chemical binding]; other site 520461004834 Walker B motif; other site 520461004835 arginine finger; other site 520461004836 Peptidase family M41; Region: Peptidase_M41; pfam01434 520461004837 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 520461004838 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 520461004839 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 520461004840 Tetratricopeptide repeat; Region: TPR_6; pfam13174 520461004841 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 520461004842 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 520461004843 ligand binding site [chemical binding]; other site 520461004844 translocation protein TolB; Provisional; Region: tolB; PRK05137 520461004845 TolB amino-terminal domain; Region: TolB_N; pfam04052 520461004846 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 520461004847 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 520461004848 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 520461004849 TolR protein; Region: tolR; TIGR02801 520461004850 TolQ protein; Region: tolQ; TIGR02796 520461004851 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 520461004852 active site 520461004853 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 520461004854 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 520461004855 Walker A motif; other site 520461004856 ATP binding site [chemical binding]; other site 520461004857 Walker B motif; other site 520461004858 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 520461004859 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 520461004860 RuvA N terminal domain; Region: RuvA_N; pfam01330 520461004861 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 520461004862 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 520461004863 active site 520461004864 putative DNA-binding cleft [nucleotide binding]; other site 520461004865 dimer interface [polypeptide binding]; other site 520461004866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 520461004867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 520461004868 Acyltransferase family; Region: Acyl_transf_3; pfam01757 520461004869 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 520461004870 active site 520461004871 thiamine phosphate binding site [chemical binding]; other site 520461004872 pyrophosphate binding site [ion binding]; other site 520461004873 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 520461004874 Sel1-like repeats; Region: SEL1; smart00671 520461004875 Sel1-like repeats; Region: SEL1; smart00671 520461004876 elongation factor P; Validated; Region: PRK00529 520461004877 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 520461004878 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 520461004879 RNA binding site [nucleotide binding]; other site 520461004880 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 520461004881 RNA binding site [nucleotide binding]; other site 520461004882 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 520461004883 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 520461004884 active site 520461004885 dimerization interface [polypeptide binding]; other site 520461004886 hypothetical protein; Validated; Region: PRK09039 520461004887 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 520461004888 ligand binding site [chemical binding]; other site 520461004889 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 520461004890 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461004891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461004892 Walker A/P-loop; other site 520461004893 ATP binding site [chemical binding]; other site 520461004894 Q-loop/lid; other site 520461004895 ABC transporter signature motif; other site 520461004896 Walker B; other site 520461004897 D-loop; other site 520461004898 H-loop/switch region; other site 520461004899 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 520461004900 hypothetical protein; Validated; Region: PRK00110 520461004901 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461004902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461004903 DNA-binding site [nucleotide binding]; DNA binding site 520461004904 FCD domain; Region: FCD; pfam07729 520461004905 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 520461004906 Uncharacterized conserved protein [Function unknown]; Region: COG3543 520461004907 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 520461004908 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 520461004909 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 520461004910 putative active site [active] 520461004911 metal binding site [ion binding]; metal-binding site 520461004912 homodimer binding site [polypeptide binding]; other site 520461004913 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 520461004914 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 520461004915 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 520461004916 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 520461004917 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 520461004918 TPP-binding site [chemical binding]; other site 520461004919 dimer interface [polypeptide binding]; other site 520461004920 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 520461004921 PYR/PP interface [polypeptide binding]; other site 520461004922 dimer interface [polypeptide binding]; other site 520461004923 TPP binding site [chemical binding]; other site 520461004924 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 520461004925 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 520461004926 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 520461004927 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 520461004928 Phosphoglycerate kinase; Region: PGK; pfam00162 520461004929 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 520461004930 substrate binding site [chemical binding]; other site 520461004931 hinge regions; other site 520461004932 ADP binding site [chemical binding]; other site 520461004933 catalytic site [active] 520461004934 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 520461004935 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 520461004936 acyl-activating enzyme (AAE) consensus motif; other site 520461004937 putative AMP binding site [chemical binding]; other site 520461004938 putative active site [active] 520461004939 putative CoA binding site [chemical binding]; other site 520461004940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461004941 Predicted transcriptional regulator [Transcription]; Region: COG2378 520461004942 HTH domain; Region: HTH_11; pfam08279 520461004943 WYL domain; Region: WYL; pfam13280 520461004944 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 520461004945 CoenzymeA binding site [chemical binding]; other site 520461004946 subunit interaction site [polypeptide binding]; other site 520461004947 PHB binding site; other site 520461004948 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 520461004949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 520461004950 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 520461004951 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 520461004952 NAD(P) binding site [chemical binding]; other site 520461004953 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 520461004954 putative MFS family transporter protein; Provisional; Region: PRK03633 520461004955 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 520461004956 putative substrate translocation pore; other site 520461004957 Uncharacterized small protein [Function unknown]; Region: COG5570 520461004958 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 520461004959 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 520461004960 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 520461004961 ATP-grasp domain; Region: ATP-grasp; pfam02222 520461004962 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 520461004963 TPR repeat; Region: TPR_11; pfam13414 520461004964 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 520461004965 TPR motif; other site 520461004966 binding surface 520461004967 Predicted integral membrane protein [Function unknown]; Region: COG5480 520461004968 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 520461004969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 520461004970 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 520461004971 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 520461004972 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 520461004973 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 520461004974 Thiamine pyrophosphokinase; Region: TPK; cd07995 520461004975 active site 520461004976 dimerization interface [polypeptide binding]; other site 520461004977 thiamine binding site [chemical binding]; other site 520461004978 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 520461004979 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 520461004980 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 520461004981 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 520461004982 dimer interface [polypeptide binding]; other site 520461004983 conserved gate region; other site 520461004984 putative PBP binding loops; other site 520461004985 ABC-ATPase subunit interface; other site 520461004986 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 520461004987 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 520461004988 Walker A/P-loop; other site 520461004989 ATP binding site [chemical binding]; other site 520461004990 Q-loop/lid; other site 520461004991 ABC transporter signature motif; other site 520461004992 Walker B; other site 520461004993 D-loop; other site 520461004994 H-loop/switch region; other site 520461004995 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 520461004996 Peptidase family M48; Region: Peptidase_M48; pfam01435 520461004997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 520461004998 MOSC domain; Region: MOSC; pfam03473 520461004999 3-alpha domain; Region: 3-alpha; pfam03475 520461005000 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 520461005001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 520461005002 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 520461005003 DNA binding residues [nucleotide binding] 520461005004 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 520461005005 Ferredoxin [Energy production and conversion]; Region: COG1146 520461005006 4Fe-4S binding domain; Region: Fer4; pfam00037 520461005007 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 520461005008 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 520461005009 RNA binding surface [nucleotide binding]; other site 520461005010 DEAD/DEAH box helicase; Region: DEAD; pfam00270 520461005011 ATP binding site [chemical binding]; other site 520461005012 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 520461005013 putative Mg++ binding site [ion binding]; other site 520461005014 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 520461005015 nucleotide binding region [chemical binding]; other site 520461005016 ATP-binding site [chemical binding]; other site 520461005017 putative acyltransferase; Provisional; Region: PRK05790 520461005018 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 520461005019 dimer interface [polypeptide binding]; other site 520461005020 active site 520461005021 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 520461005022 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 520461005023 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 520461005024 Transglycosylase; Region: Transgly; pfam00912 520461005025 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 520461005026 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 520461005027 substrate binding pocket [chemical binding]; other site 520461005028 chain length determination region; other site 520461005029 substrate-Mg2+ binding site; other site 520461005030 catalytic residues [active] 520461005031 aspartate-rich region 1; other site 520461005032 active site lid residues [active] 520461005033 aspartate-rich region 2; other site 520461005034 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 520461005035 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 520461005036 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 520461005037 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 520461005038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461005039 NAD(P) binding site [chemical binding]; other site 520461005040 active site 520461005041 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 520461005042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461005043 putative substrate translocation pore; other site 520461005044 pyruvate carboxylase; Reviewed; Region: PRK12999 520461005045 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 520461005046 ATP-grasp domain; Region: ATP-grasp_4; cl17255 520461005047 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 520461005048 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 520461005049 active site 520461005050 catalytic residues [active] 520461005051 metal binding site [ion binding]; metal-binding site 520461005052 homodimer binding site [polypeptide binding]; other site 520461005053 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 520461005054 carboxyltransferase (CT) interaction site; other site 520461005055 biotinylation site [posttranslational modification]; other site 520461005056 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461005057 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 520461005058 dimerization interface [polypeptide binding]; other site 520461005059 ligand binding site [chemical binding]; other site 520461005060 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461005061 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 520461005062 dimerization interface [polypeptide binding]; other site 520461005063 ligand binding site [chemical binding]; other site 520461005064 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461005065 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461005066 Walker A/P-loop; other site 520461005067 ATP binding site [chemical binding]; other site 520461005068 Q-loop/lid; other site 520461005069 ABC transporter signature motif; other site 520461005070 Walker B; other site 520461005071 D-loop; other site 520461005072 H-loop/switch region; other site 520461005073 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461005074 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461005075 Walker A/P-loop; other site 520461005076 ATP binding site [chemical binding]; other site 520461005077 Q-loop/lid; other site 520461005078 ABC transporter signature motif; other site 520461005079 Walker B; other site 520461005080 D-loop; other site 520461005081 H-loop/switch region; other site 520461005082 Uncharacterized conserved protein [Function unknown]; Region: COG3743 520461005083 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 520461005084 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 520461005085 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 520461005086 TM-ABC transporter signature motif; other site 520461005087 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461005088 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 520461005089 TM-ABC transporter signature motif; other site 520461005090 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 520461005091 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 520461005092 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 520461005093 Transcriptional regulators [Transcription]; Region: FadR; COG2186 520461005094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461005095 DNA-binding site [nucleotide binding]; DNA binding site 520461005096 FCD domain; Region: FCD; pfam07729 520461005097 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 520461005098 MarR family; Region: MarR; pfam01047 520461005099 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 520461005100 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 520461005101 gamma subunit interface [polypeptide binding]; other site 520461005102 epsilon subunit interface [polypeptide binding]; other site 520461005103 LBP interface [polypeptide binding]; other site 520461005104 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 520461005105 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 520461005106 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 520461005107 alpha subunit interaction interface [polypeptide binding]; other site 520461005108 Walker A motif; other site 520461005109 ATP binding site [chemical binding]; other site 520461005110 Walker B motif; other site 520461005111 inhibitor binding site; inhibition site 520461005112 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 520461005113 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 520461005114 core domain interface [polypeptide binding]; other site 520461005115 delta subunit interface [polypeptide binding]; other site 520461005116 epsilon subunit interface [polypeptide binding]; other site 520461005117 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 520461005118 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 520461005119 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 520461005120 beta subunit interaction interface [polypeptide binding]; other site 520461005121 Walker A motif; other site 520461005122 ATP binding site [chemical binding]; other site 520461005123 Walker B motif; other site 520461005124 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 520461005125 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 520461005126 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 520461005127 primosome assembly protein PriA; Validated; Region: PRK05580 520461005128 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 520461005129 ATP binding site [chemical binding]; other site 520461005130 putative Mg++ binding site [ion binding]; other site 520461005131 helicase superfamily c-terminal domain; Region: HELICc; smart00490 520461005132 nucleotide binding region [chemical binding]; other site 520461005133 ATP-binding site [chemical binding]; other site 520461005134 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 520461005135 active site 520461005136 intersubunit interactions; other site 520461005137 catalytic residue [active] 520461005138 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 520461005139 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 520461005140 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 520461005141 HIGH motif; other site 520461005142 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 520461005143 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461005144 active site 520461005145 KMSKS motif; other site 520461005146 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 520461005147 tRNA binding surface [nucleotide binding]; other site 520461005148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 520461005149 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 520461005150 catalytic residue [active] 520461005151 Predicted membrane protein [Function unknown]; Region: COG1289 520461005152 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 520461005153 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 520461005154 acetyl-CoA synthetase; Provisional; Region: PRK00174 520461005155 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 520461005156 active site 520461005157 CoA binding site [chemical binding]; other site 520461005158 acyl-activating enzyme (AAE) consensus motif; other site 520461005159 AMP binding site [chemical binding]; other site 520461005160 acetate binding site [chemical binding]; other site 520461005161 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 520461005162 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 520461005163 heat shock protein HtpX; Provisional; Region: PRK01345 520461005164 NusB family; Region: NusB; pfam01029 520461005165 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 520461005166 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 520461005167 S-adenosylmethionine binding site [chemical binding]; other site 520461005168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 520461005169 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 520461005170 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 520461005171 purine monophosphate binding site [chemical binding]; other site 520461005172 dimer interface [polypeptide binding]; other site 520461005173 putative catalytic residues [active] 520461005174 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 520461005175 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 520461005176 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 520461005177 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 520461005178 Predicted membrane protein [Function unknown]; Region: COG3762 520461005179 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 520461005180 Repair protein; Region: Repair_PSII; pfam04536 520461005181 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 520461005182 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 520461005183 chorismate mutase; Provisional; Region: PRK09239 520461005184 signal recognition particle protein; Provisional; Region: PRK10867 520461005185 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 520461005186 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 520461005187 P loop; other site 520461005188 GTP binding site [chemical binding]; other site 520461005189 Signal peptide binding domain; Region: SRP_SPB; pfam02978 520461005190 lytic murein transglycosylase; Region: MltB_2; TIGR02283 520461005191 murein hydrolase B; Provisional; Region: PRK10760; cl17906 520461005192 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 520461005193 active site clefts [active] 520461005194 zinc binding site [ion binding]; other site 520461005195 dimer interface [polypeptide binding]; other site 520461005196 pyridoxamine kinase; Validated; Region: PRK05756 520461005197 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 520461005198 dimer interface [polypeptide binding]; other site 520461005199 pyridoxal binding site [chemical binding]; other site 520461005200 ATP binding site [chemical binding]; other site 520461005201 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 520461005202 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 520461005203 tetrameric interface [polypeptide binding]; other site 520461005204 NAD binding site [chemical binding]; other site 520461005205 catalytic residues [active] 520461005206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461005207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461005208 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 520461005209 dimerization interface [polypeptide binding]; other site 520461005210 Predicted membrane protein [Function unknown]; Region: COG3619 520461005211 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 520461005212 putative active site [active] 520461005213 Ap4A binding site [chemical binding]; other site 520461005214 nudix motif; other site 520461005215 putative metal binding site [ion binding]; other site 520461005216 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 520461005217 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 520461005218 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 520461005219 protein binding site [polypeptide binding]; other site 520461005220 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 520461005221 Catalytic dyad [active] 520461005222 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 520461005223 Peptidase family M23; Region: Peptidase_M23; pfam01551 520461005224 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 520461005225 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 520461005226 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 520461005227 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 520461005228 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 520461005229 active site 520461005230 (T/H)XGH motif; other site 520461005231 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 520461005232 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 520461005233 putative catalytic cysteine [active] 520461005234 gamma-glutamyl kinase; Provisional; Region: PRK05429 520461005235 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 520461005236 nucleotide binding site [chemical binding]; other site 520461005237 homotetrameric interface [polypeptide binding]; other site 520461005238 putative phosphate binding site [ion binding]; other site 520461005239 putative allosteric binding site; other site 520461005240 PUA domain; Region: PUA; pfam01472 520461005241 GTPase CgtA; Reviewed; Region: obgE; PRK12299 520461005242 GTP1/OBG; Region: GTP1_OBG; pfam01018 520461005243 Obg GTPase; Region: Obg; cd01898 520461005244 G1 box; other site 520461005245 GTP/Mg2+ binding site [chemical binding]; other site 520461005246 Switch I region; other site 520461005247 G2 box; other site 520461005248 G3 box; other site 520461005249 Switch II region; other site 520461005250 G4 box; other site 520461005251 G5 box; other site 520461005252 YadA-like C-terminal region; Region: YadA; pfam03895 520461005253 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 520461005254 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 520461005255 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 520461005256 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 520461005257 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 520461005258 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 520461005259 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 520461005260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 520461005261 Integrase core domain; Region: rve; pfam00665 520461005262 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 520461005263 non-specific DNA binding site [nucleotide binding]; other site 520461005264 salt bridge; other site 520461005265 sequence-specific DNA binding site [nucleotide binding]; other site 520461005266 Cupin domain; Region: Cupin_2; cl17218 520461005267 Methyltransferase domain; Region: Methyltransf_31; pfam13847 520461005268 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 520461005269 S-adenosylmethionine binding site [chemical binding]; other site 520461005270 AzlC protein; Region: AzlC; pfam03591 520461005271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 520461005272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 520461005273 Integrase core domain; Region: rve; pfam00665 520461005274 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 520461005275 Peptidase family M23; Region: Peptidase_M23; pfam01551 520461005276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 520461005277 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461005278 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 520461005279 Clp amino terminal domain; Region: Clp_N; pfam02861 520461005280 Clp amino terminal domain; Region: Clp_N; pfam02861 520461005281 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 520461005282 Walker A motif; other site 520461005283 ATP binding site [chemical binding]; other site 520461005284 Walker B motif; other site 520461005285 arginine finger; other site 520461005286 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 520461005287 Walker A motif; other site 520461005288 ATP binding site [chemical binding]; other site 520461005289 Walker B motif; other site 520461005290 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 520461005291 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 520461005292 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 520461005293 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 520461005294 S-adenosylmethionine binding site [chemical binding]; other site 520461005295 peptide chain release factor 1; Validated; Region: prfA; PRK00591 520461005296 This domain is found in peptide chain release factors; Region: PCRF; smart00937 520461005297 RF-1 domain; Region: RF-1; pfam00472 520461005298 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 520461005299 GAF domain; Region: GAF; pfam01590 520461005300 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 520461005301 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 520461005302 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 520461005303 aspartate kinase; Reviewed; Region: PRK06635 520461005304 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 520461005305 putative nucleotide binding site [chemical binding]; other site 520461005306 putative catalytic residues [active] 520461005307 putative Mg ion binding site [ion binding]; other site 520461005308 putative aspartate binding site [chemical binding]; other site 520461005309 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 520461005310 putative allosteric regulatory site; other site 520461005311 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 520461005312 putative allosteric regulatory residue; other site 520461005313 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 520461005314 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 520461005315 S-adenosylmethionine binding site [chemical binding]; other site 520461005316 EamA-like transporter family; Region: EamA; pfam00892 520461005317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 520461005318 Predicted amidohydrolase [General function prediction only]; Region: COG0388 520461005319 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 520461005320 putative active site [active] 520461005321 catalytic triad [active] 520461005322 dimer interface [polypeptide binding]; other site 520461005323 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 520461005324 GSH binding site [chemical binding]; other site 520461005325 catalytic residues [active] 520461005326 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 520461005327 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461005328 active site 520461005329 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 520461005330 Methyltransferase domain; Region: Methyltransf_11; pfam08241 520461005331 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 520461005332 putative substrate translocation pore; other site 520461005333 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 520461005334 putative metal binding site [ion binding]; other site 520461005335 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 520461005336 HemY protein N-terminus; Region: HemY_N; pfam07219 520461005337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 520461005338 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 520461005339 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 520461005340 active site 520461005341 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 520461005342 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 520461005343 domain interfaces; other site 520461005344 active site 520461005345 UGMP family protein; Validated; Region: PRK09604 520461005346 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 520461005347 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 520461005348 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 520461005349 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 520461005350 YCII-related domain; Region: YCII; cl00999 520461005351 Uncharacterized conserved protein [Function unknown]; Region: COG2947 520461005352 Predicted methyltransferase [General function prediction only]; Region: COG3897 520461005353 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 520461005354 S-adenosylmethionine binding site [chemical binding]; other site 520461005355 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 520461005356 EamA-like transporter family; Region: EamA; pfam00892 520461005357 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 520461005358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461005359 DNA-binding site [nucleotide binding]; DNA binding site 520461005360 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 520461005361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461005362 homodimer interface [polypeptide binding]; other site 520461005363 catalytic residue [active] 520461005364 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 520461005365 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 520461005366 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 520461005367 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 520461005368 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 520461005369 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 520461005370 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 520461005371 active site 520461005372 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 520461005373 catalytic triad [active] 520461005374 dimer interface [polypeptide binding]; other site 520461005375 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 520461005376 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 520461005377 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 520461005378 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 520461005379 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 520461005380 L-aspartate oxidase; Provisional; Region: PRK06175 520461005381 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 520461005382 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 520461005383 putative SdhC subunit interface [polypeptide binding]; other site 520461005384 putative proximal heme binding site [chemical binding]; other site 520461005385 putative Iron-sulfur protein interface [polypeptide binding]; other site 520461005386 putative proximal quinone binding site; other site 520461005387 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 520461005388 Iron-sulfur protein interface; other site 520461005389 proximal quinone binding site [chemical binding]; other site 520461005390 SdhD (CybS) interface [polypeptide binding]; other site 520461005391 proximal heme binding site [chemical binding]; other site 520461005392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461005393 Coenzyme A binding pocket [chemical binding]; other site 520461005394 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 520461005395 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 520461005396 substrate binding site [chemical binding]; other site 520461005397 ligand binding site [chemical binding]; other site 520461005398 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 520461005399 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 520461005400 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 520461005401 Na binding site [ion binding]; other site 520461005402 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 520461005403 NIPSNAP; Region: NIPSNAP; pfam07978 520461005404 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 520461005405 dimerization interface [polypeptide binding]; other site 520461005406 putative DNA binding site [nucleotide binding]; other site 520461005407 putative Zn2+ binding site [ion binding]; other site 520461005408 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 520461005409 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 520461005410 RimM N-terminal domain; Region: RimM; pfam01782 520461005411 PRC-barrel domain; Region: PRC; pfam05239 520461005412 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 520461005413 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 520461005414 active site 520461005415 DNA binding site [nucleotide binding] 520461005416 Int/Topo IB signature motif; other site 520461005417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 520461005418 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 520461005419 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 520461005420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461005421 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 520461005422 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 520461005423 Predicted membrane protein [Function unknown]; Region: COG3686 520461005424 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 520461005425 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 520461005426 E3 interaction surface; other site 520461005427 lipoyl attachment site [posttranslational modification]; other site 520461005428 e3 binding domain; Region: E3_binding; pfam02817 520461005429 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 520461005430 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 520461005431 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 520461005432 TPP-binding site [chemical binding]; other site 520461005433 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 520461005434 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 520461005435 CoA binding domain; Region: CoA_binding; smart00881 520461005436 CoA-ligase; Region: Ligase_CoA; pfam00549 520461005437 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 520461005438 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 520461005439 CoA-ligase; Region: Ligase_CoA; pfam00549 520461005440 malate dehydrogenase; Reviewed; Region: PRK06223 520461005441 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 520461005442 NAD(P) binding site [chemical binding]; other site 520461005443 dimer interface [polypeptide binding]; other site 520461005444 tetramer (dimer of dimers) interface [polypeptide binding]; other site 520461005445 substrate binding site [chemical binding]; other site 520461005446 Predicted ATPase [General function prediction only]; Region: COG1485 520461005447 Protease inhibitor Inh; Region: Inh; pfam02974 520461005448 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 520461005449 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 520461005450 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 520461005451 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 520461005452 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 520461005453 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 520461005454 FeS/SAM binding site; other site 520461005455 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 520461005456 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 520461005457 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 520461005458 intracellular septation protein A; Reviewed; Region: PRK00259 520461005459 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 520461005460 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 520461005461 active site 520461005462 8-oxo-dGMP binding site [chemical binding]; other site 520461005463 nudix motif; other site 520461005464 metal binding site [ion binding]; metal-binding site 520461005465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461005466 Coenzyme A binding pocket [chemical binding]; other site 520461005467 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 520461005468 heterotetramer interface [polypeptide binding]; other site 520461005469 active site pocket [active] 520461005470 cleavage site 520461005471 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 520461005472 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 520461005473 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 520461005474 DEAD/DEAH box helicase; Region: DEAD; pfam00270 520461005475 ATP binding site [chemical binding]; other site 520461005476 putative Mg++ binding site [ion binding]; other site 520461005477 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 520461005478 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 520461005479 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 520461005480 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 520461005481 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 520461005482 Sulfatase; Region: Sulfatase; pfam00884 520461005483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461005484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461005485 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 520461005486 dimerization interface [polypeptide binding]; other site 520461005487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 520461005488 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 520461005489 substrate binding pocket [chemical binding]; other site 520461005490 membrane-bound complex binding site; other site 520461005491 hinge residues; other site 520461005492 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 520461005493 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 520461005494 dimer interface [polypeptide binding]; other site 520461005495 conserved gate region; other site 520461005496 putative PBP binding loops; other site 520461005497 ABC-ATPase subunit interface; other site 520461005498 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 520461005499 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 520461005500 dimer interface [polypeptide binding]; other site 520461005501 conserved gate region; other site 520461005502 putative PBP binding loops; other site 520461005503 ABC-ATPase subunit interface; other site 520461005504 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 520461005505 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 520461005506 Walker A/P-loop; other site 520461005507 ATP binding site [chemical binding]; other site 520461005508 Q-loop/lid; other site 520461005509 ABC transporter signature motif; other site 520461005510 Walker B; other site 520461005511 D-loop; other site 520461005512 H-loop/switch region; other site 520461005513 agmatinase; Region: agmatinase; TIGR01230 520461005514 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 520461005515 oligomer interface [polypeptide binding]; other site 520461005516 active site 520461005517 Mn binding site [ion binding]; other site 520461005518 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 520461005519 Aspartase; Region: Aspartase; cd01357 520461005520 active sites [active] 520461005521 tetramer interface [polypeptide binding]; other site 520461005522 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 520461005523 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 520461005524 Walker A/P-loop; other site 520461005525 ATP binding site [chemical binding]; other site 520461005526 Q-loop/lid; other site 520461005527 ABC transporter signature motif; other site 520461005528 Walker B; other site 520461005529 D-loop; other site 520461005530 H-loop/switch region; other site 520461005531 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 520461005532 active site 520461005533 homotetramer interface [polypeptide binding]; other site 520461005534 homodimer interface [polypeptide binding]; other site 520461005535 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461005536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461005537 DNA-binding site [nucleotide binding]; DNA binding site 520461005538 FCD domain; Region: FCD; pfam07729 520461005539 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 520461005540 active site 520461005541 homotetramer interface [polypeptide binding]; other site 520461005542 homodimer interface [polypeptide binding]; other site 520461005543 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 520461005544 D-galactonate transporter; Region: 2A0114; TIGR00893 520461005545 putative substrate translocation pore; other site 520461005546 methionine gamma-lyase; Validated; Region: PRK07049 520461005547 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 520461005548 homodimer interface [polypeptide binding]; other site 520461005549 substrate-cofactor binding pocket; other site 520461005550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461005551 catalytic residue [active] 520461005552 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 520461005553 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 520461005554 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 520461005555 dimer interface [polypeptide binding]; other site 520461005556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461005557 catalytic residue [active] 520461005558 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 520461005559 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 520461005560 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 520461005561 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 520461005562 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 520461005563 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 520461005564 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 520461005565 Ligand binding site [chemical binding]; other site 520461005566 Electron transfer flavoprotein domain; Region: ETF; pfam01012 520461005567 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 520461005568 Ligand Binding Site [chemical binding]; other site 520461005569 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 520461005570 active site 520461005571 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 520461005572 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 520461005573 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 520461005574 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 520461005575 short chain dehydrogenase; Provisional; Region: PRK05993 520461005576 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 520461005577 NADP binding site [chemical binding]; other site 520461005578 active site 520461005579 steroid binding site; other site 520461005580 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 520461005581 hypothetical protein; Validated; Region: PRK00124 520461005582 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 520461005583 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 520461005584 catalytic residues [active] 520461005585 argininosuccinate lyase; Provisional; Region: PRK00855 520461005586 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 520461005587 active sites [active] 520461005588 tetramer interface [polypeptide binding]; other site 520461005589 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 520461005590 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 520461005591 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 520461005592 active site 520461005593 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 520461005594 substrate binding site [chemical binding]; other site 520461005595 catalytic residues [active] 520461005596 dimer interface [polypeptide binding]; other site 520461005597 TIGR02302 family protein; Region: aProt_lowcomp 520461005598 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461005599 active site 520461005600 Methyltransferase domain; Region: Methyltransf_23; pfam13489 520461005601 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 520461005602 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 520461005603 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 520461005604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461005605 homodimer interface [polypeptide binding]; other site 520461005606 catalytic residue [active] 520461005607 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 520461005608 prephenate dehydrogenase; Validated; Region: PRK08507 520461005609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 520461005610 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 520461005611 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 520461005612 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 520461005613 putative active site pocket [active] 520461005614 dimerization interface [polypeptide binding]; other site 520461005615 putative catalytic residue [active] 520461005616 YGGT family; Region: YGGT; pfam02325 520461005617 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 520461005618 dimer interface [polypeptide binding]; other site 520461005619 substrate binding site [chemical binding]; other site 520461005620 metal binding sites [ion binding]; metal-binding site 520461005621 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 520461005622 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 520461005623 putative acyl-acceptor binding pocket; other site 520461005624 Uncharacterized conserved protein [Function unknown]; Region: COG1434 520461005625 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 520461005626 putative active site [active] 520461005627 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 520461005628 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 520461005629 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 520461005630 Walker A/P-loop; other site 520461005631 ATP binding site [chemical binding]; other site 520461005632 Q-loop/lid; other site 520461005633 ABC transporter signature motif; other site 520461005634 Walker B; other site 520461005635 D-loop; other site 520461005636 H-loop/switch region; other site 520461005637 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 520461005638 amphipathic channel; other site 520461005639 Asn-Pro-Ala signature motifs; other site 520461005640 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 520461005641 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 520461005642 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 520461005643 putative catalytic site [active] 520461005644 putative phosphate binding site [ion binding]; other site 520461005645 active site 520461005646 metal binding site A [ion binding]; metal-binding site 520461005647 DNA binding site [nucleotide binding] 520461005648 putative AP binding site [nucleotide binding]; other site 520461005649 putative metal binding site B [ion binding]; other site 520461005650 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 520461005651 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 520461005652 ligand binding site [chemical binding]; other site 520461005653 flexible hinge region; other site 520461005654 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461005655 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 520461005656 active site 520461005657 phosphorylation site [posttranslational modification] 520461005658 intermolecular recognition site; other site 520461005659 dimerization interface [polypeptide binding]; other site 520461005660 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 520461005661 DNA binding site [nucleotide binding] 520461005662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 520461005663 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 520461005664 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 520461005665 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 520461005666 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 520461005667 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 520461005668 DNA binding residues [nucleotide binding] 520461005669 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 520461005670 dimer interface [polypeptide binding]; other site 520461005671 putative metal binding site [ion binding]; other site 520461005672 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 520461005673 metal-binding site [ion binding] 520461005674 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 520461005675 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 520461005676 metal-binding site [ion binding] 520461005677 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 520461005678 Soluble P-type ATPase [General function prediction only]; Region: COG4087 520461005679 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 520461005680 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 520461005681 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 520461005682 metal ion-dependent adhesion site (MIDAS); other site 520461005683 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 520461005684 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 520461005685 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 520461005686 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 520461005687 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 520461005688 HSP70 interaction site [polypeptide binding]; other site 520461005689 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 520461005690 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 520461005691 Domain of unknown function DUF21; Region: DUF21; pfam01595 520461005692 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 520461005693 Transporter associated domain; Region: CorC_HlyC; smart01091 520461005694 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 520461005695 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 520461005696 active site 520461005697 dimer interface [polypeptide binding]; other site 520461005698 metal binding site [ion binding]; metal-binding site 520461005699 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 520461005700 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 520461005701 ADP binding site [chemical binding]; other site 520461005702 magnesium binding site [ion binding]; other site 520461005703 putative shikimate binding site; other site 520461005704 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 520461005705 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 520461005706 active site 520461005707 DNA binding site [nucleotide binding] 520461005708 Int/Topo IB signature motif; other site 520461005709 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 520461005710 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 520461005711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 520461005712 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 520461005713 CPxP motif; other site 520461005714 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 520461005715 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 520461005716 metal binding site [ion binding]; metal-binding site 520461005717 putative dimer interface [polypeptide binding]; other site 520461005718 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 520461005719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461005720 NAD(P) binding site [chemical binding]; other site 520461005721 active site 520461005722 Uncharacterized conserved protein [Function unknown]; Region: COG3791 520461005723 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 520461005724 choline dehydrogenase; Validated; Region: PRK02106 520461005725 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 520461005726 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 520461005727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461005728 NAD(P) binding site [chemical binding]; other site 520461005729 active site 520461005730 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 520461005731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 520461005732 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 520461005733 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461005734 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 520461005735 NAD(P) binding site [chemical binding]; other site 520461005736 catalytic residues [active] 520461005737 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 520461005738 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 520461005739 substrate binding site [chemical binding]; other site 520461005740 oxyanion hole (OAH) forming residues; other site 520461005741 trimer interface [polypeptide binding]; other site 520461005742 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 520461005743 Coenzyme A transferase; Region: CoA_trans; smart00882 520461005744 Coenzyme A transferase; Region: CoA_trans; cl17247 520461005745 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461005746 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461005747 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461005748 Transcriptional regulators [Transcription]; Region: PurR; COG1609 520461005749 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 520461005750 DNA binding site [nucleotide binding] 520461005751 domain linker motif; other site 520461005752 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 520461005753 putative dimerization interface [polypeptide binding]; other site 520461005754 putative ligand binding site [chemical binding]; other site 520461005755 Protein of unknown function (DUF993); Region: DUF993; pfam06187 520461005756 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 520461005757 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 520461005758 zinc binding site [ion binding]; other site 520461005759 putative ligand binding site [chemical binding]; other site 520461005760 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461005761 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 520461005762 TM-ABC transporter signature motif; other site 520461005763 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 520461005764 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 520461005765 Walker A/P-loop; other site 520461005766 ATP binding site [chemical binding]; other site 520461005767 Q-loop/lid; other site 520461005768 ABC transporter signature motif; other site 520461005769 Walker B; other site 520461005770 D-loop; other site 520461005771 H-loop/switch region; other site 520461005772 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 520461005773 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 520461005774 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 520461005775 ParB-like nuclease domain; Region: ParB; smart00470 520461005776 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 520461005777 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 520461005778 P-loop; other site 520461005779 Magnesium ion binding site [ion binding]; other site 520461005780 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 520461005781 Magnesium ion binding site [ion binding]; other site 520461005782 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 520461005783 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 520461005784 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 520461005785 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 520461005786 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 520461005787 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 520461005788 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 520461005789 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 520461005790 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 520461005791 trmE is a tRNA modification GTPase; Region: trmE; cd04164 520461005792 G1 box; other site 520461005793 G1 box; other site 520461005794 GTP/Mg2+ binding site [chemical binding]; other site 520461005795 GTP/Mg2+ binding site [chemical binding]; other site 520461005796 Switch I region; other site 520461005797 Switch I region; other site 520461005798 G2 box; other site 520461005799 G2 box; other site 520461005800 Switch II region; other site 520461005801 G3 box; other site 520461005802 G4 box; other site 520461005803 G5 box; other site 520461005804 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 520461005805 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 520461005806 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 520461005807 catalytic residues [active] 520461005808 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 520461005809 transcription termination factor Rho; Provisional; Region: rho; PRK09376 520461005810 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 520461005811 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 520461005812 RNA binding site [nucleotide binding]; other site 520461005813 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 520461005814 multimer interface [polypeptide binding]; other site 520461005815 Walker A motif; other site 520461005816 ATP binding site [chemical binding]; other site 520461005817 Walker B motif; other site 520461005818 Predicted membrane protein [Function unknown]; Region: COG1981 520461005819 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 520461005820 substrate binding site [chemical binding]; other site 520461005821 active site 520461005822 PEP synthetase regulatory protein; Provisional; Region: PRK05339 520461005823 Maf-like protein; Reviewed; Region: PRK00078 520461005824 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 520461005825 active site 520461005826 dimer interface [polypeptide binding]; other site 520461005827 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 520461005828 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 520461005829 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 520461005830 shikimate binding site; other site 520461005831 NAD(P) binding site [chemical binding]; other site 520461005832 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 520461005833 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 520461005834 CoA-binding site [chemical binding]; other site 520461005835 ATP-binding [chemical binding]; other site 520461005836 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 520461005837 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 520461005838 active site 520461005839 catalytic site [active] 520461005840 substrate binding site [chemical binding]; other site 520461005841 preprotein translocase subunit SecB; Validated; Region: PRK05751 520461005842 SecA binding site; other site 520461005843 Preprotein binding site; other site 520461005844 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 520461005845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 520461005846 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 520461005847 MltA specific insert domain; Region: MltA; pfam03562 520461005848 3D domain; Region: 3D; pfam06725 520461005849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 520461005850 Smr domain; Region: Smr; pfam01713 520461005851 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 520461005852 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 520461005853 sequence-specific DNA binding site [nucleotide binding]; other site 520461005854 salt bridge; other site 520461005855 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 520461005856 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 520461005857 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 520461005858 Walker A motif; other site 520461005859 ATP binding site [chemical binding]; other site 520461005860 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 520461005861 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 520461005862 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 520461005863 active site 520461005864 HslU subunit interaction site [polypeptide binding]; other site 520461005865 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 520461005866 putative active site pocket [active] 520461005867 4-fold oligomerization interface [polypeptide binding]; other site 520461005868 metal binding residues [ion binding]; metal-binding site 520461005869 3-fold/trimer interface [polypeptide binding]; other site 520461005870 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 520461005871 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 520461005872 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 520461005873 putative active site [active] 520461005874 oxyanion strand; other site 520461005875 catalytic triad [active] 520461005876 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 520461005877 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 520461005878 catalytic residues [active] 520461005879 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 520461005880 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 520461005881 substrate binding site [chemical binding]; other site 520461005882 glutamase interaction surface [polypeptide binding]; other site 520461005883 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 520461005884 metal binding site [ion binding]; metal-binding site 520461005885 pantothenate kinase; Provisional; Region: PRK05439 520461005886 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 520461005887 ATP-binding site [chemical binding]; other site 520461005888 CoA-binding site [chemical binding]; other site 520461005889 Mg2+-binding site [ion binding]; other site 520461005890 hypothetical protein; Provisional; Region: PRK09256 520461005891 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 520461005892 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 520461005893 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 520461005894 active site 520461005895 substrate-binding site [chemical binding]; other site 520461005896 metal-binding site [ion binding] 520461005897 ATP binding site [chemical binding]; other site 520461005898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461005899 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 520461005900 active site 520461005901 phosphorylation site [posttranslational modification] 520461005902 intermolecular recognition site; other site 520461005903 dimerization interface [polypeptide binding]; other site 520461005904 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 520461005905 DNA binding site [nucleotide binding] 520461005906 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 520461005907 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 520461005908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461005909 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 520461005910 dimerization interface [polypeptide binding]; other site 520461005911 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 520461005912 dimer interface [polypeptide binding]; other site 520461005913 phosphorylation site [posttranslational modification] 520461005914 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 520461005915 ATP binding site [chemical binding]; other site 520461005916 Mg2+ binding site [ion binding]; other site 520461005917 G-X-G motif; other site 520461005918 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 520461005919 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 520461005920 Hpr binding site; other site 520461005921 active site 520461005922 homohexamer subunit interaction site [polypeptide binding]; other site 520461005923 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 520461005924 active pocket/dimerization site; other site 520461005925 active site 520461005926 phosphorylation site [posttranslational modification] 520461005927 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 520461005928 dimerization domain swap beta strand [polypeptide binding]; other site 520461005929 regulatory protein interface [polypeptide binding]; other site 520461005930 active site 520461005931 regulatory phosphorylation site [posttranslational modification]; other site 520461005932 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 520461005933 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 520461005934 homotetramer interface [polypeptide binding]; other site 520461005935 ligand binding site [chemical binding]; other site 520461005936 catalytic site [active] 520461005937 NAD binding site [chemical binding]; other site 520461005938 PAS fold; Region: PAS_7; pfam12860 520461005939 PAS fold; Region: PAS_7; pfam12860 520461005940 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461005941 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 520461005942 dimer interface [polypeptide binding]; other site 520461005943 phosphorylation site [posttranslational modification] 520461005944 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 520461005945 ATP binding site [chemical binding]; other site 520461005946 Mg2+ binding site [ion binding]; other site 520461005947 G-X-G motif; other site 520461005948 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 520461005949 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 520461005950 Phosphotransferase enzyme family; Region: APH; pfam01636 520461005951 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 520461005952 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 520461005953 Substrate binding site; other site 520461005954 metal-binding site 520461005955 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 520461005956 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 520461005957 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 520461005958 Part of AAA domain; Region: AAA_19; pfam13245 520461005959 Family description; Region: UvrD_C_2; pfam13538 520461005960 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 520461005961 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 520461005962 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 520461005963 catalytic residues [active] 520461005964 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 520461005965 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 520461005966 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 520461005967 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 520461005968 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 520461005969 substrate binding site [chemical binding]; other site 520461005970 active site 520461005971 catalytic residues [active] 520461005972 heterodimer interface [polypeptide binding]; other site 520461005973 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 520461005974 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 520461005975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461005976 catalytic residue [active] 520461005977 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 520461005978 active site 520461005979 Uncharacterized conserved protein [Function unknown]; Region: COG1434 520461005980 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 520461005981 putative active site [active] 520461005982 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 520461005983 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 520461005984 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 520461005985 benzoate transporter; Region: benE; TIGR00843 520461005986 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 520461005987 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 520461005988 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 520461005989 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 520461005990 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 520461005991 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 520461005992 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 520461005993 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 520461005994 23S rRNA binding site [nucleotide binding]; other site 520461005995 L21 binding site [polypeptide binding]; other site 520461005996 L13 binding site [polypeptide binding]; other site 520461005997 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 520461005998 active site 520461005999 ATP binding site [chemical binding]; other site 520461006000 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 520461006001 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 520461006002 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 520461006003 dimer interface [polypeptide binding]; other site 520461006004 motif 1; other site 520461006005 active site 520461006006 motif 2; other site 520461006007 motif 3; other site 520461006008 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 520461006009 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 520461006010 putative tRNA-binding site [nucleotide binding]; other site 520461006011 B3/4 domain; Region: B3_4; pfam03483 520461006012 tRNA synthetase B5 domain; Region: B5; smart00874 520461006013 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 520461006014 dimer interface [polypeptide binding]; other site 520461006015 motif 1; other site 520461006016 motif 3; other site 520461006017 motif 2; other site 520461006018 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 520461006019 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461006020 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461006021 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461006022 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 520461006023 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 520461006024 nucleotide binding site [chemical binding]; other site 520461006025 NEF interaction site [polypeptide binding]; other site 520461006026 SBD interface [polypeptide binding]; other site 520461006027 chaperone protein DnaJ; Provisional; Region: PRK10767 520461006028 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 520461006029 HSP70 interaction site [polypeptide binding]; other site 520461006030 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 520461006031 substrate binding site [polypeptide binding]; other site 520461006032 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 520461006033 Zn binding sites [ion binding]; other site 520461006034 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 520461006035 dimer interface [polypeptide binding]; other site 520461006036 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 520461006037 S-adenosylmethionine binding site [chemical binding]; other site 520461006038 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 520461006039 active site 520461006040 dimer interface [polypeptide binding]; other site 520461006041 Uncharacterized conserved protein [Function unknown]; Region: COG5470 520461006042 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 520461006043 glutathione synthetase; Provisional; Region: PRK05246 520461006044 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 520461006045 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 520461006046 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 520461006047 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 520461006048 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 520461006049 Walker A motif; other site 520461006050 ATP binding site [chemical binding]; other site 520461006051 Walker B motif; other site 520461006052 arginine finger; other site 520461006053 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 520461006054 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 520461006055 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 520461006056 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 520461006057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 520461006058 PBP superfamily domain; Region: PBP_like_2; pfam12849 520461006059 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 520461006060 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 520461006061 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 520461006062 dimer interface [polypeptide binding]; other site 520461006063 conserved gate region; other site 520461006064 putative PBP binding loops; other site 520461006065 ABC-ATPase subunit interface; other site 520461006066 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 520461006067 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 520461006068 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 520461006069 dimer interface [polypeptide binding]; other site 520461006070 conserved gate region; other site 520461006071 putative PBP binding loops; other site 520461006072 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 520461006073 ABC-ATPase subunit interface; other site 520461006074 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 520461006075 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 520461006076 Walker A/P-loop; other site 520461006077 ATP binding site [chemical binding]; other site 520461006078 Q-loop/lid; other site 520461006079 ABC transporter signature motif; other site 520461006080 Walker B; other site 520461006081 D-loop; other site 520461006082 H-loop/switch region; other site 520461006083 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 520461006084 PhoU domain; Region: PhoU; pfam01895 520461006085 PhoU domain; Region: PhoU; pfam01895 520461006086 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 520461006087 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 520461006088 active site 520461006089 phosphorylation site [posttranslational modification] 520461006090 intermolecular recognition site; other site 520461006091 dimerization interface [polypeptide binding]; other site 520461006092 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 520461006093 DNA binding site [nucleotide binding] 520461006094 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 520461006095 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 520461006096 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 520461006097 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 520461006098 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 520461006099 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 520461006100 dimerization interface [polypeptide binding]; other site 520461006101 DPS ferroxidase diiron center [ion binding]; other site 520461006102 ion pore; other site 520461006103 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 520461006104 Glycoprotease family; Region: Peptidase_M22; pfam00814 520461006105 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 520461006106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 520461006107 Coenzyme A binding pocket [chemical binding]; other site 520461006108 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 520461006109 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 520461006110 putative acyl-acceptor binding pocket; other site 520461006111 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 520461006112 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 520461006113 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 520461006114 FeS/SAM binding site; other site 520461006115 TRAM domain; Region: TRAM; cl01282 520461006116 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 520461006117 PhoH-like protein; Region: PhoH; pfam02562 520461006118 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 520461006119 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 520461006120 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 520461006121 Transporter associated domain; Region: CorC_HlyC; smart01091 520461006122 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 520461006123 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 520461006124 putative active site [active] 520461006125 catalytic triad [active] 520461006126 putative dimer interface [polypeptide binding]; other site 520461006127 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 520461006128 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 520461006129 non-specific DNA binding site [nucleotide binding]; other site 520461006130 salt bridge; other site 520461006131 sequence-specific DNA binding site [nucleotide binding]; other site 520461006132 S-adenosylmethionine synthetase; Validated; Region: PRK05250 520461006133 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 520461006134 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 520461006135 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 520461006136 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 520461006137 ribosome maturation protein RimP; Reviewed; Region: PRK00092 520461006138 Sm and related proteins; Region: Sm_like; cl00259 520461006139 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 520461006140 putative oligomer interface [polypeptide binding]; other site 520461006141 putative RNA binding site [nucleotide binding]; other site 520461006142 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 520461006143 NusA N-terminal domain; Region: NusA_N; pfam08529 520461006144 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 520461006145 RNA binding site [nucleotide binding]; other site 520461006146 homodimer interface [polypeptide binding]; other site 520461006147 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 520461006148 G-X-X-G motif; other site 520461006149 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 520461006150 G-X-X-G motif; other site 520461006151 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 520461006152 hypothetical protein; Provisional; Region: PRK09190 520461006153 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 520461006154 putative RNA binding cleft [nucleotide binding]; other site 520461006155 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 520461006156 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 520461006157 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 520461006158 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 520461006159 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 520461006160 G1 box; other site 520461006161 putative GEF interaction site [polypeptide binding]; other site 520461006162 GTP/Mg2+ binding site [chemical binding]; other site 520461006163 Switch I region; other site 520461006164 G2 box; other site 520461006165 G3 box; other site 520461006166 Switch II region; other site 520461006167 G4 box; other site 520461006168 G5 box; other site 520461006169 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 520461006170 Translation-initiation factor 2; Region: IF-2; pfam11987 520461006171 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 520461006172 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 520461006173 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 520461006174 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 520461006175 RNA binding site [nucleotide binding]; other site 520461006176 active site 520461006177 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 520461006178 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 520461006179 16S/18S rRNA binding site [nucleotide binding]; other site 520461006180 S13e-L30e interaction site [polypeptide binding]; other site 520461006181 25S rRNA binding site [nucleotide binding]; other site 520461006182 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 520461006183 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 520461006184 RNase E interface [polypeptide binding]; other site 520461006185 trimer interface [polypeptide binding]; other site 520461006186 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 520461006187 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 520461006188 RNase E interface [polypeptide binding]; other site 520461006189 trimer interface [polypeptide binding]; other site 520461006190 active site 520461006191 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 520461006192 putative nucleic acid binding region [nucleotide binding]; other site 520461006193 G-X-X-G motif; other site 520461006194 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 520461006195 RNA binding site [nucleotide binding]; other site 520461006196 domain interface; other site 520461006197 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 520461006198 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 520461006199 S-adenosylmethionine binding site [chemical binding]; other site 520461006200 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 520461006201 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 520461006202 NAD binding site [chemical binding]; other site 520461006203 homotetramer interface [polypeptide binding]; other site 520461006204 homodimer interface [polypeptide binding]; other site 520461006205 substrate binding site [chemical binding]; other site 520461006206 active site 520461006207 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 520461006208 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 520461006209 dimer interface [polypeptide binding]; other site 520461006210 active site 520461006211 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 520461006212 active site 1 [active] 520461006213 dimer interface [polypeptide binding]; other site 520461006214 active site 2 [active] 520461006215 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 520461006216 metal binding site 2 [ion binding]; metal-binding site 520461006217 putative DNA binding helix; other site 520461006218 metal binding site 1 [ion binding]; metal-binding site 520461006219 dimer interface [polypeptide binding]; other site 520461006220 structural Zn2+ binding site [ion binding]; other site 520461006221 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 520461006222 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 520461006223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 520461006224 Bacterial SH3 domain; Region: SH3_4; pfam06347 520461006225 Bacterial SH3 domain; Region: SH3_4; pfam06347 520461006226 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 520461006227 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 520461006228 dimerization interface [polypeptide binding]; other site 520461006229 ligand binding site [chemical binding]; other site 520461006230 NADP binding site [chemical binding]; other site 520461006231 catalytic site [active] 520461006232 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 520461006233 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 520461006234 NlpC/P60 family; Region: NLPC_P60; cl17555 520461006235 Transcriptional regulators [Transcription]; Region: MarR; COG1846 520461006236 MarR family; Region: MarR; pfam01047 520461006237 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 520461006238 interface (dimer of trimers) [polypeptide binding]; other site 520461006239 Substrate-binding/catalytic site; other site 520461006240 Zn-binding sites [ion binding]; other site 520461006241 Flp/Fap pilin component; Region: Flp_Fap; cl01585 520461006242 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 520461006243 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 520461006244 DNA binding site [nucleotide binding] 520461006245 catalytic residue [active] 520461006246 H2TH interface [polypeptide binding]; other site 520461006247 putative catalytic residues [active] 520461006248 turnover-facilitating residue; other site 520461006249 intercalation triad [nucleotide binding]; other site 520461006250 8OG recognition residue [nucleotide binding]; other site 520461006251 putative reading head residues; other site 520461006252 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 520461006253 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 520461006254 enoyl-CoA hydratase; Provisional; Region: PRK05862 520461006255 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 520461006256 substrate binding site [chemical binding]; other site 520461006257 oxyanion hole (OAH) forming residues; other site 520461006258 trimer interface [polypeptide binding]; other site 520461006259 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 520461006260 replication initiation protein RepC; Provisional; Region: PRK13824 520461006261 Replication protein C N-terminal domain; Region: RP-C; pfam03428 520461006262 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 520461006263 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 520461006264 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 520461006265 substrate binding site [chemical binding]; other site 520461006266 dimer interface [polypeptide binding]; other site 520461006267 ATP binding site [chemical binding]; other site 520461006268 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 520461006269 active site 520461006270 tetramer interface [polypeptide binding]; other site 520461006271 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 520461006272 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 520461006273 TM-ABC transporter signature motif; other site 520461006274 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461006275 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 520461006276 TM-ABC transporter signature motif; other site 520461006277 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 520461006278 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461006279 Walker A/P-loop; other site 520461006280 ATP binding site [chemical binding]; other site 520461006281 Q-loop/lid; other site 520461006282 ABC transporter signature motif; other site 520461006283 Walker B; other site 520461006284 D-loop; other site 520461006285 H-loop/switch region; other site 520461006286 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 520461006287 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 520461006288 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 520461006289 ligand binding site [chemical binding]; other site 520461006290 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 520461006291 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 520461006292 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 520461006293 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 520461006294 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 520461006295 putative NAD(P) binding site [chemical binding]; other site 520461006296 active site 520461006297 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 520461006298 hydrophobic substrate binding pocket; other site 520461006299 Isochorismatase family; Region: Isochorismatase; pfam00857 520461006300 active site 520461006301 conserved cis-peptide bond; other site 520461006302 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 520461006303 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 520461006304 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 520461006305 acyl-activating enzyme (AAE) consensus motif; other site 520461006306 active site 520461006307 AMP binding site [chemical binding]; other site 520461006308 substrate binding site [chemical binding]; other site 520461006309 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 520461006310 isochorismate synthases; Region: isochor_syn; TIGR00543 520461006311 Condensation domain; Region: Condensation; pfam00668 520461006312 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 520461006313 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 520461006314 Moco binding site; other site 520461006315 metal coordination site [ion binding]; other site 520461006316 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 520461006317 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 520461006318 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 520461006319 RNA polymerase sigma factor; Provisional; Region: PRK12539 520461006320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 520461006321 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 520461006322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 520461006323 Transcriptional regulators [Transcription]; Region: FadR; COG2186 520461006324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461006325 DNA-binding site [nucleotide binding]; DNA binding site 520461006326 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 520461006327 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 520461006328 TM-ABC transporter signature motif; other site 520461006329 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 520461006330 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 520461006331 TM-ABC transporter signature motif; other site 520461006332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461006333 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461006334 Walker A/P-loop; other site 520461006335 ATP binding site [chemical binding]; other site 520461006336 Q-loop/lid; other site 520461006337 ABC transporter signature motif; other site 520461006338 Walker B; other site 520461006339 D-loop; other site 520461006340 H-loop/switch region; other site 520461006341 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461006342 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461006343 Walker A/P-loop; other site 520461006344 ATP binding site [chemical binding]; other site 520461006345 Q-loop/lid; other site 520461006346 ABC transporter signature motif; other site 520461006347 Walker B; other site 520461006348 D-loop; other site 520461006349 H-loop/switch region; other site 520461006350 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 520461006351 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461006352 active site 520461006353 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 520461006354 classical (c) SDRs; Region: SDR_c; cd05233 520461006355 NAD(P) binding site [chemical binding]; other site 520461006356 active site 520461006357 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 520461006358 classical (c) SDRs; Region: SDR_c; cd05233 520461006359 NAD(P) binding site [chemical binding]; other site 520461006360 active site 520461006361 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 520461006362 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 520461006363 E3 interaction surface; other site 520461006364 lipoyl attachment site [posttranslational modification]; other site 520461006365 e3 binding domain; Region: E3_binding; pfam02817 520461006366 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 520461006367 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 520461006368 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 520461006369 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 520461006370 shikimate binding site; other site 520461006371 NAD(P) binding site [chemical binding]; other site 520461006372 magnesium-transporting ATPase; Provisional; Region: PRK15122 520461006373 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 520461006374 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 520461006375 Soluble P-type ATPase [General function prediction only]; Region: COG4087 520461006376 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 520461006377 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 520461006378 MgtC family; Region: MgtC; pfam02308 520461006379 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 520461006380 ATP binding site [chemical binding]; other site 520461006381 Mg2+ binding site [ion binding]; other site 520461006382 G-X-G motif; other site 520461006383 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 520461006384 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 520461006385 active site 520461006386 phosphorylation site [posttranslational modification] 520461006387 intermolecular recognition site; other site 520461006388 dimerization interface [polypeptide binding]; other site 520461006389 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 520461006390 dimerization interface [polypeptide binding]; other site 520461006391 DNA binding residues [nucleotide binding] 520461006392 Response regulator receiver domain; Region: Response_reg; pfam00072 520461006393 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 520461006394 active site 520461006395 phosphorylation site [posttranslational modification] 520461006396 intermolecular recognition site; other site 520461006397 dimerization interface [polypeptide binding]; other site 520461006398 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 520461006399 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 520461006400 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 520461006401 active site 520461006402 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 520461006403 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 520461006404 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 520461006405 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 520461006406 putative dimer interface [polypeptide binding]; other site 520461006407 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 520461006408 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 520461006409 tetramer interface [polypeptide binding]; other site 520461006410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461006411 catalytic residue [active] 520461006412 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 520461006413 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 520461006414 active site 520461006415 dimer interface [polypeptide binding]; other site 520461006416 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 520461006417 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 520461006418 active site 520461006419 FMN binding site [chemical binding]; other site 520461006420 substrate binding site [chemical binding]; other site 520461006421 3Fe-4S cluster binding site [ion binding]; other site 520461006422 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 520461006423 domain interface; other site 520461006424 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 520461006425 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 520461006426 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 520461006427 active site 520461006428 catalytic triad [active] 520461006429 oxyanion hole [active] 520461006430 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 520461006431 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 520461006432 ligand binding site [chemical binding]; other site 520461006433 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 520461006434 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 520461006435 ATP binding site [chemical binding]; other site 520461006436 Walker A motif; other site 520461006437 hexamer interface [polypeptide binding]; other site 520461006438 Walker B motif; other site 520461006439 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 520461006440 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 520461006441 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 520461006442 VirB7 interaction site; other site 520461006443 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 520461006444 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 520461006445 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 520461006446 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 520461006447 Type IV secretion system proteins; Region: T4SS; pfam07996 520461006448 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 520461006449 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 520461006450 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 520461006451 TrbC/VIRB2 family; Region: TrbC; pfam04956 520461006452 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 520461006453 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461006454 catalytic residue [active] 520461006455 lytic murein transglycosylase; Region: MltB_2; TIGR02283 520461006456 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 520461006457 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461006458 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461006459 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 520461006460 active site 520461006461 tetramer interface; other site 520461006462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 520461006463 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 520461006464 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 520461006465 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 520461006466 putative active site [active] 520461006467 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 520461006468 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 520461006469 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 520461006470 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 520461006471 ferrochelatase; Reviewed; Region: hemH; PRK00035 520461006472 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 520461006473 C-terminal domain interface [polypeptide binding]; other site 520461006474 active site 520461006475 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 520461006476 active site 520461006477 N-terminal domain interface [polypeptide binding]; other site 520461006478 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 520461006479 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 520461006480 hypothetical protein; Provisional; Region: PRK07546 520461006481 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 520461006482 substrate-cofactor binding pocket; other site 520461006483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461006484 homodimer interface [polypeptide binding]; other site 520461006485 catalytic residue [active] 520461006486 aminodeoxychorismate synthase; Provisional; Region: PRK07508 520461006487 chorismate binding enzyme; Region: Chorismate_bind; cl10555 520461006488 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 520461006489 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 520461006490 active site 520461006491 Zn binding site [ion binding]; other site 520461006492 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 520461006493 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 520461006494 active site 520461006495 phosphorylation site [posttranslational modification] 520461006496 intermolecular recognition site; other site 520461006497 dimerization interface [polypeptide binding]; other site 520461006498 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 520461006499 Walker A motif; other site 520461006500 ATP binding site [chemical binding]; other site 520461006501 Walker B motif; other site 520461006502 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 520461006503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 520461006504 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 520461006505 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 520461006506 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 520461006507 active site 520461006508 intersubunit interface [polypeptide binding]; other site 520461006509 catalytic residue [active] 520461006510 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 520461006511 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 520461006512 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 520461006513 active site residue [active] 520461006514 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 520461006515 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461006516 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 520461006517 dimer interface [polypeptide binding]; other site 520461006518 conserved gate region; other site 520461006519 putative PBP binding loops; other site 520461006520 ABC-ATPase subunit interface; other site 520461006521 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 520461006522 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 520461006523 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 520461006524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461006525 LysR family transcriptional regulator; Provisional; Region: PRK14997 520461006526 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 520461006527 putative effector binding pocket; other site 520461006528 dimerization interface [polypeptide binding]; other site 520461006529 amidase; Provisional; Region: PRK08310 520461006530 indole-3-acetamide amidohydrolase; Region: PLN02722 520461006531 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 520461006532 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 520461006533 dimer interface [polypeptide binding]; other site 520461006534 active site 520461006535 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 520461006536 catalytic residues [active] 520461006537 substrate binding site [chemical binding]; other site 520461006538 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 520461006539 Chain length determinant protein; Region: Wzz; pfam02706 520461006540 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 520461006541 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 520461006542 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 520461006543 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 520461006544 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 520461006545 active site 520461006546 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 520461006547 O-Antigen ligase; Region: Wzy_C; pfam04932 520461006548 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461006549 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461006550 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461006551 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461006552 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461006553 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 520461006554 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 520461006555 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 520461006556 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461006557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461006558 Walker A/P-loop; other site 520461006559 ATP binding site [chemical binding]; other site 520461006560 Q-loop/lid; other site 520461006561 ABC transporter signature motif; other site 520461006562 Walker B; other site 520461006563 D-loop; other site 520461006564 H-loop/switch region; other site 520461006565 TOBE domain; Region: TOBE_2; pfam08402 520461006566 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461006567 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 520461006568 dimer interface [polypeptide binding]; other site 520461006569 conserved gate region; other site 520461006570 putative PBP binding loops; other site 520461006571 ABC-ATPase subunit interface; other site 520461006572 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 520461006573 dimer interface [polypeptide binding]; other site 520461006574 conserved gate region; other site 520461006575 putative PBP binding loops; other site 520461006576 ABC-ATPase subunit interface; other site 520461006577 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 520461006578 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 520461006579 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 520461006580 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 520461006581 putative substrate translocation pore; other site 520461006582 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 520461006583 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461006584 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461006585 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 520461006586 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461006587 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 520461006588 Autoinducer binding domain; Region: Autoind_bind; pfam03472 520461006589 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 520461006590 DNA binding residues [nucleotide binding] 520461006591 dimerization interface [polypeptide binding]; other site 520461006592 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 520461006593 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 520461006594 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 520461006595 FliG C-terminal domain; Region: FliG_C; pfam01706 520461006596 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 520461006597 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 520461006598 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 520461006599 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 520461006600 flagellar motor protein MotA; Validated; Region: PRK09110 520461006601 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 520461006602 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 520461006603 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 520461006604 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 520461006605 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 520461006606 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 520461006607 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 520461006608 Walker A motif; other site 520461006609 ATP binding site [chemical binding]; other site 520461006610 Walker B motif; other site 520461006611 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 520461006612 active site 520461006613 GtrA-like protein; Region: GtrA; pfam04138 520461006614 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 520461006615 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 520461006616 Ligand binding site; other site 520461006617 Putative Catalytic site; other site 520461006618 DXD motif; other site 520461006619 Peptidase family M48; Region: Peptidase_M48; cl12018 520461006620 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 520461006621 putative active site [active] 520461006622 YdjC motif; other site 520461006623 Mg binding site [ion binding]; other site 520461006624 putative homodimer interface [polypeptide binding]; other site 520461006625 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 520461006626 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 520461006627 Helix-turn-helix domain; Region: HTH_18; pfam12833 520461006628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461006629 Transposase; Region: HTH_Tnp_1; cl17663 520461006630 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 520461006631 D-galactonate transporter; Region: 2A0114; TIGR00893 520461006632 putative substrate translocation pore; other site 520461006633 putative aldolase; Validated; Region: PRK08130 520461006634 intersubunit interface [polypeptide binding]; other site 520461006635 active site 520461006636 Zn2+ binding site [ion binding]; other site 520461006637 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 520461006638 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 520461006639 putative NAD(P) binding site [chemical binding]; other site 520461006640 active site 520461006641 putative substrate binding site [chemical binding]; other site 520461006642 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 520461006643 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 520461006644 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 520461006645 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 520461006646 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 520461006647 Metal-binding active site; metal-binding site 520461006648 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 520461006649 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 520461006650 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 520461006651 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 520461006652 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 520461006653 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 520461006654 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 520461006655 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 520461006656 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 520461006657 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 520461006658 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 520461006659 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 520461006660 Uncharacterized conserved protein [Function unknown]; Region: COG3334 520461006661 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 520461006662 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 520461006663 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 520461006664 FliP family; Region: FliP; cl00593 520461006665 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 520461006666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 520461006667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461006668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461006669 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 520461006670 putative dimerization interface [polypeptide binding]; other site 520461006671 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 520461006672 CoA-transferase family III; Region: CoA_transf_3; pfam02515 520461006673 Uncharacterized conserved protein [Function unknown]; Region: COG3777 520461006674 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 520461006675 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 520461006676 active site 2 [active] 520461006677 active site 1 [active] 520461006678 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 520461006679 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461006680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461006681 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461006682 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 520461006683 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461006684 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461006685 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 520461006686 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 520461006687 Autotransporter beta-domain; Region: Autotransporter; pfam03797 520461006688 Cytochrome c2 [Energy production and conversion]; Region: COG3474 520461006689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 520461006690 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 520461006691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461006692 DNA-binding site [nucleotide binding]; DNA binding site 520461006693 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 520461006694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461006695 transcriptional activator TtdR; Provisional; Region: PRK09801 520461006696 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 520461006697 putative effector binding pocket; other site 520461006698 dimerization interface [polypeptide binding]; other site 520461006699 FAD binding domain; Region: FAD_binding_4; pfam01565 520461006700 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 520461006701 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 520461006702 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 520461006703 Cysteine-rich domain; Region: CCG; pfam02754 520461006704 Cysteine-rich domain; Region: CCG; pfam02754 520461006705 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 520461006706 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 520461006707 active site 520461006708 catalytic tetrad [active] 520461006709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 520461006710 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 520461006711 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 520461006712 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 520461006713 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 520461006714 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 520461006715 dimer interface [polypeptide binding]; other site 520461006716 motif 1; other site 520461006717 motif 2; other site 520461006718 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 520461006719 active site 520461006720 motif 3; other site 520461006721 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 520461006722 anticodon binding site; other site 520461006723 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 520461006724 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 520461006725 motif 1; other site 520461006726 dimer interface [polypeptide binding]; other site 520461006727 active site 520461006728 motif 2; other site 520461006729 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 520461006730 active site 520461006731 motif 3; other site 520461006732 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 520461006733 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 520461006734 Predicted membrane protein [Function unknown]; Region: COG2259 520461006735 fumarate hydratase; Reviewed; Region: fumC; PRK00485 520461006736 Class II fumarases; Region: Fumarase_classII; cd01362 520461006737 active site 520461006738 tetramer interface [polypeptide binding]; other site 520461006739 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 520461006740 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 520461006741 ring oligomerisation interface [polypeptide binding]; other site 520461006742 ATP/Mg binding site [chemical binding]; other site 520461006743 stacking interactions; other site 520461006744 hinge regions; other site 520461006745 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 520461006746 oligomerisation interface [polypeptide binding]; other site 520461006747 mobile loop; other site 520461006748 roof hairpin; other site 520461006749 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 520461006750 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 520461006751 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 520461006752 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 520461006753 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 520461006754 active site 520461006755 Riboflavin kinase; Region: Flavokinase; smart00904 520461006756 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 520461006757 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461006758 active site 520461006759 HIGH motif; other site 520461006760 nucleotide binding site [chemical binding]; other site 520461006761 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 520461006762 active site 520461006763 KMSKS motif; other site 520461006764 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 520461006765 tRNA binding surface [nucleotide binding]; other site 520461006766 anticodon binding site; other site 520461006767 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 520461006768 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 520461006769 nucleoside/Zn binding site; other site 520461006770 dimer interface [polypeptide binding]; other site 520461006771 catalytic motif [active] 520461006772 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 520461006773 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 520461006774 RNA binding surface [nucleotide binding]; other site 520461006775 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 520461006776 active site 520461006777 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 520461006778 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 520461006779 S-adenosylmethionine binding site [chemical binding]; other site 520461006780 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 520461006781 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 520461006782 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 520461006783 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 520461006784 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 520461006785 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 520461006786 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 520461006787 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 520461006788 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 520461006789 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 520461006790 TrkA-N domain; Region: TrkA_N; pfam02254 520461006791 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 520461006792 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 520461006793 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 520461006794 active site 520461006795 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 520461006796 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 520461006797 putative acyl-acceptor binding pocket; other site 520461006798 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 520461006799 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 520461006800 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 520461006801 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 520461006802 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 520461006803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 520461006804 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 520461006805 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 520461006806 ATP binding site [chemical binding]; other site 520461006807 Mg2+ binding site [ion binding]; other site 520461006808 G-X-G motif; other site 520461006809 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 520461006810 ATP binding site [chemical binding]; other site 520461006811 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 520461006812 benzoate transport; Region: 2A0115; TIGR00895 520461006813 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 520461006814 putative substrate translocation pore; other site 520461006815 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461006816 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461006817 active site 520461006818 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 520461006819 Transcriptional regulator [Transcription]; Region: IclR; COG1414 520461006820 Bacterial transcriptional regulator; Region: IclR; pfam01614 520461006821 enoyl-CoA hydratase; Provisional; Region: PRK08138 520461006822 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 520461006823 substrate binding site [chemical binding]; other site 520461006824 oxyanion hole (OAH) forming residues; other site 520461006825 trimer interface [polypeptide binding]; other site 520461006826 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 520461006827 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 520461006828 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 520461006829 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 520461006830 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 520461006831 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 520461006832 putative active site [active] 520461006833 putative FMN binding site [chemical binding]; other site 520461006834 putative substrate binding site [chemical binding]; other site 520461006835 putative catalytic residue [active] 520461006836 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 520461006837 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 520461006838 DNA binding residues [nucleotide binding] 520461006839 putative dimer interface [polypeptide binding]; other site 520461006840 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 520461006841 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 520461006842 potential catalytic triad [active] 520461006843 conserved cys residue [active] 520461006844 sensor protein QseC; Provisional; Region: PRK10337 520461006845 HAMP domain; Region: HAMP; pfam00672 520461006846 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 520461006847 dimer interface [polypeptide binding]; other site 520461006848 phosphorylation site [posttranslational modification] 520461006849 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 520461006850 Mg2+ binding site [ion binding]; other site 520461006851 G-X-G motif; other site 520461006852 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461006853 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 520461006854 active site 520461006855 phosphorylation site [posttranslational modification] 520461006856 intermolecular recognition site; other site 520461006857 dimerization interface [polypeptide binding]; other site 520461006858 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 520461006859 DNA binding site [nucleotide binding] 520461006860 Uncharacterized conserved protein [Function unknown]; Region: COG5591 520461006861 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 520461006862 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 520461006863 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 520461006864 Flavodoxin; Region: Flavodoxin_1; pfam00258 520461006865 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 520461006866 FAD binding pocket [chemical binding]; other site 520461006867 FAD binding motif [chemical binding]; other site 520461006868 catalytic residues [active] 520461006869 NAD binding pocket [chemical binding]; other site 520461006870 phosphate binding motif [ion binding]; other site 520461006871 beta-alpha-beta structure motif; other site 520461006872 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 520461006873 ApbE family; Region: ApbE; pfam02424 520461006874 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 520461006875 GAF domain; Region: GAF; pfam01590 520461006876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461006877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461006878 metal binding site [ion binding]; metal-binding site 520461006879 active site 520461006880 I-site; other site 520461006881 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 520461006882 EamA-like transporter family; Region: EamA; pfam00892 520461006883 EamA-like transporter family; Region: EamA; cl17759 520461006884 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461006885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461006886 DNA-binding site [nucleotide binding]; DNA binding site 520461006887 FCD domain; Region: FCD; pfam07729 520461006888 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 520461006889 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 520461006890 inhibitor site; inhibition site 520461006891 active site 520461006892 dimer interface [polypeptide binding]; other site 520461006893 catalytic residue [active] 520461006894 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 520461006895 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 520461006896 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 520461006897 Cytochrome c; Region: Cytochrom_C; pfam00034 520461006898 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 520461006899 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 520461006900 Binuclear center (active site) [active] 520461006901 K-pathway; other site 520461006902 Putative proton exit pathway; other site 520461006903 MoxR-like ATPases [General function prediction only]; Region: COG0714 520461006904 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 520461006905 Walker A motif; other site 520461006906 ATP binding site [chemical binding]; other site 520461006907 Walker B motif; other site 520461006908 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 520461006909 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 520461006910 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 520461006911 metal ion-dependent adhesion site (MIDAS); other site 520461006912 Uncharacterized conserved protein [Function unknown]; Region: COG4309 520461006913 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 520461006914 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 520461006915 CPxP motif; other site 520461006916 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 520461006917 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 520461006918 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 520461006919 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 520461006920 nucleophilic elbow; other site 520461006921 catalytic triad; other site 520461006922 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 520461006923 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 520461006924 Multicopper oxidase; Region: Cu-oxidase; pfam00394 520461006925 Uncharacterized conserved protein [Function unknown]; Region: COG1262 520461006926 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 520461006927 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461006928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461006929 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461006930 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 520461006931 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 520461006932 ligand binding site [chemical binding]; other site 520461006933 flexible hinge region; other site 520461006934 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 520461006935 putative switch regulator; other site 520461006936 non-specific DNA interactions [nucleotide binding]; other site 520461006937 DNA binding site [nucleotide binding] 520461006938 sequence specific DNA binding site [nucleotide binding]; other site 520461006939 putative cAMP binding site [chemical binding]; other site 520461006940 Transcriptional regulators [Transcription]; Region: PurR; COG1609 520461006941 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 520461006942 DNA binding site [nucleotide binding] 520461006943 domain linker motif; other site 520461006944 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 520461006945 dimerization interface [polypeptide binding]; other site 520461006946 ligand binding site [chemical binding]; other site 520461006947 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 520461006948 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 520461006949 putative ligand binding site [chemical binding]; other site 520461006950 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 520461006951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461006952 Walker A/P-loop; other site 520461006953 ATP binding site [chemical binding]; other site 520461006954 Q-loop/lid; other site 520461006955 ABC transporter signature motif; other site 520461006956 Walker B; other site 520461006957 D-loop; other site 520461006958 H-loop/switch region; other site 520461006959 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 520461006960 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461006961 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 520461006962 TM-ABC transporter signature motif; other site 520461006963 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 520461006964 classical (c) SDRs; Region: SDR_c; cd05233 520461006965 NAD(P) binding site [chemical binding]; other site 520461006966 active site 520461006967 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 520461006968 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 520461006969 N- and C-terminal domain interface [polypeptide binding]; other site 520461006970 active site 520461006971 MgATP binding site [chemical binding]; other site 520461006972 catalytic site [active] 520461006973 metal binding site [ion binding]; metal-binding site 520461006974 carbohydrate binding site [chemical binding]; other site 520461006975 putative homodimer interface [polypeptide binding]; other site 520461006976 RES domain; Region: RES; smart00953 520461006977 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 520461006978 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 520461006979 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 520461006980 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 520461006981 nitrous-oxide reductase; Validated; Region: PRK02888 520461006982 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 520461006983 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 520461006984 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 520461006985 Walker A/P-loop; other site 520461006986 ATP binding site [chemical binding]; other site 520461006987 Q-loop/lid; other site 520461006988 ABC transporter signature motif; other site 520461006989 Walker B; other site 520461006990 D-loop; other site 520461006991 H-loop/switch region; other site 520461006992 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 520461006993 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 520461006994 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 520461006995 ApbE family; Region: ApbE; pfam02424 520461006996 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 520461006997 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 520461006998 ligand binding site [chemical binding]; other site 520461006999 flexible hinge region; other site 520461007000 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 520461007001 putative switch regulator; other site 520461007002 non-specific DNA interactions [nucleotide binding]; other site 520461007003 DNA binding site [nucleotide binding] 520461007004 sequence specific DNA binding site [nucleotide binding]; other site 520461007005 putative cAMP binding site [chemical binding]; other site 520461007006 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 520461007007 pseudoazurin; Region: pseudoazurin; TIGR02375 520461007008 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 520461007009 NMT1-like family; Region: NMT1_2; pfam13379 520461007010 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 520461007011 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 520461007012 dimer interface [polypeptide binding]; other site 520461007013 conserved gate region; other site 520461007014 putative PBP binding loops; other site 520461007015 ABC-ATPase subunit interface; other site 520461007016 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 520461007017 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 520461007018 Walker A/P-loop; other site 520461007019 ATP binding site [chemical binding]; other site 520461007020 Q-loop/lid; other site 520461007021 ABC transporter signature motif; other site 520461007022 Walker B; other site 520461007023 D-loop; other site 520461007024 H-loop/switch region; other site 520461007025 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 520461007026 putative protease; Provisional; Region: PRK15447 520461007027 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 520461007028 Peptidase family U32; Region: Peptidase_U32; pfam01136 520461007029 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 520461007030 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 520461007031 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 520461007032 Flavoprotein; Region: Flavoprotein; pfam02441 520461007033 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 520461007034 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 520461007035 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 520461007036 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 520461007037 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 520461007038 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 520461007039 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 520461007040 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 520461007041 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 520461007042 [4Fe-4S] binding site [ion binding]; other site 520461007043 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 520461007044 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 520461007045 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 520461007046 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 520461007047 molybdopterin cofactor binding site; other site 520461007048 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 520461007049 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 520461007050 putative substrate translocation pore; other site 520461007051 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 520461007052 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 520461007053 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 520461007054 ligand binding site [chemical binding]; other site 520461007055 flexible hinge region; other site 520461007056 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 520461007057 Transcriptional regulators [Transcription]; Region: PurR; COG1609 520461007058 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 520461007059 DNA binding site [nucleotide binding] 520461007060 domain linker motif; other site 520461007061 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 520461007062 ligand binding site [chemical binding]; other site 520461007063 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 520461007064 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 520461007065 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461007066 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 520461007067 dimer interface [polypeptide binding]; other site 520461007068 conserved gate region; other site 520461007069 putative PBP binding loops; other site 520461007070 ABC-ATPase subunit interface; other site 520461007071 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461007072 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 520461007073 dimer interface [polypeptide binding]; other site 520461007074 conserved gate region; other site 520461007075 putative PBP binding loops; other site 520461007076 ABC-ATPase subunit interface; other site 520461007077 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 520461007078 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 520461007079 Walker A/P-loop; other site 520461007080 ATP binding site [chemical binding]; other site 520461007081 Q-loop/lid; other site 520461007082 ABC transporter signature motif; other site 520461007083 Walker B; other site 520461007084 D-loop; other site 520461007085 H-loop/switch region; other site 520461007086 TOBE domain; Region: TOBE_2; pfam08402 520461007087 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 520461007088 conserved cys residue [active] 520461007089 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461007090 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461007091 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461007092 Transmembrane secretion effector; Region: MFS_3; pfam05977 520461007093 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 520461007094 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 520461007095 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 520461007096 catalytic residues [active] 520461007097 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 520461007098 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 520461007099 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 520461007100 Class I ribonucleotide reductase; Region: RNR_I; cd01679 520461007101 active site 520461007102 dimer interface [polypeptide binding]; other site 520461007103 catalytic residues [active] 520461007104 effector binding site; other site 520461007105 R2 peptide binding site; other site 520461007106 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 520461007107 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 520461007108 dimer interface [polypeptide binding]; other site 520461007109 putative radical transfer pathway; other site 520461007110 diiron center [ion binding]; other site 520461007111 tyrosyl radical; other site 520461007112 septum formation inhibitor; Reviewed; Region: minC; PRK05177 520461007113 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 520461007114 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 520461007115 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 520461007116 Switch I; other site 520461007117 Switch II; other site 520461007118 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 520461007119 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 520461007120 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 520461007121 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461007122 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461007123 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 520461007124 Walker A/P-loop; other site 520461007125 ATP binding site [chemical binding]; other site 520461007126 Q-loop/lid; other site 520461007127 ABC transporter signature motif; other site 520461007128 Walker B; other site 520461007129 D-loop; other site 520461007130 H-loop/switch region; other site 520461007131 TOBE domain; Region: TOBE_2; pfam08402 520461007132 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 520461007133 dimer interface [polypeptide binding]; other site 520461007134 conserved gate region; other site 520461007135 putative PBP binding loops; other site 520461007136 ABC-ATPase subunit interface; other site 520461007137 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461007138 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 520461007139 dimer interface [polypeptide binding]; other site 520461007140 conserved gate region; other site 520461007141 putative PBP binding loops; other site 520461007142 ABC-ATPase subunit interface; other site 520461007143 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 520461007144 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 520461007145 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461007146 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461007147 Predicted membrane protein [Function unknown]; Region: COG4803 520461007148 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 520461007149 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 520461007150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461007151 catalytic residue [active] 520461007152 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 520461007153 glutaminase; Reviewed; Region: PRK12356 520461007154 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 520461007155 acid-resistance protein; Provisional; Region: PRK10208 520461007156 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 520461007157 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 520461007158 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 520461007159 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 520461007160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461007161 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 520461007162 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 520461007163 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 520461007164 Substrate binding site; other site 520461007165 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 520461007166 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 520461007167 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 520461007168 active site 520461007169 substrate binding site [chemical binding]; other site 520461007170 metal binding site [ion binding]; metal-binding site 520461007171 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 520461007172 putative active site pocket [active] 520461007173 cleavage site 520461007174 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 520461007175 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 520461007176 putative ion selectivity filter; other site 520461007177 putative pore gating glutamate residue; other site 520461007178 putative H+/Cl- coupling transport residue; other site 520461007179 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 520461007180 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 520461007181 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 520461007182 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 520461007183 active site 520461007184 Cytochrome c [Energy production and conversion]; Region: COG3258 520461007185 Cytochrome c; Region: Cytochrom_C; pfam00034 520461007186 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 520461007187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461007188 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 520461007189 dimerization interface [polypeptide binding]; other site 520461007190 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 520461007191 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 520461007192 tetramer interface [polypeptide binding]; other site 520461007193 heme binding pocket [chemical binding]; other site 520461007194 NADPH binding site [chemical binding]; other site 520461007195 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 520461007196 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 520461007197 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 520461007198 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 520461007199 CoenzymeA binding site [chemical binding]; other site 520461007200 subunit interaction site [polypeptide binding]; other site 520461007201 PHB binding site; other site 520461007202 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 520461007203 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 520461007204 GMP synthase; Reviewed; Region: guaA; PRK00074 520461007205 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 520461007206 AMP/PPi binding site [chemical binding]; other site 520461007207 candidate oxyanion hole; other site 520461007208 catalytic triad [active] 520461007209 potential glutamine specificity residues [chemical binding]; other site 520461007210 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 520461007211 ATP Binding subdomain [chemical binding]; other site 520461007212 Ligand Binding sites [chemical binding]; other site 520461007213 Dimerization subdomain; other site 520461007214 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 520461007215 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 520461007216 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 520461007217 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 520461007218 4Fe-4S binding domain; Region: Fer4_5; pfam12801 520461007219 putative phosphoketolase; Provisional; Region: PRK05261 520461007220 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 520461007221 TPP-binding site; other site 520461007222 XFP C-terminal domain; Region: XFP_C; pfam09363 520461007223 acetate kinase; Provisional; Region: PRK07058 520461007224 propionate/acetate kinase; Provisional; Region: PRK12379 520461007225 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 520461007226 Cytochrome P450; Region: p450; cl12078 520461007227 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461007228 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461007229 DNA-binding site [nucleotide binding]; DNA binding site 520461007230 FCD domain; Region: FCD; pfam07729 520461007231 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007233 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007234 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 520461007235 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 520461007236 NAD(P) binding site [chemical binding]; other site 520461007237 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461007238 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 520461007239 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461007240 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 520461007241 TM-ABC transporter signature motif; other site 520461007242 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 520461007243 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 520461007244 TM-ABC transporter signature motif; other site 520461007245 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461007246 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461007247 Walker A/P-loop; other site 520461007248 ATP binding site [chemical binding]; other site 520461007249 Q-loop/lid; other site 520461007250 ABC transporter signature motif; other site 520461007251 Walker B; other site 520461007252 D-loop; other site 520461007253 H-loop/switch region; other site 520461007254 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461007255 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461007256 Walker A/P-loop; other site 520461007257 ATP binding site [chemical binding]; other site 520461007258 Q-loop/lid; other site 520461007259 ABC transporter signature motif; other site 520461007260 Walker B; other site 520461007261 D-loop; other site 520461007262 H-loop/switch region; other site 520461007263 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 520461007264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461007265 NAD(P) binding site [chemical binding]; other site 520461007266 active site 520461007267 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 520461007268 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 520461007269 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 520461007270 shikimate binding site; other site 520461007271 NAD(P) binding site [chemical binding]; other site 520461007272 choline dehydrogenase; Validated; Region: PRK02106 520461007273 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 520461007274 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461007275 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 520461007276 tetramerization interface [polypeptide binding]; other site 520461007277 NAD(P) binding site [chemical binding]; other site 520461007278 catalytic residues [active] 520461007279 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 520461007280 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 520461007281 NAD binding site [chemical binding]; other site 520461007282 catalytic Zn binding site [ion binding]; other site 520461007283 substrate binding site [chemical binding]; other site 520461007284 structural Zn binding site [ion binding]; other site 520461007285 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461007286 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461007287 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461007288 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461007289 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 520461007290 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461007291 Walker A/P-loop; other site 520461007292 ATP binding site [chemical binding]; other site 520461007293 Q-loop/lid; other site 520461007294 ABC transporter signature motif; other site 520461007295 Walker B; other site 520461007296 D-loop; other site 520461007297 H-loop/switch region; other site 520461007298 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 520461007299 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461007300 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461007301 Walker A/P-loop; other site 520461007302 ATP binding site [chemical binding]; other site 520461007303 Q-loop/lid; other site 520461007304 ABC transporter signature motif; other site 520461007305 Walker B; other site 520461007306 D-loop; other site 520461007307 H-loop/switch region; other site 520461007308 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 520461007309 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 520461007310 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 520461007311 inhibitor site; inhibition site 520461007312 active site 520461007313 dimer interface [polypeptide binding]; other site 520461007314 catalytic residue [active] 520461007315 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 520461007316 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 520461007317 dimer interface [polypeptide binding]; other site 520461007318 conserved gate region; other site 520461007319 putative PBP binding loops; other site 520461007320 ABC-ATPase subunit interface; other site 520461007321 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461007322 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 520461007323 dimer interface [polypeptide binding]; other site 520461007324 conserved gate region; other site 520461007325 putative PBP binding loops; other site 520461007326 ABC-ATPase subunit interface; other site 520461007327 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461007328 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 520461007329 Transcriptional regulators [Transcription]; Region: FadR; COG2186 520461007330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461007331 DNA-binding site [nucleotide binding]; DNA binding site 520461007332 FCD domain; Region: FCD; pfam07729 520461007333 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 520461007334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 520461007335 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 520461007336 ligand binding site [chemical binding]; other site 520461007337 flexible hinge region; other site 520461007338 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 520461007339 putative switch regulator; other site 520461007340 non-specific DNA interactions [nucleotide binding]; other site 520461007341 DNA binding site [nucleotide binding] 520461007342 sequence specific DNA binding site [nucleotide binding]; other site 520461007343 putative cAMP binding site [chemical binding]; other site 520461007344 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 520461007345 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 520461007346 DNA binding residues [nucleotide binding] 520461007347 dimerization interface [polypeptide binding]; other site 520461007348 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 520461007349 Chain length determinant protein; Region: Wzz; cl15801 520461007350 AAA domain; Region: AAA_31; pfam13614 520461007351 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 520461007352 G3 box; other site 520461007353 Switch II region; other site 520461007354 G4 box; other site 520461007355 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 520461007356 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 520461007357 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 520461007358 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 520461007359 NADP binding site [chemical binding]; other site 520461007360 active site 520461007361 putative substrate binding site [chemical binding]; other site 520461007362 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 520461007363 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 520461007364 NADP-binding site; other site 520461007365 homotetramer interface [polypeptide binding]; other site 520461007366 substrate binding site [chemical binding]; other site 520461007367 homodimer interface [polypeptide binding]; other site 520461007368 active site 520461007369 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461007370 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 520461007371 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461007372 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 520461007373 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461007374 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 520461007375 putative ADP-binding pocket [chemical binding]; other site 520461007376 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461007377 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 520461007378 putative trimer interface [polypeptide binding]; other site 520461007379 putative active site [active] 520461007380 putative substrate binding site [chemical binding]; other site 520461007381 putative CoA binding site [chemical binding]; other site 520461007382 Uncharacterized conserved protein [Function unknown]; Region: COG1434 520461007383 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 520461007384 putative active site [active] 520461007385 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 520461007386 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 520461007387 putative metal binding site; other site 520461007388 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 520461007389 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 520461007390 Mg++ binding site [ion binding]; other site 520461007391 putative catalytic motif [active] 520461007392 substrate binding site [chemical binding]; other site 520461007393 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 520461007394 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 520461007395 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 520461007396 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 520461007397 active site 520461007398 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 520461007399 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 520461007400 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 520461007401 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 520461007402 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 520461007403 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 520461007404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461007405 catalytic residue [active] 520461007406 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 520461007407 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 520461007408 extended (e) SDRs; Region: SDR_e; cd08946 520461007409 NAD(P) binding site [chemical binding]; other site 520461007410 active site 520461007411 substrate binding site [chemical binding]; other site 520461007412 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 520461007413 M28 Zn-Peptidases; Region: M28_like_3; cd05644 520461007414 active site 520461007415 metal binding site [ion binding]; metal-binding site 520461007416 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 520461007417 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 520461007418 Methyltransferase domain; Region: Methyltransf_23; pfam13489 520461007419 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 520461007420 S-adenosylmethionine binding site [chemical binding]; other site 520461007421 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 520461007422 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 520461007423 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 520461007424 active site 520461007425 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 520461007426 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 520461007427 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 520461007428 N- and C-terminal domain interface [polypeptide binding]; other site 520461007429 active site 520461007430 MgATP binding site [chemical binding]; other site 520461007431 catalytic site [active] 520461007432 metal binding site [ion binding]; metal-binding site 520461007433 glycerol binding site [chemical binding]; other site 520461007434 homotetramer interface [polypeptide binding]; other site 520461007435 homodimer interface [polypeptide binding]; other site 520461007436 FBP binding site [chemical binding]; other site 520461007437 protein IIAGlc interface [polypeptide binding]; other site 520461007438 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 520461007439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461007440 putative substrate translocation pore; other site 520461007441 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 520461007442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461007443 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 520461007444 putative dimerization interface [polypeptide binding]; other site 520461007445 putative substrate binding pocket [chemical binding]; other site 520461007446 methionine sulfoxide reductase B; Provisional; Region: PRK00222 520461007447 SelR domain; Region: SelR; pfam01641 520461007448 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461007449 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461007450 active site 520461007451 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 520461007452 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 520461007453 dimer interface [polypeptide binding]; other site 520461007454 active site 520461007455 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 520461007456 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 520461007457 NAD binding site [chemical binding]; other site 520461007458 homodimer interface [polypeptide binding]; other site 520461007459 homotetramer interface [polypeptide binding]; other site 520461007460 active site 520461007461 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 520461007462 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 520461007463 active site 520461007464 acyl-activating enzyme (AAE) consensus motif; other site 520461007465 putative CoA binding site [chemical binding]; other site 520461007466 AMP binding site [chemical binding]; other site 520461007467 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 520461007468 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 520461007469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461007470 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 520461007471 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 520461007472 ligand binding site [chemical binding]; other site 520461007473 NAD binding site [chemical binding]; other site 520461007474 tetramer interface [polypeptide binding]; other site 520461007475 catalytic site [active] 520461007476 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 520461007477 L-serine binding site [chemical binding]; other site 520461007478 ACT domain interface; other site 520461007479 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 520461007480 active site 520461007481 catalytic residues [active] 520461007482 metal binding site [ion binding]; metal-binding site 520461007483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 520461007484 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 520461007485 dimerization interface [polypeptide binding]; other site 520461007486 putative DNA binding site [nucleotide binding]; other site 520461007487 putative Zn2+ binding site [ion binding]; other site 520461007488 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 520461007489 Predicted transporter component [General function prediction only]; Region: COG2391 520461007490 Predicted transporter component [General function prediction only]; Region: COG2391 520461007491 Sulphur transport; Region: Sulf_transp; pfam04143 520461007492 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461007493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461007494 DNA-binding site [nucleotide binding]; DNA binding site 520461007495 FCD domain; Region: FCD; pfam07729 520461007496 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 520461007497 Domain of unknown function DUF20; Region: UPF0118; pfam01594 520461007498 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 520461007499 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461007500 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 520461007501 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 520461007502 Peptidase family M23; Region: Peptidase_M23; pfam01551 520461007503 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461007504 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 520461007505 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 520461007506 Walker A/P-loop; other site 520461007507 ATP binding site [chemical binding]; other site 520461007508 Q-loop/lid; other site 520461007509 ABC transporter signature motif; other site 520461007510 Walker B; other site 520461007511 D-loop; other site 520461007512 H-loop/switch region; other site 520461007513 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 520461007514 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 520461007515 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 520461007516 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 520461007517 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 520461007518 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 520461007519 dimer interface [polypeptide binding]; other site 520461007520 conserved gate region; other site 520461007521 putative PBP binding loops; other site 520461007522 ABC-ATPase subunit interface; other site 520461007523 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 520461007524 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 520461007525 Walker A/P-loop; other site 520461007526 ATP binding site [chemical binding]; other site 520461007527 Q-loop/lid; other site 520461007528 ABC transporter signature motif; other site 520461007529 Walker B; other site 520461007530 D-loop; other site 520461007531 H-loop/switch region; other site 520461007532 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 520461007533 NMT1/THI5 like; Region: NMT1; pfam09084 520461007534 substrate binding pocket [chemical binding]; other site 520461007535 membrane-bound complex binding site; other site 520461007536 hinge residues; other site 520461007537 MarR family; Region: MarR_2; pfam12802 520461007538 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 520461007539 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461007540 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461007541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 520461007542 HAMP domain; Region: HAMP; pfam00672 520461007543 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 520461007544 dimer interface [polypeptide binding]; other site 520461007545 phosphorylation site [posttranslational modification] 520461007546 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 520461007547 ATP binding site [chemical binding]; other site 520461007548 Mg2+ binding site [ion binding]; other site 520461007549 G-X-G motif; other site 520461007550 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461007551 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 520461007552 active site 520461007553 phosphorylation site [posttranslational modification] 520461007554 intermolecular recognition site; other site 520461007555 dimerization interface [polypeptide binding]; other site 520461007556 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 520461007557 DNA binding site [nucleotide binding] 520461007558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007559 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007560 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007561 Uncharacterized conserved protein [Function unknown]; Region: COG3189 520461007562 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 520461007563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461007564 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 520461007565 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 520461007566 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 520461007567 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461007568 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 520461007569 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461007570 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 520461007571 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 520461007572 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 520461007573 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 520461007574 proposed active site lysine [active] 520461007575 conserved cys residue [active] 520461007576 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 520461007577 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 520461007578 dimer interface [polypeptide binding]; other site 520461007579 active site 520461007580 CoA binding pocket [chemical binding]; other site 520461007581 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 520461007582 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 520461007583 inhibitor-cofactor binding pocket; inhibition site 520461007584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461007585 catalytic residue [active] 520461007586 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 520461007587 AAA domain; Region: AAA_26; pfam13500 520461007588 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 520461007589 hypothetical protein; Provisional; Region: PRK07505 520461007590 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461007591 catalytic residue [active] 520461007592 biotin synthase; Region: bioB; TIGR00433 520461007593 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 520461007594 FeS/SAM binding site; other site 520461007595 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 520461007596 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 520461007597 MPT binding site; other site 520461007598 trimer interface [polypeptide binding]; other site 520461007599 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 520461007600 dimer interface [polypeptide binding]; other site 520461007601 FMN binding site [chemical binding]; other site 520461007602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 520461007603 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 520461007604 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 520461007605 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 520461007606 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 520461007607 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 520461007608 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 520461007609 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 520461007610 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 520461007611 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 520461007612 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 520461007613 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 520461007614 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 520461007615 Predicted transcriptional regulators [Transcription]; Region: COG1510 520461007616 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 520461007617 dimerization interface [polypeptide binding]; other site 520461007618 putative DNA binding site [nucleotide binding]; other site 520461007619 putative Zn2+ binding site [ion binding]; other site 520461007620 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 520461007621 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461007622 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 520461007623 Walker A/P-loop; other site 520461007624 ATP binding site [chemical binding]; other site 520461007625 Q-loop/lid; other site 520461007626 ABC transporter signature motif; other site 520461007627 Walker B; other site 520461007628 D-loop; other site 520461007629 H-loop/switch region; other site 520461007630 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 520461007631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461007632 Walker A/P-loop; other site 520461007633 ATP binding site [chemical binding]; other site 520461007634 Q-loop/lid; other site 520461007635 ABC transporter signature motif; other site 520461007636 Walker B; other site 520461007637 D-loop; other site 520461007638 H-loop/switch region; other site 520461007639 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 520461007640 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 520461007641 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 520461007642 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 520461007643 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 520461007644 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 520461007645 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461007646 DNA-binding site [nucleotide binding]; DNA binding site 520461007647 UTRA domain; Region: UTRA; pfam07702 520461007648 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 520461007649 nucleotide binding site [chemical binding]; other site 520461007650 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 520461007651 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 520461007652 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 520461007653 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 520461007654 dimer interface [polypeptide binding]; other site 520461007655 conserved gate region; other site 520461007656 putative PBP binding loops; other site 520461007657 ABC-ATPase subunit interface; other site 520461007658 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461007659 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 520461007660 dimer interface [polypeptide binding]; other site 520461007661 conserved gate region; other site 520461007662 putative PBP binding loops; other site 520461007663 ABC-ATPase subunit interface; other site 520461007664 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461007665 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461007666 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 520461007667 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 520461007668 Walker A/P-loop; other site 520461007669 ATP binding site [chemical binding]; other site 520461007670 Q-loop/lid; other site 520461007671 ABC transporter signature motif; other site 520461007672 Walker B; other site 520461007673 D-loop; other site 520461007674 H-loop/switch region; other site 520461007675 TOBE domain; Region: TOBE_2; pfam08402 520461007676 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 520461007677 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 520461007678 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 520461007679 tetramer interface [polypeptide binding]; other site 520461007680 TPP-binding site [chemical binding]; other site 520461007681 heterodimer interface [polypeptide binding]; other site 520461007682 phosphorylation loop region [posttranslational modification] 520461007683 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 520461007684 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 520461007685 alpha subunit interface [polypeptide binding]; other site 520461007686 TPP binding site [chemical binding]; other site 520461007687 heterodimer interface [polypeptide binding]; other site 520461007688 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 520461007689 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 520461007690 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 520461007691 E3 interaction surface; other site 520461007692 lipoyl attachment site [posttranslational modification]; other site 520461007693 e3 binding domain; Region: E3_binding; pfam02817 520461007694 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 520461007695 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 520461007696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 520461007697 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461007698 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 520461007699 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 520461007700 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 520461007701 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 520461007702 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 520461007703 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 520461007704 homodimer interface [polypeptide binding]; other site 520461007705 homotetramer interface [polypeptide binding]; other site 520461007706 active site pocket [active] 520461007707 cleavage site 520461007708 benzoate transport; Region: 2A0115; TIGR00895 520461007709 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 520461007710 putative substrate translocation pore; other site 520461007711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007713 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007714 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 520461007715 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 520461007716 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461007717 Walker A/P-loop; other site 520461007718 ATP binding site [chemical binding]; other site 520461007719 Q-loop/lid; other site 520461007720 ABC transporter signature motif; other site 520461007721 Walker B; other site 520461007722 D-loop; other site 520461007723 H-loop/switch region; other site 520461007724 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 520461007725 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461007726 Walker A/P-loop; other site 520461007727 ATP binding site [chemical binding]; other site 520461007728 Q-loop/lid; other site 520461007729 ABC transporter signature motif; other site 520461007730 Walker B; other site 520461007731 D-loop; other site 520461007732 H-loop/switch region; other site 520461007733 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461007734 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 520461007735 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 520461007736 dimer interface [polypeptide binding]; other site 520461007737 conserved gate region; other site 520461007738 ABC-ATPase subunit interface; other site 520461007739 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 520461007740 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 520461007741 dimer interface [polypeptide binding]; other site 520461007742 conserved gate region; other site 520461007743 putative PBP binding loops; other site 520461007744 ABC-ATPase subunit interface; other site 520461007745 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 520461007746 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 520461007747 peptide binding site [polypeptide binding]; other site 520461007748 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 520461007749 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 520461007750 peptide binding site [polypeptide binding]; other site 520461007751 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007753 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007754 Predicted integral membrane protein [Function unknown]; Region: COG5455 520461007755 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 520461007756 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 520461007757 NAD binding site [chemical binding]; other site 520461007758 putative substrate binding site 2 [chemical binding]; other site 520461007759 putative substrate binding site 1 [chemical binding]; other site 520461007760 active site 520461007761 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 520461007762 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 520461007763 NAD binding site [chemical binding]; other site 520461007764 homodimer interface [polypeptide binding]; other site 520461007765 active site 520461007766 substrate binding site [chemical binding]; other site 520461007767 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 520461007768 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 520461007769 active site 520461007770 Cellulose synthase-like protein; Region: PLN02893 520461007771 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 520461007772 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 520461007773 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 520461007774 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 520461007775 Protein of unknown function (DUF995); Region: DUF995; pfam06191 520461007776 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 520461007777 Protein of unknown function (DUF995); Region: DUF995; pfam06191 520461007778 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 520461007779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007780 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007781 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007782 Helix-turn-helix domain; Region: HTH_38; pfam13936 520461007783 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 520461007784 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 520461007785 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 520461007786 DNA binding site [nucleotide binding] 520461007787 substrate interaction site [chemical binding]; other site 520461007788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 520461007789 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 520461007790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461007791 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007793 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007794 aminotransferase; Provisional; Region: PRK06105 520461007795 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 520461007796 inhibitor-cofactor binding pocket; inhibition site 520461007797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461007798 catalytic residue [active] 520461007799 beta-ketothiolase; Provisional; Region: PRK09051 520461007800 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 520461007801 dimer interface [polypeptide binding]; other site 520461007802 active site 520461007803 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 520461007804 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 520461007805 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 520461007806 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 520461007807 Ligand binding site [chemical binding]; other site 520461007808 Electron transfer flavoprotein domain; Region: ETF; pfam01012 520461007809 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 520461007810 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 520461007811 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 520461007812 hypothetical protein; Validated; Region: PRK07586 520461007813 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 520461007814 PYR/PP interface [polypeptide binding]; other site 520461007815 dimer interface [polypeptide binding]; other site 520461007816 TPP binding site [chemical binding]; other site 520461007817 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 520461007818 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 520461007819 TPP-binding site [chemical binding]; other site 520461007820 dimer interface [polypeptide binding]; other site 520461007821 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 520461007822 CoA binding domain; Region: CoA_binding_2; pfam13380 520461007823 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 520461007824 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 520461007825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 520461007826 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 520461007827 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 520461007828 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461007829 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461007830 active site 520461007831 enoyl-CoA hydratase; Provisional; Region: PRK06688 520461007832 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 520461007833 substrate binding site [chemical binding]; other site 520461007834 oxyanion hole (OAH) forming residues; other site 520461007835 trimer interface [polypeptide binding]; other site 520461007836 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 520461007837 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 520461007838 substrate binding site [chemical binding]; other site 520461007839 oxyanion hole (OAH) forming residues; other site 520461007840 trimer interface [polypeptide binding]; other site 520461007841 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; cl15762 520461007842 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461007843 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 520461007844 dimer interface [polypeptide binding]; other site 520461007845 conserved gate region; other site 520461007846 putative PBP binding loops; other site 520461007847 ABC-ATPase subunit interface; other site 520461007848 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 520461007849 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 520461007850 dimer interface [polypeptide binding]; other site 520461007851 conserved gate region; other site 520461007852 putative PBP binding loops; other site 520461007853 ABC-ATPase subunit interface; other site 520461007854 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461007855 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 520461007856 Walker A/P-loop; other site 520461007857 ATP binding site [chemical binding]; other site 520461007858 Q-loop/lid; other site 520461007859 ABC transporter signature motif; other site 520461007860 Walker B; other site 520461007861 D-loop; other site 520461007862 H-loop/switch region; other site 520461007863 TOBE domain; Region: TOBE_2; pfam08402 520461007864 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 520461007865 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461007866 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 520461007867 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 520461007868 FMN binding site [chemical binding]; other site 520461007869 substrate binding site [chemical binding]; other site 520461007870 putative catalytic residue [active] 520461007871 enoyl-CoA hydratase; Provisional; Region: PRK06688 520461007872 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 520461007873 substrate binding site [chemical binding]; other site 520461007874 oxyanion hole (OAH) forming residues; other site 520461007875 trimer interface [polypeptide binding]; other site 520461007876 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; cl15762 520461007877 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 520461007878 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461007879 NAD binding site [chemical binding]; other site 520461007880 catalytic residues [active] 520461007881 hypothetical protein; Provisional; Region: PRK01184 520461007882 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 520461007883 active site 520461007884 Zn binding site [ion binding]; other site 520461007885 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 520461007886 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007888 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 520461007889 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 520461007890 non-specific DNA binding site [nucleotide binding]; other site 520461007891 salt bridge; other site 520461007892 sequence-specific DNA binding site [nucleotide binding]; other site 520461007893 Domain of unknown function (DUF955); Region: DUF955; cl01076 520461007894 SEC-C motif; Region: SEC-C; pfam02810 520461007895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 520461007896 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 520461007897 Integrase core domain; Region: rve; pfam00665 520461007898 Integrase core domain; Region: rve_3; pfam13683 520461007899 Homeodomain-like domain; Region: HTH_23; pfam13384 520461007900 Winged helix-turn helix; Region: HTH_29; pfam13551 520461007901 Homeodomain-like domain; Region: HTH_32; pfam13565 520461007902 DDE superfamily endonuclease; Region: DDE_3; pfam13358 520461007903 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 520461007904 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 520461007905 PemK-like protein; Region: PemK; cl00995 520461007906 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 520461007907 Transposase; Region: HTH_Tnp_1; cl17663 520461007908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 520461007909 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 520461007910 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461007911 Walker A/P-loop; other site 520461007912 ATP binding site [chemical binding]; other site 520461007913 Q-loop/lid; other site 520461007914 ABC transporter signature motif; other site 520461007915 Walker B; other site 520461007916 D-loop; other site 520461007917 H-loop/switch region; other site 520461007918 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 520461007919 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461007920 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461007921 Walker A/P-loop; other site 520461007922 ATP binding site [chemical binding]; other site 520461007923 Q-loop/lid; other site 520461007924 ABC transporter signature motif; other site 520461007925 Walker B; other site 520461007926 D-loop; other site 520461007927 H-loop/switch region; other site 520461007928 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461007929 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 520461007930 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 520461007931 dimer interface [polypeptide binding]; other site 520461007932 conserved gate region; other site 520461007933 putative PBP binding loops; other site 520461007934 ABC-ATPase subunit interface; other site 520461007935 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461007936 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 520461007937 dimer interface [polypeptide binding]; other site 520461007938 conserved gate region; other site 520461007939 putative PBP binding loops; other site 520461007940 ABC-ATPase subunit interface; other site 520461007941 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 520461007942 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 520461007943 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 520461007944 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 520461007945 active site 520461007946 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 520461007947 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461007948 Homeodomain-like domain; Region: HTH_23; pfam13384 520461007949 Winged helix-turn helix; Region: HTH_29; pfam13551 520461007950 Homeodomain-like domain; Region: HTH_32; pfam13565 520461007951 DDE superfamily endonuclease; Region: DDE_3; pfam13358 520461007952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 520461007953 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461007954 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461007955 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461007956 yecA family protein; Region: ygfB_yecA; TIGR02292 520461007957 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 520461007958 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 520461007959 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 520461007960 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 520461007961 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 520461007962 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 520461007963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 520461007964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 520461007965 Transposase; Region: HTH_Tnp_1; pfam01527 520461007966 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 520461007967 putative deacylase active site [active] 520461007968 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 520461007969 Predicted transcriptional regulator [Transcription]; Region: COG1959 520461007970 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 520461007971 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 520461007972 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 520461007973 heme binding site [chemical binding]; other site 520461007974 ferroxidase pore; other site 520461007975 ferroxidase diiron center [ion binding]; other site 520461007976 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 520461007977 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 520461007978 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 520461007979 FeS/SAM binding site; other site 520461007980 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 520461007981 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 520461007982 putative ligand binding site [chemical binding]; other site 520461007983 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 520461007984 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461007985 TM-ABC transporter signature motif; other site 520461007986 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461007987 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 520461007988 TM-ABC transporter signature motif; other site 520461007989 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 520461007990 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461007991 Walker A/P-loop; other site 520461007992 ATP binding site [chemical binding]; other site 520461007993 Q-loop/lid; other site 520461007994 ABC transporter signature motif; other site 520461007995 Walker B; other site 520461007996 D-loop; other site 520461007997 H-loop/switch region; other site 520461007998 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 520461007999 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 520461008000 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 520461008001 NADP binding site [chemical binding]; other site 520461008002 dimer interface [polypeptide binding]; other site 520461008003 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 520461008004 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 520461008005 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 520461008006 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 520461008007 Uncharacterized conserved protein [Function unknown]; Region: COG3785 520461008008 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 520461008009 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 520461008010 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 520461008011 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 520461008012 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 520461008013 catalytic residues [active] 520461008014 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 520461008015 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461008016 active site 520461008017 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 520461008018 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 520461008019 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 520461008020 ATP binding site [chemical binding]; other site 520461008021 putative Mg++ binding site [ion binding]; other site 520461008022 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 520461008023 nucleotide binding region [chemical binding]; other site 520461008024 ATP-binding site [chemical binding]; other site 520461008025 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 520461008026 Uncharacterized conserved protein [Function unknown]; Region: COG2938 520461008027 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 520461008028 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 520461008029 generic binding surface II; other site 520461008030 ssDNA binding site; other site 520461008031 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 520461008032 ATP binding site [chemical binding]; other site 520461008033 putative Mg++ binding site [ion binding]; other site 520461008034 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 520461008035 nucleotide binding region [chemical binding]; other site 520461008036 ATP-binding site [chemical binding]; other site 520461008037 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 520461008038 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 520461008039 glutaminase active site [active] 520461008040 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 520461008041 dimer interface [polypeptide binding]; other site 520461008042 active site 520461008043 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 520461008044 dimer interface [polypeptide binding]; other site 520461008045 active site 520461008046 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 520461008047 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 520461008048 Substrate binding site; other site 520461008049 Mg++ binding site; other site 520461008050 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 520461008051 active site 520461008052 substrate binding site [chemical binding]; other site 520461008053 CoA binding site [chemical binding]; other site 520461008054 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 520461008055 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 520461008056 Predicted integral membrane protein [Function unknown]; Region: COG0392 520461008057 Uncharacterized conserved protein [Function unknown]; Region: COG2898 520461008058 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 520461008059 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 520461008060 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 520461008061 BA14K-like protein; Region: BA14K; pfam07886 520461008062 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 520461008063 PAS domain; Region: PAS_9; pfam13426 520461008064 putative active site [active] 520461008065 heme pocket [chemical binding]; other site 520461008066 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 520461008067 PAS fold; Region: PAS_3; pfam08447 520461008068 putative active site [active] 520461008069 heme pocket [chemical binding]; other site 520461008070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 520461008071 HWE histidine kinase; Region: HWE_HK; pfam07536 520461008072 lipoate-protein ligase B; Provisional; Region: PRK14341 520461008073 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 520461008074 EamA-like transporter family; Region: EamA; pfam00892 520461008075 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 520461008076 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 520461008077 Mg2+ binding site [ion binding]; other site 520461008078 G-X-G motif; other site 520461008079 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 520461008080 anchoring element; other site 520461008081 dimer interface [polypeptide binding]; other site 520461008082 ATP binding site [chemical binding]; other site 520461008083 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 520461008084 active site 520461008085 metal binding site [ion binding]; metal-binding site 520461008086 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 520461008087 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 520461008088 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 520461008089 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 520461008090 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 520461008091 metal-dependent hydrolase; Provisional; Region: PRK00685 520461008092 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 520461008093 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461008094 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461008095 active site 520461008096 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 520461008097 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 520461008098 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 520461008099 dihydroorotase; Validated; Region: PRK09059 520461008100 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 520461008101 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 520461008102 active site 520461008103 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 520461008104 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 520461008105 DNA protecting protein DprA; Region: dprA; TIGR00732 520461008106 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 520461008107 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 520461008108 active site 520461008109 interdomain interaction site; other site 520461008110 putative metal-binding site [ion binding]; other site 520461008111 nucleotide binding site [chemical binding]; other site 520461008112 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 520461008113 domain I; other site 520461008114 DNA binding groove [nucleotide binding] 520461008115 phosphate binding site [ion binding]; other site 520461008116 domain II; other site 520461008117 domain III; other site 520461008118 nucleotide binding site [chemical binding]; other site 520461008119 catalytic site [active] 520461008120 domain IV; other site 520461008121 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 520461008122 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 520461008123 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 520461008124 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 520461008125 ribonuclease R; Region: RNase_R; TIGR02063 520461008126 RNB domain; Region: RNB; pfam00773 520461008127 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 520461008128 RNA binding site [nucleotide binding]; other site 520461008129 hypothetical protein; Provisional; Region: PRK05978 520461008130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461008131 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 520461008132 putative substrate translocation pore; other site 520461008133 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 520461008134 response regulator PleD; Reviewed; Region: pleD; PRK09581 520461008135 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 520461008136 active site 520461008137 phosphorylation site [posttranslational modification] 520461008138 intermolecular recognition site; other site 520461008139 dimerization interface [polypeptide binding]; other site 520461008140 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 520461008141 active site 520461008142 phosphorylation site [posttranslational modification] 520461008143 intermolecular recognition site; other site 520461008144 dimerization interface [polypeptide binding]; other site 520461008145 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461008146 metal binding site [ion binding]; metal-binding site 520461008147 active site 520461008148 I-site; other site 520461008149 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 520461008150 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 520461008151 active site 520461008152 phosphorylation site [posttranslational modification] 520461008153 intermolecular recognition site; other site 520461008154 dimerization interface [polypeptide binding]; other site 520461008155 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 520461008156 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 520461008157 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 520461008158 DNA polymerase IV; Provisional; Region: PRK02794 520461008159 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 520461008160 active site 520461008161 DNA binding site [nucleotide binding] 520461008162 Uncharacterized conserved protein [Function unknown]; Region: COG3391 520461008163 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 520461008164 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461008165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461008166 metal binding site [ion binding]; metal-binding site 520461008167 active site 520461008168 I-site; other site 520461008169 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 520461008170 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 520461008171 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 520461008172 active site 520461008173 catalytic site [active] 520461008174 substrate binding site [chemical binding]; other site 520461008175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461008176 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 520461008177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461008178 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 520461008179 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461008180 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461008181 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 520461008182 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 520461008183 substrate binding pocket [chemical binding]; other site 520461008184 membrane-bound complex binding site; other site 520461008185 hinge residues; other site 520461008186 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 520461008187 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 520461008188 substrate binding pocket [chemical binding]; other site 520461008189 membrane-bound complex binding site; other site 520461008190 hinge residues; other site 520461008191 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 520461008192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461008193 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 520461008194 putative DNA binding site [nucleotide binding]; other site 520461008195 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461008196 putative Zn2+ binding site [ion binding]; other site 520461008197 AsnC family; Region: AsnC_trans_reg; pfam01037 520461008198 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 520461008199 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 520461008200 active site 520461008201 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 520461008202 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 520461008203 dimer interface [polypeptide binding]; other site 520461008204 active site 520461008205 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 520461008206 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 520461008207 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 520461008208 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 520461008209 Bacterial transcriptional regulator; Region: IclR; pfam01614 520461008210 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 520461008211 Cupin domain; Region: Cupin_2; cl17218 520461008212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461008213 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 520461008214 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 520461008215 hypothetical protein; Provisional; Region: PRK07236 520461008216 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 520461008217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461008218 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 520461008219 dimerization interface [polypeptide binding]; other site 520461008220 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 520461008221 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 520461008222 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 520461008223 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 520461008224 active site 520461008225 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 520461008226 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 520461008227 heterodimer interface [polypeptide binding]; other site 520461008228 active site 520461008229 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 520461008230 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 520461008231 tetramer interface [polypeptide binding]; other site 520461008232 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461008233 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 520461008234 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461008235 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 520461008236 TM-ABC transporter signature motif; other site 520461008237 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461008238 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461008239 Walker A/P-loop; other site 520461008240 ATP binding site [chemical binding]; other site 520461008241 Q-loop/lid; other site 520461008242 ABC transporter signature motif; other site 520461008243 Walker B; other site 520461008244 D-loop; other site 520461008245 H-loop/switch region; other site 520461008246 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461008247 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461008248 Walker A/P-loop; other site 520461008249 ATP binding site [chemical binding]; other site 520461008250 Q-loop/lid; other site 520461008251 ABC transporter signature motif; other site 520461008252 Walker B; other site 520461008253 D-loop; other site 520461008254 H-loop/switch region; other site 520461008255 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 520461008256 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 520461008257 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 520461008258 active site 520461008259 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 520461008260 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 520461008261 active site 520461008262 dimer interface [polypeptide binding]; other site 520461008263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461008264 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461008265 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461008266 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 520461008267 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461008268 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 520461008269 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 520461008270 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461008271 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 520461008272 dimer interface [polypeptide binding]; other site 520461008273 conserved gate region; other site 520461008274 ABC-ATPase subunit interface; other site 520461008275 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 520461008276 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 520461008277 Walker A/P-loop; other site 520461008278 ATP binding site [chemical binding]; other site 520461008279 Q-loop/lid; other site 520461008280 ABC transporter signature motif; other site 520461008281 Walker B; other site 520461008282 D-loop; other site 520461008283 H-loop/switch region; other site 520461008284 TOBE domain; Region: TOBE_2; pfam08402 520461008285 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 520461008286 transmembrane helices; other site 520461008287 TrkA-C domain; Region: TrkA_C; pfam02080 520461008288 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 520461008289 TrkA-C domain; Region: TrkA_C; pfam02080 520461008290 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 520461008291 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 520461008292 nucleoside/Zn binding site; other site 520461008293 dimer interface [polypeptide binding]; other site 520461008294 catalytic motif [active] 520461008295 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 520461008296 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 520461008297 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 520461008298 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 520461008299 EamA-like transporter family; Region: EamA; pfam00892 520461008300 aminotransferase; Provisional; Region: PRK13356 520461008301 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 520461008302 homodimer interface [polypeptide binding]; other site 520461008303 substrate-cofactor binding pocket; other site 520461008304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461008305 catalytic residue [active] 520461008306 Predicted permeases [General function prediction only]; Region: COG0730 520461008307 PrgI family protein; Region: PrgI; pfam12666 520461008308 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 520461008309 FAD binding domain; Region: FAD_binding_2; pfam00890 520461008310 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 520461008311 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 520461008312 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461008313 NAD binding site [chemical binding]; other site 520461008314 catalytic residues [active] 520461008315 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 520461008316 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 520461008317 putative ligand binding residues [chemical binding]; other site 520461008318 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 520461008319 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 520461008320 ABC-ATPase subunit interface; other site 520461008321 dimer interface [polypeptide binding]; other site 520461008322 putative PBP binding regions; other site 520461008323 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 520461008324 ABC-ATPase subunit interface; other site 520461008325 dimer interface [polypeptide binding]; other site 520461008326 putative PBP binding regions; other site 520461008327 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 520461008328 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 520461008329 Walker A/P-loop; other site 520461008330 ATP binding site [chemical binding]; other site 520461008331 Q-loop/lid; other site 520461008332 ABC transporter signature motif; other site 520461008333 Walker B; other site 520461008334 D-loop; other site 520461008335 H-loop/switch region; other site 520461008336 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 520461008337 5-oxoprolinase; Region: PLN02666 520461008338 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 520461008339 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 520461008340 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 520461008341 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 520461008342 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 520461008343 substrate binding pocket [chemical binding]; other site 520461008344 membrane-bound complex binding site; other site 520461008345 hinge residues; other site 520461008346 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 520461008347 dimer interface [polypeptide binding]; other site 520461008348 conserved gate region; other site 520461008349 putative PBP binding loops; other site 520461008350 ABC-ATPase subunit interface; other site 520461008351 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 520461008352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461008353 Walker A/P-loop; other site 520461008354 ATP binding site [chemical binding]; other site 520461008355 Q-loop/lid; other site 520461008356 ABC transporter signature motif; other site 520461008357 Walker B; other site 520461008358 D-loop; other site 520461008359 H-loop/switch region; other site 520461008360 exopolyphosphatase; Region: exo_poly_only; TIGR03706 520461008361 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 520461008362 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 520461008363 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 520461008364 S-adenosylmethionine binding site [chemical binding]; other site 520461008365 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 520461008366 putative transporter; Provisional; Region: PRK10504 520461008367 putative substrate translocation pore; other site 520461008368 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 520461008369 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 520461008370 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 520461008371 Walker A/P-loop; other site 520461008372 ATP binding site [chemical binding]; other site 520461008373 Q-loop/lid; other site 520461008374 ABC transporter signature motif; other site 520461008375 Walker B; other site 520461008376 D-loop; other site 520461008377 H-loop/switch region; other site 520461008378 TOBE domain; Region: TOBE_2; pfam08402 520461008379 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461008380 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 520461008381 dimer interface [polypeptide binding]; other site 520461008382 conserved gate region; other site 520461008383 putative PBP binding loops; other site 520461008384 ABC-ATPase subunit interface; other site 520461008385 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 520461008386 dimer interface [polypeptide binding]; other site 520461008387 conserved gate region; other site 520461008388 putative PBP binding loops; other site 520461008389 ABC-ATPase subunit interface; other site 520461008390 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 520461008391 active site 520461008392 homopentamer interface [polypeptide binding]; other site 520461008393 dimer interface [polypeptide binding]; other site 520461008394 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 520461008395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 520461008396 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 520461008397 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 520461008398 dimer interface [polypeptide binding]; other site 520461008399 conserved gate region; other site 520461008400 putative PBP binding loops; other site 520461008401 ABC-ATPase subunit interface; other site 520461008402 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 520461008403 dimer interface [polypeptide binding]; other site 520461008404 conserved gate region; other site 520461008405 putative PBP binding loops; other site 520461008406 ABC-ATPase subunit interface; other site 520461008407 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 520461008408 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 520461008409 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461008410 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 520461008411 Walker A/P-loop; other site 520461008412 ATP binding site [chemical binding]; other site 520461008413 Q-loop/lid; other site 520461008414 ABC transporter signature motif; other site 520461008415 Walker B; other site 520461008416 D-loop; other site 520461008417 H-loop/switch region; other site 520461008418 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 520461008419 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461008420 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 520461008421 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 520461008422 E-class dimer interface [polypeptide binding]; other site 520461008423 P-class dimer interface [polypeptide binding]; other site 520461008424 active site 520461008425 Cu2+ binding site [ion binding]; other site 520461008426 Zn2+ binding site [ion binding]; other site 520461008427 multicopper oxidase; Provisional; Region: PRK10965 520461008428 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 520461008429 Multicopper oxidase; Region: Cu-oxidase; pfam00394 520461008430 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 520461008431 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 520461008432 metabolite-proton symporter; Region: 2A0106; TIGR00883 520461008433 putative substrate translocation pore; other site 520461008434 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 520461008435 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 520461008436 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 520461008437 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 520461008438 dimer interface [polypeptide binding]; other site 520461008439 decamer (pentamer of dimers) interface [polypeptide binding]; other site 520461008440 catalytic triad [active] 520461008441 peroxidatic and resolving cysteines [active] 520461008442 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 520461008443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461008444 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 520461008445 dimerization interface [polypeptide binding]; other site 520461008446 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 520461008447 HTH DNA binding domain; Region: HTH_13; pfam11972 520461008448 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 520461008449 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 520461008450 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 520461008451 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 520461008452 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 520461008453 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 520461008454 putative active site [active] 520461008455 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 520461008456 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 520461008457 PYR/PP interface [polypeptide binding]; other site 520461008458 dimer interface [polypeptide binding]; other site 520461008459 TPP binding site [chemical binding]; other site 520461008460 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 520461008461 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 520461008462 TPP-binding site [chemical binding]; other site 520461008463 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 520461008464 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 520461008465 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 520461008466 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 520461008467 active site 520461008468 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461008469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461008470 Walker A/P-loop; other site 520461008471 ATP binding site [chemical binding]; other site 520461008472 Q-loop/lid; other site 520461008473 ABC transporter signature motif; other site 520461008474 Walker B; other site 520461008475 D-loop; other site 520461008476 H-loop/switch region; other site 520461008477 TOBE domain; Region: TOBE_2; pfam08402 520461008478 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 520461008479 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 520461008480 dimer interface [polypeptide binding]; other site 520461008481 conserved gate region; other site 520461008482 putative PBP binding loops; other site 520461008483 ABC-ATPase subunit interface; other site 520461008484 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 520461008485 dimer interface [polypeptide binding]; other site 520461008486 conserved gate region; other site 520461008487 putative PBP binding loops; other site 520461008488 ABC-ATPase subunit interface; other site 520461008489 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 520461008490 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 520461008491 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 520461008492 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 520461008493 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 520461008494 Glutamate binding site [chemical binding]; other site 520461008495 NAD binding site [chemical binding]; other site 520461008496 catalytic residues [active] 520461008497 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 520461008498 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 520461008499 putative DNA binding site [nucleotide binding]; other site 520461008500 putative Zn2+ binding site [ion binding]; other site 520461008501 AsnC family; Region: AsnC_trans_reg; pfam01037 520461008502 glycine dehydrogenase; Provisional; Region: PRK05367 520461008503 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 520461008504 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461008505 catalytic residue [active] 520461008506 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 520461008507 tetramer interface [polypeptide binding]; other site 520461008508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461008509 catalytic residue [active] 520461008510 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 520461008511 lipoyl attachment site [posttranslational modification]; other site 520461008512 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 520461008513 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 520461008514 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 520461008515 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 520461008516 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 520461008517 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461008518 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 520461008519 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 520461008520 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 520461008521 putative active site [active] 520461008522 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 520461008523 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 520461008524 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 520461008525 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 520461008526 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 520461008527 putative active site [active] 520461008528 metal binding site [ion binding]; metal-binding site 520461008529 BA14K-like protein; Region: BA14K; pfam07886 520461008530 EamA-like transporter family; Region: EamA; pfam00892 520461008531 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 520461008532 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 520461008533 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 520461008534 dimer interface [polypeptide binding]; other site 520461008535 conserved gate region; other site 520461008536 putative PBP binding loops; other site 520461008537 ABC-ATPase subunit interface; other site 520461008538 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 520461008539 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 520461008540 Walker A/P-loop; other site 520461008541 ATP binding site [chemical binding]; other site 520461008542 Q-loop/lid; other site 520461008543 ABC transporter signature motif; other site 520461008544 Walker B; other site 520461008545 D-loop; other site 520461008546 H-loop/switch region; other site 520461008547 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 520461008548 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 520461008549 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 520461008550 dimer interface [polypeptide binding]; other site 520461008551 active site 520461008552 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 520461008553 substrate binding site [chemical binding]; other site 520461008554 catalytic residue [active] 520461008555 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 520461008556 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 520461008557 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 520461008558 putative active site [active] 520461008559 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 520461008560 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 520461008561 Walker A/P-loop; other site 520461008562 ATP binding site [chemical binding]; other site 520461008563 Q-loop/lid; other site 520461008564 ABC transporter signature motif; other site 520461008565 Walker B; other site 520461008566 D-loop; other site 520461008567 H-loop/switch region; other site 520461008568 TOBE domain; Region: TOBE; pfam03459 520461008569 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 520461008570 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 520461008571 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 520461008572 dimer interface [polypeptide binding]; other site 520461008573 conserved gate region; other site 520461008574 putative PBP binding loops; other site 520461008575 ABC-ATPase subunit interface; other site 520461008576 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461008577 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 520461008578 dimer interface [polypeptide binding]; other site 520461008579 conserved gate region; other site 520461008580 putative PBP binding loops; other site 520461008581 ABC-ATPase subunit interface; other site 520461008582 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 520461008583 homotrimer interaction site [polypeptide binding]; other site 520461008584 putative active site [active] 520461008585 Uncharacterized conserved protein [Function unknown]; Region: COG5476 520461008586 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 520461008587 MlrC C-terminus; Region: MlrC_C; pfam07171 520461008588 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 520461008589 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 520461008590 Walker A/P-loop; other site 520461008591 ATP binding site [chemical binding]; other site 520461008592 Q-loop/lid; other site 520461008593 ABC transporter signature motif; other site 520461008594 Walker B; other site 520461008595 D-loop; other site 520461008596 H-loop/switch region; other site 520461008597 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 520461008598 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 520461008599 ABC-ATPase subunit interface; other site 520461008600 dimer interface [polypeptide binding]; other site 520461008601 putative PBP binding regions; other site 520461008602 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 520461008603 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 520461008604 putative ligand binding residues [chemical binding]; other site 520461008605 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 520461008606 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461008607 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461008608 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 520461008609 Fusaric acid resistance protein family; Region: FUSC; pfam04632 520461008610 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 520461008611 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 520461008612 MarR family; Region: MarR_2; pfam12802 520461008613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 520461008614 RNA methyltransferase, RsmE family; Region: TIGR00046 520461008615 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 520461008616 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 520461008617 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 520461008618 generic binding surface II; other site 520461008619 generic binding surface I; other site 520461008620 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461008621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461008622 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 520461008623 dimerization interface [polypeptide binding]; other site 520461008624 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 520461008625 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 520461008626 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 520461008627 hypothetical protein; Reviewed; Region: PRK12275 520461008628 four helix bundle protein; Region: TIGR02436 520461008629 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 520461008630 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 520461008631 Transcriptional regulators [Transcription]; Region: MarR; COG1846 520461008632 Hint domain; Region: Hint_2; pfam13403 520461008633 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461008634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 520461008635 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 520461008636 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461008637 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 520461008638 putative DNA binding site [nucleotide binding]; other site 520461008639 putative Zn2+ binding site [ion binding]; other site 520461008640 AsnC family; Region: AsnC_trans_reg; pfam01037 520461008641 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 520461008642 Predicted membrane protein [Function unknown]; Region: COG4541 520461008643 drug efflux system protein MdtG; Provisional; Region: PRK09874 520461008644 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 520461008645 putative substrate translocation pore; other site 520461008646 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 520461008647 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 520461008648 putative NAD(P) binding site [chemical binding]; other site 520461008649 active site 520461008650 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 520461008651 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 520461008652 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 520461008653 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 520461008654 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 520461008655 putative active site [active] 520461008656 phosphogluconate dehydratase; Validated; Region: PRK09054 520461008657 6-phosphogluconate dehydratase; Region: edd; TIGR01196 520461008658 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 520461008659 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 520461008660 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 520461008661 homodimer interface [polypeptide binding]; other site 520461008662 NADP binding site [chemical binding]; other site 520461008663 substrate binding site [chemical binding]; other site 520461008664 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 520461008665 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 520461008666 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 520461008667 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461008668 Walker A/P-loop; other site 520461008669 ATP binding site [chemical binding]; other site 520461008670 Q-loop/lid; other site 520461008671 ABC transporter signature motif; other site 520461008672 Walker B; other site 520461008673 D-loop; other site 520461008674 H-loop/switch region; other site 520461008675 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461008676 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 520461008677 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461008678 Walker A/P-loop; other site 520461008679 ATP binding site [chemical binding]; other site 520461008680 Q-loop/lid; other site 520461008681 ABC transporter signature motif; other site 520461008682 Walker B; other site 520461008683 D-loop; other site 520461008684 H-loop/switch region; other site 520461008685 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 520461008686 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 520461008687 dimer interface [polypeptide binding]; other site 520461008688 conserved gate region; other site 520461008689 putative PBP binding loops; other site 520461008690 ABC-ATPase subunit interface; other site 520461008691 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461008692 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 520461008693 dimer interface [polypeptide binding]; other site 520461008694 conserved gate region; other site 520461008695 putative PBP binding loops; other site 520461008696 ABC-ATPase subunit interface; other site 520461008697 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461008698 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 520461008699 Eukaryotic translation initiation factor 3 subunit 8 N-terminus; Region: eIF-3c_N; pfam05470 520461008700 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 520461008701 active site clefts [active] 520461008702 zinc binding site [ion binding]; other site 520461008703 dimer interface [polypeptide binding]; other site 520461008704 tellurite resistance protein terB; Region: terB; cd07176 520461008705 putative metal binding site [ion binding]; other site 520461008706 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 520461008707 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 520461008708 active site 520461008709 nucleotide binding site [chemical binding]; other site 520461008710 HIGH motif; other site 520461008711 KMSKS motif; other site 520461008712 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 520461008713 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 520461008714 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 520461008715 substrate binding site [chemical binding]; other site 520461008716 oxyanion hole (OAH) forming residues; other site 520461008717 trimer interface [polypeptide binding]; other site 520461008718 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 520461008719 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 520461008720 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 520461008721 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 520461008722 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 520461008723 FAD binding site [chemical binding]; other site 520461008724 substrate binding site [chemical binding]; other site 520461008725 catalytic residues [active] 520461008726 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 520461008727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461008728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461008729 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 520461008730 putative dimerization interface [polypeptide binding]; other site 520461008731 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461008732 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461008733 active site 520461008734 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 520461008735 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461008736 Walker A/P-loop; other site 520461008737 ATP binding site [chemical binding]; other site 520461008738 Q-loop/lid; other site 520461008739 ABC transporter signature motif; other site 520461008740 Walker B; other site 520461008741 D-loop; other site 520461008742 H-loop/switch region; other site 520461008743 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 520461008744 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461008745 Walker A/P-loop; other site 520461008746 ATP binding site [chemical binding]; other site 520461008747 Q-loop/lid; other site 520461008748 ABC transporter signature motif; other site 520461008749 Walker B; other site 520461008750 D-loop; other site 520461008751 H-loop/switch region; other site 520461008752 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 520461008753 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 520461008754 dimer interface [polypeptide binding]; other site 520461008755 conserved gate region; other site 520461008756 putative PBP binding loops; other site 520461008757 ABC-ATPase subunit interface; other site 520461008758 nickel transporter permease NikB; Provisional; Region: PRK10352 520461008759 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 520461008760 dimer interface [polypeptide binding]; other site 520461008761 conserved gate region; other site 520461008762 putative PBP binding loops; other site 520461008763 ABC-ATPase subunit interface; other site 520461008764 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461008765 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 520461008766 substrate binding site [chemical binding]; other site 520461008767 nickel responsive regulator; Provisional; Region: PRK02967 520461008768 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 520461008769 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 520461008770 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 520461008771 galactarate dehydratase; Region: galactar-dH20; TIGR03248 520461008772 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 520461008773 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461008774 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 520461008775 dimer interface [polypeptide binding]; other site 520461008776 conserved gate region; other site 520461008777 putative PBP binding loops; other site 520461008778 ABC-ATPase subunit interface; other site 520461008779 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 520461008780 putative PBP binding loops; other site 520461008781 ABC-ATPase subunit interface; other site 520461008782 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 520461008783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461008784 Walker A/P-loop; other site 520461008785 ATP binding site [chemical binding]; other site 520461008786 Q-loop/lid; other site 520461008787 ABC transporter signature motif; other site 520461008788 Walker B; other site 520461008789 D-loop; other site 520461008790 H-loop/switch region; other site 520461008791 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 520461008792 hypothetical protein; Provisional; Region: PRK11622 520461008793 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 520461008794 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 520461008795 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 520461008796 glucuronate isomerase; Reviewed; Region: PRK02925 520461008797 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 520461008798 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461008799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461008800 DNA-binding site [nucleotide binding]; DNA binding site 520461008801 FCD domain; Region: FCD; pfam07729 520461008802 mannonate dehydratase; Region: uxuA; TIGR00695 520461008803 mannonate dehydratase; Provisional; Region: PRK03906 520461008804 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 520461008805 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461008806 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461008807 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461008808 camphor resistance protein CrcB; Provisional; Region: PRK14233 520461008809 camphor resistance protein CrcB; Provisional; Region: PRK14225 520461008810 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 520461008811 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 520461008812 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 520461008813 DNA binding residues [nucleotide binding] 520461008814 putative dimer interface [polypeptide binding]; other site 520461008815 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 520461008816 Sel1-like repeats; Region: SEL1; smart00671 520461008817 Sel1-like repeats; Region: SEL1; smart00671 520461008818 Sel1-like repeats; Region: SEL1; smart00671 520461008819 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 520461008820 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 520461008821 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 520461008822 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 520461008823 putative active site [active] 520461008824 putative metal binding site [ion binding]; other site 520461008825 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 520461008826 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 520461008827 ATP binding site [chemical binding]; other site 520461008828 putative Mg++ binding site [ion binding]; other site 520461008829 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 520461008830 nucleotide binding region [chemical binding]; other site 520461008831 ATP-binding site [chemical binding]; other site 520461008832 DEAD/H associated; Region: DEAD_assoc; pfam08494 520461008833 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 520461008834 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 520461008835 FMN binding site [chemical binding]; other site 520461008836 substrate binding site [chemical binding]; other site 520461008837 putative catalytic residue [active] 520461008838 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 520461008839 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 520461008840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 520461008841 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 520461008842 HsdM N-terminal domain; Region: HsdM_N; pfam12161 520461008843 Methyltransferase domain; Region: Methyltransf_26; pfam13659 520461008844 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 520461008845 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 520461008846 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 520461008847 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 520461008848 ATP binding site [chemical binding]; other site 520461008849 putative Mg++ binding site [ion binding]; other site 520461008850 helicase superfamily c-terminal domain; Region: HELICc; smart00490 520461008851 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 520461008852 Protein of unknown function DUF45; Region: DUF45; pfam01863 520461008853 Protein of unknown function DUF91; Region: DUF91; cl00709 520461008854 Uncharacterized conserved protein [Function unknown]; Region: COG3586 520461008855 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 520461008856 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 520461008857 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 520461008858 inhibitor-cofactor binding pocket; inhibition site 520461008859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461008860 catalytic residue [active] 520461008861 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 520461008862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 520461008863 NAD(P) binding site [chemical binding]; other site 520461008864 active site 520461008865 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 520461008866 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 520461008867 FAD binding domain; Region: FAD_binding_4; pfam01565 520461008868 hypothetical protein; Validated; Region: PRK08238 520461008869 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 520461008870 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 520461008871 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 520461008872 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 520461008873 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 520461008874 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 520461008875 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 520461008876 ligand binding site [chemical binding]; other site 520461008877 dimerization interface [polypeptide binding]; other site 520461008878 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 520461008879 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461008880 Walker A/P-loop; other site 520461008881 ATP binding site [chemical binding]; other site 520461008882 Q-loop/lid; other site 520461008883 ABC transporter signature motif; other site 520461008884 Walker B; other site 520461008885 D-loop; other site 520461008886 H-loop/switch region; other site 520461008887 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 520461008888 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 520461008889 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 520461008890 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 520461008891 putative N- and C-terminal domain interface [polypeptide binding]; other site 520461008892 putative active site [active] 520461008893 MgATP binding site [chemical binding]; other site 520461008894 catalytic site [active] 520461008895 metal binding site [ion binding]; metal-binding site 520461008896 putative xylulose binding site [chemical binding]; other site 520461008897 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 520461008898 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461008899 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 520461008900 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 520461008901 PCI domain; Region: PCI; cl02111 520461008902 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 520461008903 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 520461008904 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 520461008905 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 520461008906 triosephosphate isomerase; Provisional; Region: PRK14565 520461008907 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 520461008908 substrate binding site [chemical binding]; other site 520461008909 dimer interface [polypeptide binding]; other site 520461008910 catalytic triad [active] 520461008911 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 520461008912 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 520461008913 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 520461008914 intersubunit interface [polypeptide binding]; other site 520461008915 active site 520461008916 zinc binding site [ion binding]; other site 520461008917 Na+ binding site [ion binding]; other site 520461008918 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 520461008919 AMP binding site [chemical binding]; other site 520461008920 metal binding site [ion binding]; metal-binding site 520461008921 active site 520461008922 Uncharacterized conserved protein [Function unknown]; Region: COG1739 520461008923 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 520461008924 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 520461008925 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 520461008926 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 520461008927 G1 box; other site 520461008928 putative GEF interaction site [polypeptide binding]; other site 520461008929 GTP/Mg2+ binding site [chemical binding]; other site 520461008930 Switch I region; other site 520461008931 G2 box; other site 520461008932 G3 box; other site 520461008933 Switch II region; other site 520461008934 G4 box; other site 520461008935 G5 box; other site 520461008936 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 520461008937 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 520461008938 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 520461008939 MgtE intracellular N domain; Region: MgtE_N; pfam03448 520461008940 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 520461008941 Divalent cation transporter; Region: MgtE; pfam01769 520461008942 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 520461008943 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 520461008944 active site 520461008945 Zn binding site [ion binding]; other site 520461008946 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 520461008947 dimer interface [polypeptide binding]; other site 520461008948 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461008949 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 520461008950 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 520461008951 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 520461008952 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 520461008953 substrate binding site [chemical binding]; other site 520461008954 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 520461008955 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 520461008956 Transcriptional regulators [Transcription]; Region: MarR; COG1846 520461008957 MarR family; Region: MarR; pfam01047 520461008958 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 520461008959 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 520461008960 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 520461008961 putative substrate translocation pore; other site 520461008962 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 520461008963 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 520461008964 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 520461008965 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 520461008966 DNA binding site [nucleotide binding] 520461008967 active site 520461008968 tartrate dehydrogenase; Region: TTC; TIGR02089 520461008969 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 520461008970 Uncharacterized conserved protein [Function unknown]; Region: COG2835 520461008971 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 520461008972 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 520461008973 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 520461008974 catalytic residues [active] 520461008975 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 520461008976 putative deacylase active site [active] 520461008977 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 520461008978 apolar tunnel; other site 520461008979 heme binding site [chemical binding]; other site 520461008980 dimerization interface [polypeptide binding]; other site 520461008981 ornithine cyclodeaminase; Validated; Region: PRK07589 520461008982 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 520461008983 Arginase family; Region: Arginase; cd09989 520461008984 agmatinase; Region: agmatinase; TIGR01230 520461008985 active site 520461008986 Mn binding site [ion binding]; other site 520461008987 oligomer interface [polypeptide binding]; other site 520461008988 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461008989 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 520461008990 AsnC family; Region: AsnC_trans_reg; pfam01037 520461008991 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 520461008992 dimerization interface [polypeptide binding]; other site 520461008993 putative DNA binding site [nucleotide binding]; other site 520461008994 putative Zn2+ binding site [ion binding]; other site 520461008995 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 520461008996 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 520461008997 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 520461008998 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 520461008999 RNA binding site [nucleotide binding]; other site 520461009000 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 520461009001 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 520461009002 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 520461009003 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 520461009004 putative Zn2+ binding site [ion binding]; other site 520461009005 putative DNA binding site [nucleotide binding]; other site 520461009006 dimerization interface [polypeptide binding]; other site 520461009007 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 520461009008 dimerization interface [polypeptide binding]; other site 520461009009 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 520461009010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 520461009011 aldehyde dehydrogenase family 7 member; Region: PLN02315 520461009012 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 520461009013 tetrameric interface [polypeptide binding]; other site 520461009014 NAD binding site [chemical binding]; other site 520461009015 catalytic residues [active] 520461009016 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 520461009017 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 520461009018 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 520461009019 putative active site [active] 520461009020 putative substrate binding site [chemical binding]; other site 520461009021 putative cosubstrate binding site; other site 520461009022 catalytic site [active] 520461009023 hypothetical protein; Provisional; Region: PRK02947 520461009024 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 520461009025 putative active site [active] 520461009026 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 520461009027 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 520461009028 active site 520461009029 dimer interface [polypeptide binding]; other site 520461009030 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 520461009031 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 520461009032 dimer interface [polypeptide binding]; other site 520461009033 active site 520461009034 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 520461009035 dimer interface [polypeptide binding]; other site 520461009036 active site 520461009037 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 520461009038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461009039 DNA-binding site [nucleotide binding]; DNA binding site 520461009040 UTRA domain; Region: UTRA; pfam07702 520461009041 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 520461009042 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461009043 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461009044 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461009045 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 520461009046 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 520461009047 HlyD family secretion protein; Region: HlyD_3; pfam13437 520461009048 putative membrane fusion protein; Region: TIGR02828 520461009049 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 520461009050 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 520461009051 putative molybdopterin cofactor binding site [chemical binding]; other site 520461009052 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 520461009053 putative molybdopterin cofactor binding site; other site 520461009054 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 520461009055 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 520461009056 phosphate binding site [ion binding]; other site 520461009057 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 520461009058 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461009059 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 520461009060 putative DNA binding site [nucleotide binding]; other site 520461009061 putative Zn2+ binding site [ion binding]; other site 520461009062 AsnC family; Region: AsnC_trans_reg; pfam01037 520461009063 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 520461009064 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 520461009065 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461009066 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 520461009067 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 520461009068 non-specific DNA binding site [nucleotide binding]; other site 520461009069 salt bridge; other site 520461009070 sequence-specific DNA binding site [nucleotide binding]; other site 520461009071 Cupin domain; Region: Cupin_2; pfam07883 520461009072 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 520461009073 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 520461009074 inhibitor-cofactor binding pocket; inhibition site 520461009075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461009076 catalytic residue [active] 520461009077 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 520461009078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461009079 DNA-binding site [nucleotide binding]; DNA binding site 520461009080 UTRA domain; Region: UTRA; pfam07702 520461009081 imidazolonepropionase; Validated; Region: PRK09356 520461009082 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 520461009083 active site 520461009084 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 520461009085 active sites [active] 520461009086 tetramer interface [polypeptide binding]; other site 520461009087 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 520461009088 urocanate hydratase; Provisional; Region: PRK05414 520461009089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 520461009090 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 520461009091 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 520461009092 homodimer interface [polypeptide binding]; other site 520461009093 substrate-cofactor binding pocket; other site 520461009094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461009095 catalytic residue [active] 520461009096 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 520461009097 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 520461009098 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461009099 TM-ABC transporter signature motif; other site 520461009100 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 520461009101 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461009102 Walker A/P-loop; other site 520461009103 ATP binding site [chemical binding]; other site 520461009104 Q-loop/lid; other site 520461009105 ABC transporter signature motif; other site 520461009106 Walker B; other site 520461009107 D-loop; other site 520461009108 H-loop/switch region; other site 520461009109 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 520461009110 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 520461009111 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 520461009112 putative ligand binding site [chemical binding]; other site 520461009113 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 520461009114 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 520461009115 active site 520461009116 intersubunit interface [polypeptide binding]; other site 520461009117 catalytic residue [active] 520461009118 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 520461009119 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 520461009120 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 520461009121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 520461009122 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 520461009123 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 520461009124 thiamine pyrophosphate protein; Validated; Region: PRK08199 520461009125 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 520461009126 PYR/PP interface [polypeptide binding]; other site 520461009127 dimer interface [polypeptide binding]; other site 520461009128 TPP binding site [chemical binding]; other site 520461009129 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 520461009130 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 520461009131 TPP-binding site [chemical binding]; other site 520461009132 D-aminopeptidase; Reviewed; Region: PRK13128 520461009133 Beta-lactamase; Region: Beta-lactamase; pfam00144 520461009134 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 520461009135 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 520461009136 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 520461009137 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 520461009138 substrate binding pocket [chemical binding]; other site 520461009139 membrane-bound complex binding site; other site 520461009140 hinge residues; other site 520461009141 hypothetical protein; Provisional; Region: PRK06148 520461009142 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 520461009143 active site 520461009144 substrate binding site [chemical binding]; other site 520461009145 ATP binding site [chemical binding]; other site 520461009146 Peptidase family M23; Region: Peptidase_M23; pfam01551 520461009147 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 520461009148 inhibitor-cofactor binding pocket; inhibition site 520461009149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461009150 catalytic residue [active] 520461009151 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 520461009152 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 520461009153 AsnC family; Region: AsnC_trans_reg; pfam01037 520461009154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 520461009155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 520461009156 LysR substrate binding domain; Region: LysR_substrate; pfam03466 520461009157 dimerization interface [polypeptide binding]; other site 520461009158 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461009159 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461009160 Walker A/P-loop; other site 520461009161 ATP binding site [chemical binding]; other site 520461009162 Q-loop/lid; other site 520461009163 ABC transporter signature motif; other site 520461009164 Walker B; other site 520461009165 D-loop; other site 520461009166 H-loop/switch region; other site 520461009167 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461009168 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461009169 Walker A/P-loop; other site 520461009170 ATP binding site [chemical binding]; other site 520461009171 Q-loop/lid; other site 520461009172 ABC transporter signature motif; other site 520461009173 Walker B; other site 520461009174 D-loop; other site 520461009175 H-loop/switch region; other site 520461009176 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 520461009177 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461009178 TM-ABC transporter signature motif; other site 520461009179 choline dehydrogenase; Validated; Region: PRK02106 520461009180 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 520461009181 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 520461009182 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 520461009183 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 520461009184 dimer interface [polypeptide binding]; other site 520461009185 conserved gate region; other site 520461009186 ABC-ATPase subunit interface; other site 520461009187 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 520461009188 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461009189 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 520461009190 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 520461009191 TPR motif; other site 520461009192 binding surface 520461009193 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 520461009194 binding surface 520461009195 TPR motif; other site 520461009196 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 520461009197 binding surface 520461009198 TPR motif; other site 520461009199 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 520461009200 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 520461009201 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 520461009202 putative active site [active] 520461009203 putative catalytic site [active] 520461009204 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 520461009205 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 520461009206 motif II; other site 520461009207 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 520461009208 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 520461009209 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 520461009210 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 520461009211 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 520461009212 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 520461009213 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 520461009214 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 520461009215 ligand binding site [chemical binding]; other site 520461009216 homodimer interface [polypeptide binding]; other site 520461009217 NAD(P) binding site [chemical binding]; other site 520461009218 trimer interface B [polypeptide binding]; other site 520461009219 trimer interface A [polypeptide binding]; other site 520461009220 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 520461009221 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 520461009222 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 520461009223 Beta-lactamase; Region: Beta-lactamase; pfam00144 520461009224 PAS fold; Region: PAS_7; pfam12860 520461009225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461009226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461009227 metal binding site [ion binding]; metal-binding site 520461009228 active site 520461009229 I-site; other site 520461009230 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 520461009231 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 520461009232 classical (c) SDRs; Region: SDR_c; cd05233 520461009233 NAD(P) binding site [chemical binding]; other site 520461009234 active site 520461009235 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 520461009236 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 520461009237 catalytic triad [active] 520461009238 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 520461009239 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 520461009240 putative ligand binding site [chemical binding]; other site 520461009241 NAD binding site [chemical binding]; other site 520461009242 catalytic site [active] 520461009243 Transcriptional regulators [Transcription]; Region: PurR; COG1609 520461009244 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 520461009245 DNA binding site [nucleotide binding] 520461009246 domain linker motif; other site 520461009247 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 520461009248 putative dimerization interface [polypeptide binding]; other site 520461009249 putative ligand binding site [chemical binding]; other site 520461009250 Creatinine amidohydrolase; Region: Creatininase; pfam02633 520461009251 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 520461009252 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 520461009253 P-loop, Walker A motif; other site 520461009254 Base recognition motif; other site 520461009255 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 520461009256 FOG: WD40 repeat [General function prediction only]; Region: COG2319 520461009257 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 520461009258 structural tetrad; other site 520461009259 Predicted esterase [General function prediction only]; Region: COG0400 520461009260 putative hydrolase; Provisional; Region: PRK11460 520461009261 TMAO/DMSO reductase; Reviewed; Region: PRK05363 520461009262 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 520461009263 Moco binding site; other site 520461009264 metal coordination site [ion binding]; other site 520461009265 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 520461009266 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 520461009267 homotrimer interaction site [polypeptide binding]; other site 520461009268 putative active site [active] 520461009269 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461009270 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 520461009271 TM-ABC transporter signature motif; other site 520461009272 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 520461009273 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461009274 TM-ABC transporter signature motif; other site 520461009275 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 520461009276 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 520461009277 putative ligand binding site [chemical binding]; other site 520461009278 Transcriptional regulator [Transcription]; Region: IclR; COG1414 520461009279 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 520461009280 Bacterial transcriptional regulator; Region: IclR; pfam01614 520461009281 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 520461009282 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 520461009283 N-terminal plug; other site 520461009284 ligand-binding site [chemical binding]; other site 520461009285 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_2; cd07253 520461009286 dimer interface [polypeptide binding]; other site 520461009287 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 520461009288 metal binding site [ion binding]; metal-binding site 520461009289 glutathionine S-transferase; Provisional; Region: PRK10542 520461009290 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 520461009291 C-terminal domain interface [polypeptide binding]; other site 520461009292 GSH binding site (G-site) [chemical binding]; other site 520461009293 dimer interface [polypeptide binding]; other site 520461009294 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 520461009295 dimer interface [polypeptide binding]; other site 520461009296 N-terminal domain interface [polypeptide binding]; other site 520461009297 substrate binding pocket (H-site) [chemical binding]; other site 520461009298 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 520461009299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 520461009300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 520461009301 metal binding site [ion binding]; metal-binding site 520461009302 active site 520461009303 I-site; other site 520461009304 Predicted dehydrogenase [General function prediction only]; Region: COG0579 520461009305 hydroxyglutarate oxidase; Provisional; Region: PRK11728 520461009306 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 520461009307 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 520461009308 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 520461009309 active site 520461009310 catalytic site [active] 520461009311 substrate binding site [chemical binding]; other site 520461009312 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 520461009313 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009314 Walker A/P-loop; other site 520461009315 ATP binding site [chemical binding]; other site 520461009316 Q-loop/lid; other site 520461009317 ABC transporter signature motif; other site 520461009318 Walker B; other site 520461009319 D-loop; other site 520461009320 H-loop/switch region; other site 520461009321 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 520461009322 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461009323 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009324 Walker A/P-loop; other site 520461009325 ATP binding site [chemical binding]; other site 520461009326 Q-loop/lid; other site 520461009327 ABC transporter signature motif; other site 520461009328 Walker B; other site 520461009329 D-loop; other site 520461009330 H-loop/switch region; other site 520461009331 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461009332 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 520461009333 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 520461009334 dimer interface [polypeptide binding]; other site 520461009335 conserved gate region; other site 520461009336 putative PBP binding loops; other site 520461009337 ABC-ATPase subunit interface; other site 520461009338 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461009339 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 520461009340 dimer interface [polypeptide binding]; other site 520461009341 conserved gate region; other site 520461009342 putative PBP binding loops; other site 520461009343 ABC-ATPase subunit interface; other site 520461009344 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461009345 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 520461009346 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 520461009347 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 520461009348 putative NAD(P) binding site [chemical binding]; other site 520461009349 active site 520461009350 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461009351 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 520461009352 NAD(P) binding site [chemical binding]; other site 520461009353 catalytic residues [active] 520461009354 catalytic residues [active] 520461009355 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461009356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461009357 DNA-binding site [nucleotide binding]; DNA binding site 520461009358 FCD domain; Region: FCD; pfam07729 520461009359 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 520461009360 Major Facilitator Superfamily; Region: MFS_1; pfam07690 520461009361 putative substrate translocation pore; other site 520461009362 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 520461009363 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 520461009364 homotrimer interaction site [polypeptide binding]; other site 520461009365 putative active site [active] 520461009366 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 520461009367 ribonuclease P; Reviewed; Region: rnpA; PRK01313 520461009368 membrane protein insertase; Provisional; Region: PRK01318 520461009369 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 520461009370 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 520461009371 G1 box; other site 520461009372 GTP/Mg2+ binding site [chemical binding]; other site 520461009373 Switch I region; other site 520461009374 G2 box; other site 520461009375 G3 box; other site 520461009376 Switch II region; other site 520461009377 G4 box; other site 520461009378 G5 box; other site 520461009379 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 520461009380 homohexameric interface [polypeptide binding]; other site 520461009381 feedback inhibition sensing region; other site 520461009382 nucleotide binding site [chemical binding]; other site 520461009383 N-acetyl-L-glutamate binding site [chemical binding]; other site 520461009384 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 520461009385 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 520461009386 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 520461009387 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 520461009388 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 520461009389 trimer interface [polypeptide binding]; other site 520461009390 active site 520461009391 substrate binding site [chemical binding]; other site 520461009392 CoA binding site [chemical binding]; other site 520461009393 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 520461009394 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 520461009395 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 520461009396 metal binding site [ion binding]; metal-binding site 520461009397 dimer interface [polypeptide binding]; other site 520461009398 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 520461009399 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 520461009400 dimerization interface 3.5A [polypeptide binding]; other site 520461009401 active site 520461009402 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 520461009403 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 520461009404 putative active site [active] 520461009405 substrate binding site [chemical binding]; other site 520461009406 putative cosubstrate binding site; other site 520461009407 catalytic site [active] 520461009408 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 520461009409 substrate binding site [chemical binding]; other site 520461009410 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 520461009411 active site 520461009412 catalytic residues [active] 520461009413 metal binding site [ion binding]; metal-binding site 520461009414 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 520461009415 RmuC family; Region: RmuC; pfam02646 520461009416 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 520461009417 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 520461009418 GIY-YIG motif/motif A; other site 520461009419 putative active site [active] 520461009420 putative metal binding site [ion binding]; other site 520461009421 GTP-binding protein LepA; Provisional; Region: PRK05433 520461009422 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 520461009423 G1 box; other site 520461009424 putative GEF interaction site [polypeptide binding]; other site 520461009425 GTP/Mg2+ binding site [chemical binding]; other site 520461009426 Switch I region; other site 520461009427 G2 box; other site 520461009428 G3 box; other site 520461009429 Switch II region; other site 520461009430 G4 box; other site 520461009431 G5 box; other site 520461009432 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 520461009433 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 520461009434 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 520461009435 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 520461009436 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 520461009437 putative NAD(P) binding site [chemical binding]; other site 520461009438 active site 520461009439 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 520461009440 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 520461009441 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 520461009442 C-terminal domain interface [polypeptide binding]; other site 520461009443 GSH binding site (G-site) [chemical binding]; other site 520461009444 dimer interface [polypeptide binding]; other site 520461009445 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 520461009446 N-terminal domain interface [polypeptide binding]; other site 520461009447 dimer interface [polypeptide binding]; other site 520461009448 substrate binding pocket (H-site) [chemical binding]; other site 520461009449 epoxyqueuosine reductase; Region: TIGR00276 520461009450 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 520461009451 HEAT repeat; Region: HEAT; pfam02985 520461009452 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 520461009453 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 520461009454 putative NAD(P) binding site [chemical binding]; other site 520461009455 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 520461009456 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 520461009457 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 520461009458 active site 520461009459 dimer interfaces [polypeptide binding]; other site 520461009460 catalytic residues [active] 520461009461 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 520461009462 glucokinase, proteobacterial type; Region: glk; TIGR00749 520461009463 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 520461009464 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 520461009465 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 520461009466 Walker A/P-loop; other site 520461009467 ATP binding site [chemical binding]; other site 520461009468 Q-loop/lid; other site 520461009469 ABC transporter signature motif; other site 520461009470 Walker B; other site 520461009471 D-loop; other site 520461009472 H-loop/switch region; other site 520461009473 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 520461009474 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 520461009475 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 520461009476 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 520461009477 catalytic core [active] 520461009478 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 520461009479 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 520461009480 active site 520461009481 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 520461009482 putative FMN binding site [chemical binding]; other site 520461009483 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 520461009484 Ligand Binding Site [chemical binding]; other site 520461009485 Predicted membrane protein [Function unknown]; Region: COG3714 520461009486 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 520461009487 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 520461009488 NAD(P) binding site [chemical binding]; other site 520461009489 catalytic residues [active] 520461009490 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 520461009491 putative catalytic site [active] 520461009492 putative metal binding site [ion binding]; other site 520461009493 putative phosphate binding site [ion binding]; other site 520461009494 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 520461009495 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 520461009496 putative active site [active] 520461009497 catalytic site [active] 520461009498 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 520461009499 putative active site [active] 520461009500 catalytic site [active] 520461009501 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 520461009502 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 520461009503 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 520461009504 G1 box; other site 520461009505 putative GEF interaction site [polypeptide binding]; other site 520461009506 GTP/Mg2+ binding site [chemical binding]; other site 520461009507 Switch I region; other site 520461009508 G2 box; other site 520461009509 G3 box; other site 520461009510 Switch II region; other site 520461009511 G4 box; other site 520461009512 G5 box; other site 520461009513 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 520461009514 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 520461009515 Flavoprotein; Region: Flavoprotein; pfam02441 520461009516 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 520461009517 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 520461009518 ABC1 family; Region: ABC1; pfam03109 520461009519 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 520461009520 active site 520461009521 ATP binding site [chemical binding]; other site 520461009522 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 520461009523 substrate binding site [chemical binding]; other site 520461009524 activation loop (A-loop); other site 520461009525 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 520461009526 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 520461009527 S-adenosylmethionine binding site [chemical binding]; other site 520461009528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 520461009529 active site 520461009530 hypothetical protein; Provisional; Region: PRK00736 520461009531 methionine sulfoxide reductase A; Provisional; Region: PRK00058 520461009532 putative transposase OrfB; Reviewed; Region: PHA02517 520461009533 HTH-like domain; Region: HTH_21; pfam13276 520461009534 Integrase core domain; Region: rve; pfam00665 520461009535 Integrase core domain; Region: rve_3; pfam13683 520461009536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 520461009537 Transposase; Region: HTH_Tnp_1; pfam01527 520461009538 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461009539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461009540 DNA-binding site [nucleotide binding]; DNA binding site 520461009541 FCD domain; Region: FCD; pfam07729 520461009542 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461009543 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 520461009544 tetramerization interface [polypeptide binding]; other site 520461009545 NAD(P) binding site [chemical binding]; other site 520461009546 catalytic residues [active] 520461009547 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 520461009548 CoA-transferase family III; Region: CoA_transf_3; pfam02515 520461009549 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 520461009550 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009551 Walker A/P-loop; other site 520461009552 ATP binding site [chemical binding]; other site 520461009553 Q-loop/lid; other site 520461009554 ABC transporter signature motif; other site 520461009555 Walker B; other site 520461009556 D-loop; other site 520461009557 H-loop/switch region; other site 520461009558 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 520461009559 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461009560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009561 Walker A/P-loop; other site 520461009562 ATP binding site [chemical binding]; other site 520461009563 Q-loop/lid; other site 520461009564 ABC transporter signature motif; other site 520461009565 Walker B; other site 520461009566 D-loop; other site 520461009567 H-loop/switch region; other site 520461009568 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 520461009569 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 520461009570 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 520461009571 dimer interface [polypeptide binding]; other site 520461009572 conserved gate region; other site 520461009573 putative PBP binding loops; other site 520461009574 ABC-ATPase subunit interface; other site 520461009575 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461009576 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 520461009577 dimer interface [polypeptide binding]; other site 520461009578 conserved gate region; other site 520461009579 putative PBP binding loops; other site 520461009580 ABC-ATPase subunit interface; other site 520461009581 Transcriptional regulator [Transcription]; Region: IclR; COG1414 520461009582 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 520461009583 Bacterial transcriptional regulator; Region: IclR; pfam01614 520461009584 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 520461009585 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 520461009586 E3 interaction surface; other site 520461009587 lipoyl attachment site [posttranslational modification]; other site 520461009588 e3 binding domain; Region: E3_binding; pfam02817 520461009589 Serine hydrolase; Region: Ser_hydrolase; cl17834 520461009590 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461009591 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 520461009592 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 520461009593 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 520461009594 active site 520461009595 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 520461009596 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 520461009597 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 520461009598 active site 520461009599 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 520461009600 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461009601 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 520461009602 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461009603 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 520461009604 dimer interface [polypeptide binding]; other site 520461009605 conserved gate region; other site 520461009606 putative PBP binding loops; other site 520461009607 ABC-ATPase subunit interface; other site 520461009608 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 520461009609 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 520461009610 dimer interface [polypeptide binding]; other site 520461009611 conserved gate region; other site 520461009612 putative PBP binding loops; other site 520461009613 ABC-ATPase subunit interface; other site 520461009614 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461009615 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009616 Walker A/P-loop; other site 520461009617 ATP binding site [chemical binding]; other site 520461009618 Q-loop/lid; other site 520461009619 ABC transporter signature motif; other site 520461009620 Walker B; other site 520461009621 D-loop; other site 520461009622 H-loop/switch region; other site 520461009623 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461009624 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 520461009625 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009626 Walker A/P-loop; other site 520461009627 ATP binding site [chemical binding]; other site 520461009628 Q-loop/lid; other site 520461009629 ABC transporter signature motif; other site 520461009630 Walker B; other site 520461009631 D-loop; other site 520461009632 H-loop/switch region; other site 520461009633 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 520461009634 Transcriptional regulators [Transcription]; Region: GntR; COG1802 520461009635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461009636 DNA-binding site [nucleotide binding]; DNA binding site 520461009637 FCD domain; Region: FCD; pfam07729 520461009638 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 520461009639 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 520461009640 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 520461009641 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 520461009642 dimer interface [polypeptide binding]; other site 520461009643 conserved gate region; other site 520461009644 putative PBP binding loops; other site 520461009645 ABC-ATPase subunit interface; other site 520461009646 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 520461009647 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 520461009648 dimer interface [polypeptide binding]; other site 520461009649 conserved gate region; other site 520461009650 putative PBP binding loops; other site 520461009651 ABC-ATPase subunit interface; other site 520461009652 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461009653 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009654 Walker A/P-loop; other site 520461009655 ATP binding site [chemical binding]; other site 520461009656 Q-loop/lid; other site 520461009657 ABC transporter signature motif; other site 520461009658 Walker B; other site 520461009659 D-loop; other site 520461009660 H-loop/switch region; other site 520461009661 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 520461009662 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 520461009663 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 520461009664 Walker A/P-loop; other site 520461009665 ATP binding site [chemical binding]; other site 520461009666 Q-loop/lid; other site 520461009667 ABC transporter signature motif; other site 520461009668 Walker B; other site 520461009669 D-loop; other site 520461009670 H-loop/switch region; other site 520461009671 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 520461009672 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 520461009673 amidase; Provisional; Region: PRK07486 520461009674 Amidase; Region: Amidase; cl11426 520461009675 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 520461009676 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461009677 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 520461009678 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 520461009679 dimer interface [polypeptide binding]; other site 520461009680 conserved gate region; other site 520461009681 putative PBP binding loops; other site 520461009682 ABC-ATPase subunit interface; other site 520461009683 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 520461009684 dimer interface [polypeptide binding]; other site 520461009685 conserved gate region; other site 520461009686 putative PBP binding loops; other site 520461009687 ABC-ATPase subunit interface; other site 520461009688 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 520461009689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461009690 Walker A/P-loop; other site 520461009691 ATP binding site [chemical binding]; other site 520461009692 Q-loop/lid; other site 520461009693 ABC transporter signature motif; other site 520461009694 Walker B; other site 520461009695 D-loop; other site 520461009696 H-loop/switch region; other site 520461009697 TOBE domain; Region: TOBE_2; pfam08402 520461009698 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 520461009699 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 520461009700 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 520461009701 catalytic residue [active] 520461009702 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 520461009703 intersubunit interface [polypeptide binding]; other site 520461009704 active site 520461009705 Zn2+ binding site [ion binding]; other site 520461009706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 520461009707 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 520461009708 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 520461009709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 520461009710 Transposase; Region: HTH_Tnp_1; pfam01527 520461009711 putative transposase OrfB; Reviewed; Region: PHA02517 520461009712 HTH-like domain; Region: HTH_21; pfam13276 520461009713 Integrase core domain; Region: rve; pfam00665 520461009714 Integrase core domain; Region: rve_3; pfam13683 520461009715 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 520461009716 Predicted transcriptional regulator [Transcription]; Region: COG1959 520461009717 Transcriptional regulator; Region: Rrf2; pfam02082 520461009718 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 520461009719 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 520461009720 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 520461009721 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 520461009722 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 520461009723 metal binding site [ion binding]; metal-binding site 520461009724 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 520461009725 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 520461009726 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 520461009727 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 520461009728 ABC-ATPase subunit interface; other site 520461009729 dimer interface [polypeptide binding]; other site 520461009730 putative PBP binding regions; other site 520461009731 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 520461009732 metal binding site 2 [ion binding]; metal-binding site 520461009733 putative DNA binding helix; other site 520461009734 metal binding site 1 [ion binding]; metal-binding site 520461009735 dimer interface [polypeptide binding]; other site 520461009736 structural Zn2+ binding site [ion binding]; other site 520461009737 Rod binding protein; Region: Rod-binding; pfam10135 520461009738 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 520461009739 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 520461009740 FHIPEP family; Region: FHIPEP; pfam00771 520461009741 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 520461009742 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 520461009743 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 520461009744 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 520461009745 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 520461009746 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 520461009747 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 520461009748 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 520461009749 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 520461009750 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 520461009751 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 520461009752 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 520461009753 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 520461009754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 520461009755 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 520461009756 DNA binding site [nucleotide binding] 520461009757 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 520461009758 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 520461009759 N-acetyl-D-glucosamine binding site [chemical binding]; other site 520461009760 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 520461009761 chemotaxis protein; Reviewed; Region: PRK12798 520461009762 flagellar motor protein MotB; Validated; Region: motB; PRK05996 520461009763 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 520461009764 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 520461009765 ligand binding site [chemical binding]; other site 520461009766 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 520461009767 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 520461009768 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 520461009769 flagellin; Reviewed; Region: PRK12687 520461009770 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 520461009771 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009772 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009773 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009774 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 520461009775 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009776 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009777 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009778 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 520461009779 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 520461009780 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 520461009781 Autotransporter beta-domain; Region: Autotransporter; pfam03797 520461009782 Uncharacterized conserved protein [Function unknown]; Region: COG3268 520461009783 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 520461009784 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 520461009785 putative ligand binding site [chemical binding]; other site 520461009786 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 520461009787 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 520461009788 Walker A/P-loop; other site 520461009789 ATP binding site [chemical binding]; other site 520461009790 Q-loop/lid; other site 520461009791 ABC transporter signature motif; other site 520461009792 Walker B; other site 520461009793 D-loop; other site 520461009794 H-loop/switch region; other site 520461009795 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 520461009796 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461009797 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 520461009798 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 520461009799 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 520461009800 TM-ABC transporter signature motif; other site 520461009801 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 520461009802 HTH domain; Region: HTH_11; cl17392 520461009803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461009804 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461009805 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 520461009806 NAD(P) binding site [chemical binding]; other site 520461009807 catalytic residues [active] 520461009808 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 520461009809 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 520461009810 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 520461009811 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 520461009812 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 520461009813 tetramer interface [polypeptide binding]; other site 520461009814 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 520461009815 tetramer interface [polypeptide binding]; other site 520461009816 active site 520461009817 metal binding site [ion binding]; metal-binding site 520461009818 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 520461009819 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 520461009820 NAD binding site [chemical binding]; other site 520461009821 catalytic residues [active] 520461009822 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 520461009823 putative substrate binding pocket [chemical binding]; other site 520461009824 trimer interface [polypeptide binding]; other site 520461009825 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 520461009826 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 520461009827 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 520461009828 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 520461009829 active site 520461009830 ATP binding site [chemical binding]; other site 520461009831 substrate binding site [chemical binding]; other site 520461009832 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 520461009833 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 520461009834 inhibitor-cofactor binding pocket; inhibition site 520461009835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461009836 catalytic residue [active] 520461009837 hypothetical protein; Provisional; Region: PRK07481 520461009838 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 520461009839 inhibitor-cofactor binding pocket; inhibition site 520461009840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 520461009841 catalytic residue [active] 520461009842 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 520461009843 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 520461009844 motif II; other site 520461009845 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 520461009846 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 520461009847 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 520461009848 Transcriptional regulator [Transcription]; Region: IclR; COG1414 520461009849 Bacterial transcriptional regulator; Region: IclR; pfam01614 520461009850 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 520461009851 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 520461009852 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 520461009853 NAD(P) binding site [chemical binding]; other site 520461009854 catalytic residues [active] 520461009855 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 520461009856 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 520461009857 active site 520461009858 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 520461009859 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 520461009860 putative ligand binding site [chemical binding]; other site 520461009861 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 520461009862 TM-ABC transporter signature motif; other site 520461009863 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 520461009864 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 520461009865 TM-ABC transporter signature motif; other site 520461009866 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461009867 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461009868 Walker A/P-loop; other site 520461009869 ATP binding site [chemical binding]; other site 520461009870 Q-loop/lid; other site 520461009871 ABC transporter signature motif; other site 520461009872 Walker B; other site 520461009873 D-loop; other site 520461009874 H-loop/switch region; other site 520461009875 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461009876 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461009877 Walker A/P-loop; other site 520461009878 ATP binding site [chemical binding]; other site 520461009879 Q-loop/lid; other site 520461009880 ABC transporter signature motif; other site 520461009881 Walker B; other site 520461009882 D-loop; other site 520461009883 H-loop/switch region; other site 520461009884 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 520461009885 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 520461009886 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 520461009887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 520461009888 DNA-binding site [nucleotide binding]; DNA binding site 520461009889 UTRA domain; Region: UTRA; pfam07702 520461009890 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 520461009891 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 520461009892 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 520461009893 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 520461009894 dimer interface [polypeptide binding]; other site 520461009895 conserved gate region; other site 520461009896 putative PBP binding loops; other site 520461009897 ABC-ATPase subunit interface; other site 520461009898 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 520461009899 dimer interface [polypeptide binding]; other site 520461009900 conserved gate region; other site 520461009901 putative PBP binding loops; other site 520461009902 ABC-ATPase subunit interface; other site 520461009903 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 520461009904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 520461009905 Walker A/P-loop; other site 520461009906 ATP binding site [chemical binding]; other site 520461009907 Q-loop/lid; other site 520461009908 ABC transporter signature motif; other site 520461009909 Walker B; other site 520461009910 D-loop; other site 520461009911 H-loop/switch region; other site 520461009912 TOBE domain; Region: TOBE_2; pfam08402 520461009913 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 520461009914 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 520461009915 active site 520461009916 metal binding site [ion binding]; metal-binding site 520461009917 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 520461009918 Sulfatase; Region: Sulfatase; cl17466 520461009919 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 520461009920 NMT1-like family; Region: NMT1_2; pfam13379 520461009921 substrate binding pocket [chemical binding]; other site 520461009922 membrane-bound complex binding site; other site 520461009923 hinge residues; other site 520461009924 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 520461009925 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 520461009926 Walker A/P-loop; other site 520461009927 ATP binding site [chemical binding]; other site 520461009928 Q-loop/lid; other site 520461009929 ABC transporter signature motif; other site 520461009930 Walker B; other site 520461009931 D-loop; other site 520461009932 H-loop/switch region; other site 520461009933 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 520461009934 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 520461009935 dimer interface [polypeptide binding]; other site 520461009936 conserved gate region; other site 520461009937 putative PBP binding loops; other site 520461009938 ABC-ATPase subunit interface; other site 520461009939 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 520461009940 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 520461009941 nucleotide binding site [chemical binding]; other site 520461009942 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 520461009943 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 520461009944 N-terminal plug; other site 520461009945 ligand-binding site [chemical binding]; other site 520461009946 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 520461009947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 520461009948 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 520461009949 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 520461009950 putative ligand binding site [chemical binding]; other site 520461009951 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 520461009952 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 520461009953 Walker A/P-loop; other site 520461009954 ATP binding site [chemical binding]; other site 520461009955 Q-loop/lid; other site 520461009956 ABC transporter signature motif; other site 520461009957 Walker B; other site 520461009958 D-loop; other site 520461009959 H-loop/switch region; other site 520461009960 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 520461009961 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 520461009962 Walker A/P-loop; other site 520461009963 ATP binding site [chemical binding]; other site 520461009964 Q-loop/lid; other site 520461009965 ABC transporter signature motif; other site 520461009966 Walker B; other site 520461009967 D-loop; other site 520461009968 H-loop/switch region; other site 520461009969 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 520461009970 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 520461009971 FeS/SAM binding site; other site 520461009972 HemN C-terminal domain; Region: HemN_C; pfam06969 520461009973 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 520461009974 MerR family regulatory protein; Region: MerR; pfam00376 520461009975 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 520461009976 P-loop; other site 520461009977 Magnesium ion binding site [ion binding]; other site 520461009978 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 520461009979 P-loop; other site 520461009980 Magnesium ion binding site [ion binding]; other site 520461009981 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 520461009982 ParB-like nuclease domain; Region: ParB; smart00470