-- dump date 20140619_223628 -- class Genbank::misc_feature -- table misc_feature_note -- id note 221109000001 REFSEQ gene predictions performed by GeneMark 2.4/GeneMark.hmm 2.0 with comparison to original submitter provided annotation. 221109000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 221109000003 DnaA N-terminal domain; Region: DnaA_N; pfam11638 221109000004 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 221109000005 Walker A motif; other site 221109000006 ATP binding site [chemical binding]; other site 221109000007 Walker B motif; other site 221109000008 arginine finger; other site 221109000009 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 221109000010 DnaA box-binding interface [nucleotide binding]; other site 221109000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 221109000012 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 221109000013 putative DNA binding surface [nucleotide binding]; other site 221109000014 dimer interface [polypeptide binding]; other site 221109000015 beta-clamp/clamp loader binding surface; other site 221109000016 beta-clamp/translesion DNA polymerase binding surface; other site 221109000017 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 221109000018 recombination protein F; Reviewed; Region: recF; PRK00064 221109000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 221109000020 Walker A/P-loop; other site 221109000021 ATP binding site [chemical binding]; other site 221109000022 Q-loop/lid; other site 221109000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000024 ABC transporter signature motif; other site 221109000025 Walker B; other site 221109000026 D-loop; other site 221109000027 H-loop/switch region; other site 221109000028 Domain of unknown function (DUF370); Region: DUF370; cl00898 221109000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 221109000030 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 221109000031 Mg2+ binding site [ion binding]; other site 221109000032 G-X-G motif; other site 221109000033 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 221109000034 anchoring element; other site 221109000035 dimer interface [polypeptide binding]; other site 221109000036 ATP binding site [chemical binding]; other site 221109000037 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 221109000038 active site 221109000039 putative metal-binding site [ion binding]; other site 221109000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 221109000041 DNA gyrase subunit A; Validated; Region: PRK05560 221109000042 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 221109000043 CAP-like domain; other site 221109000044 active site 221109000045 primary dimer interface [polypeptide binding]; other site 221109000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109000052 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 221109000053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109000054 Zn2+ binding site [ion binding]; other site 221109000055 Mg2+ binding site [ion binding]; other site 221109000056 YaaC-like Protein; Region: YaaC; pfam14175 221109000057 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 221109000058 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 221109000059 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 221109000060 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 221109000061 active site 221109000062 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 221109000063 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 221109000064 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 221109000065 seryl-tRNA synthetase; Provisional; Region: PRK05431 221109000066 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 221109000067 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 221109000068 dimer interface [polypeptide binding]; other site 221109000069 active site 221109000070 motif 1; other site 221109000071 motif 2; other site 221109000072 motif 3; other site 221109000073 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 221109000074 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 221109000075 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 221109000076 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 221109000077 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 221109000078 Substrate-binding site [chemical binding]; other site 221109000079 Substrate specificity [chemical binding]; other site 221109000080 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 221109000081 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 221109000082 Substrate-binding site [chemical binding]; other site 221109000083 Substrate specificity [chemical binding]; other site 221109000084 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 221109000085 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 221109000086 putative substrate translocation pore; other site 221109000087 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 221109000088 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 221109000089 acetyl-CoA synthetase; Provisional; Region: PRK04319 221109000090 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 221109000091 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 221109000092 active site 221109000093 acyl-activating enzyme (AAE) consensus motif; other site 221109000094 putative CoA binding site [chemical binding]; other site 221109000095 AMP binding site [chemical binding]; other site 221109000096 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 221109000097 intracellular protease, PfpI family; Region: PfpI; TIGR01382 221109000098 proposed catalytic triad [active] 221109000099 conserved cys residue [active] 221109000100 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 221109000101 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109000102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109000103 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 221109000104 active site 221109000105 Isochorismatase family; Region: Isochorismatase; pfam00857 221109000106 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 221109000107 catalytic triad [active] 221109000108 conserved cis-peptide bond; other site 221109000109 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 221109000110 nucleoside/Zn binding site; other site 221109000111 dimer interface [polypeptide binding]; other site 221109000112 catalytic motif [active] 221109000113 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 221109000114 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221109000115 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 221109000116 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221109000117 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 221109000118 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 221109000119 active site 221109000120 FMN binding site [chemical binding]; other site 221109000121 substrate binding site [chemical binding]; other site 221109000122 homotetramer interface [polypeptide binding]; other site 221109000123 catalytic residue [active] 221109000124 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 221109000125 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 221109000126 Walker A motif; other site 221109000127 ATP binding site [chemical binding]; other site 221109000128 Walker B motif; other site 221109000129 arginine finger; other site 221109000130 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 221109000131 hypothetical protein; Validated; Region: PRK00153 221109000132 recombination protein RecR; Reviewed; Region: recR; PRK00076 221109000133 RecR protein; Region: RecR; pfam02132 221109000134 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 221109000135 putative active site [active] 221109000136 putative metal-binding site [ion binding]; other site 221109000137 tetramer interface [polypeptide binding]; other site 221109000138 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 221109000139 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 221109000140 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 221109000141 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 221109000142 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 221109000143 homodimer interface [polypeptide binding]; other site 221109000144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109000145 catalytic residue [active] 221109000146 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 221109000147 thymidylate kinase; Validated; Region: tmk; PRK00698 221109000148 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 221109000149 TMP-binding site; other site 221109000150 ATP-binding site [chemical binding]; other site 221109000151 Protein of unknown function (DUF970); Region: DUF970; pfam06153 221109000152 Protein of unknown function (DUF327); Region: DUF327; pfam03885 221109000153 DNA polymerase III subunit delta'; Validated; Region: PRK08058 221109000154 DNA polymerase III subunit delta'; Validated; Region: PRK08485 221109000155 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 221109000156 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 221109000157 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 221109000158 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 221109000159 S-adenosylmethionine binding site [chemical binding]; other site 221109000160 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 221109000161 GIY-YIG motif/motif A; other site 221109000162 putative active site [active] 221109000163 putative metal binding site [ion binding]; other site 221109000164 Predicted methyltransferases [General function prediction only]; Region: COG0313 221109000165 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 221109000166 putative SAM binding site [chemical binding]; other site 221109000167 putative homodimer interface [polypeptide binding]; other site 221109000168 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 221109000169 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 221109000170 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 221109000171 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 221109000172 active site 221109000173 HIGH motif; other site 221109000174 KMSKS motif; other site 221109000175 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 221109000176 tRNA binding surface [nucleotide binding]; other site 221109000177 anticodon binding site; other site 221109000178 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 221109000179 dimer interface [polypeptide binding]; other site 221109000180 putative tRNA-binding site [nucleotide binding]; other site 221109000181 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 221109000182 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 221109000183 active site 221109000184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 221109000185 Domain of unknown function (DUF348); Region: DUF348; pfam03990 221109000186 Domain of unknown function (DUF348); Region: DUF348; pfam03990 221109000187 G5 domain; Region: G5; pfam07501 221109000188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 221109000189 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 221109000190 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 221109000191 putative active site [active] 221109000192 putative metal binding site [ion binding]; other site 221109000193 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 221109000194 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 221109000195 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 221109000196 S-adenosylmethionine binding site [chemical binding]; other site 221109000197 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 221109000198 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 221109000199 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 221109000200 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 221109000201 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 221109000202 pur operon repressor; Provisional; Region: PRK09213 221109000203 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 221109000204 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109000205 active site 221109000206 regulatory protein SpoVG; Reviewed; Region: PRK13259 221109000207 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 221109000208 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 221109000209 Substrate binding site; other site 221109000210 Mg++ binding site; other site 221109000211 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 221109000212 active site 221109000213 substrate binding site [chemical binding]; other site 221109000214 CoA binding site [chemical binding]; other site 221109000215 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 221109000216 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 221109000217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109000218 active site 221109000219 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 221109000220 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 221109000221 5S rRNA interface [nucleotide binding]; other site 221109000222 CTC domain interface [polypeptide binding]; other site 221109000223 L16 interface [polypeptide binding]; other site 221109000224 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 221109000225 putative active site [active] 221109000226 catalytic residue [active] 221109000227 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 221109000228 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 221109000229 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 221109000230 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 221109000231 ATP binding site [chemical binding]; other site 221109000232 putative Mg++ binding site [ion binding]; other site 221109000233 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 221109000234 nucleotide binding region [chemical binding]; other site 221109000235 ATP-binding site [chemical binding]; other site 221109000236 TRCF domain; Region: TRCF; pfam03461 221109000237 stage V sporulation protein T; Region: spore_V_T; TIGR02851 221109000238 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 221109000239 stage V sporulation protein B; Region: spore_V_B; TIGR02900 221109000240 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 221109000241 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 221109000242 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 221109000243 putative SAM binding site [chemical binding]; other site 221109000244 putative homodimer interface [polypeptide binding]; other site 221109000245 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 221109000246 homodimer interface [polypeptide binding]; other site 221109000247 metal binding site [ion binding]; metal-binding site 221109000248 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 221109000249 homodimer interface [polypeptide binding]; other site 221109000250 active site 221109000251 putative chemical substrate binding site [chemical binding]; other site 221109000252 metal binding site [ion binding]; metal-binding site 221109000253 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 221109000254 RNA binding surface [nucleotide binding]; other site 221109000255 sporulation protein YabP; Region: spore_yabP; TIGR02892 221109000256 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 221109000257 Septum formation initiator; Region: DivIC; pfam04977 221109000258 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 221109000259 hypothetical protein; Provisional; Region: PRK08582 221109000260 S1_RPS1_repeat_hs4: 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_hs4; cd05692 221109000261 RNA binding site [nucleotide binding]; other site 221109000262 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 221109000263 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 221109000264 putative substrate translocation pore; other site 221109000265 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 221109000266 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221109000267 MarR family; Region: MarR; pfam01047 221109000268 stage II sporulation protein E; Region: spore_II_E; TIGR02865 221109000269 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 221109000270 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 221109000271 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 221109000272 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 221109000273 metal ion-dependent adhesion site (MIDAS); other site 221109000274 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 221109000275 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 221109000276 active site 221109000277 ATP binding site [chemical binding]; other site 221109000278 substrate binding site [chemical binding]; other site 221109000279 activation loop (A-loop); other site 221109000280 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 221109000281 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 221109000282 Ligand Binding Site [chemical binding]; other site 221109000283 TilS substrate C-terminal domain; Region: TilS_C; smart00977 221109000284 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109000285 active site 221109000286 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 221109000287 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 221109000288 Walker A motif; other site 221109000289 ATP binding site [chemical binding]; other site 221109000290 Walker B motif; other site 221109000291 arginine finger; other site 221109000292 Peptidase family M41; Region: Peptidase_M41; pfam01434 221109000293 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 221109000294 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 221109000295 putative active site [active] 221109000296 putative NTP binding site [chemical binding]; other site 221109000297 putative nucleic acid binding site [nucleotide binding]; other site 221109000298 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 221109000299 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109000300 nucleotide binding site [chemical binding]; other site 221109000301 Type III pantothenate kinase; Region: Pan_kinase; cl17198 221109000302 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 221109000303 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 221109000304 dimerization interface [polypeptide binding]; other site 221109000305 domain crossover interface; other site 221109000306 redox-dependent activation switch; other site 221109000307 SurA N-terminal domain; Region: SurA_N_3; cl07813 221109000308 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 221109000309 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 221109000310 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 221109000311 dimer interface [polypeptide binding]; other site 221109000312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109000313 catalytic residue [active] 221109000314 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 221109000315 dihydropteroate synthase; Region: DHPS; TIGR01496 221109000316 substrate binding pocket [chemical binding]; other site 221109000317 dimer interface [polypeptide binding]; other site 221109000318 inhibitor binding site; inhibition site 221109000319 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 221109000320 homooctamer interface [polypeptide binding]; other site 221109000321 active site 221109000322 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 221109000323 catalytic center binding site [active] 221109000324 ATP binding site [chemical binding]; other site 221109000325 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 221109000326 non-specific DNA binding site [nucleotide binding]; other site 221109000327 salt bridge; other site 221109000328 sequence-specific DNA binding site [nucleotide binding]; other site 221109000329 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 221109000330 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 221109000331 dimer interface [polypeptide binding]; other site 221109000332 putative anticodon binding site; other site 221109000333 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 221109000334 motif 1; other site 221109000335 active site 221109000336 motif 2; other site 221109000337 motif 3; other site 221109000338 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 221109000339 MgtC family; Region: MgtC; pfam02308 221109000340 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 221109000341 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 221109000342 UvrB/uvrC motif; Region: UVR; pfam02151 221109000343 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 221109000344 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 221109000345 ADP binding site [chemical binding]; other site 221109000346 phosphagen binding site; other site 221109000347 substrate specificity loop; other site 221109000348 Clp protease ATP binding subunit; Region: clpC; CHL00095 221109000349 Clp amino terminal domain; Region: Clp_N; pfam02861 221109000350 Clp amino terminal domain; Region: Clp_N; pfam02861 221109000351 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 221109000352 Walker A motif; other site 221109000353 ATP binding site [chemical binding]; other site 221109000354 Walker B motif; other site 221109000355 arginine finger; other site 221109000356 UvrB/uvrC motif; Region: UVR; pfam02151 221109000357 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 221109000358 Walker A motif; other site 221109000359 ATP binding site [chemical binding]; other site 221109000360 Walker B motif; other site 221109000361 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 221109000362 DNA repair protein RadA; Provisional; Region: PRK11823 221109000363 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 221109000364 Walker A motif/ATP binding site; other site 221109000365 ATP binding site [chemical binding]; other site 221109000366 Walker B motif; other site 221109000367 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 221109000368 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 221109000369 Colicin V production protein; Region: Colicin_V; pfam02674 221109000370 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 221109000371 putative active site [active] 221109000372 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 221109000373 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 221109000374 HIGH motif; other site 221109000375 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 221109000376 active site 221109000377 KMSKS motif; other site 221109000378 serine O-acetyltransferase; Region: cysE; TIGR01172 221109000379 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 221109000380 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 221109000381 trimer interface [polypeptide binding]; other site 221109000382 active site 221109000383 substrate binding site [chemical binding]; other site 221109000384 CoA binding site [chemical binding]; other site 221109000385 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 221109000386 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 221109000387 active site 221109000388 HIGH motif; other site 221109000389 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 221109000390 KMSKS motif; other site 221109000391 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 221109000392 tRNA binding surface [nucleotide binding]; other site 221109000393 anticodon binding site; other site 221109000394 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 221109000395 active site 221109000396 metal binding site [ion binding]; metal-binding site 221109000397 dimerization interface [polypeptide binding]; other site 221109000398 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 221109000399 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 221109000400 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 221109000401 YacP-like NYN domain; Region: NYN_YacP; pfam05991 221109000402 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 221109000403 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109000404 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 221109000405 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 221109000406 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 221109000407 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 221109000408 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 221109000409 putative homodimer interface [polypeptide binding]; other site 221109000410 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 221109000411 heterodimer interface [polypeptide binding]; other site 221109000412 homodimer interface [polypeptide binding]; other site 221109000413 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 221109000414 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 221109000415 23S rRNA interface [nucleotide binding]; other site 221109000416 L7/L12 interface [polypeptide binding]; other site 221109000417 putative thiostrepton binding site; other site 221109000418 L25 interface [polypeptide binding]; other site 221109000419 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 221109000420 mRNA/rRNA interface [nucleotide binding]; other site 221109000421 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 221109000422 23S rRNA interface [nucleotide binding]; other site 221109000423 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 221109000424 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 221109000425 core dimer interface [polypeptide binding]; other site 221109000426 peripheral dimer interface [polypeptide binding]; other site 221109000427 L10 interface [polypeptide binding]; other site 221109000428 L11 interface [polypeptide binding]; other site 221109000429 putative EF-Tu interaction site [polypeptide binding]; other site 221109000430 putative EF-G interaction site [polypeptide binding]; other site 221109000431 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 221109000432 Methyltransferase domain; Region: Methyltransf_31; pfam13847 221109000433 S-adenosylmethionine binding site [chemical binding]; other site 221109000434 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 221109000435 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 221109000436 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 221109000437 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 221109000438 RPB1 interaction site [polypeptide binding]; other site 221109000439 RPB10 interaction site [polypeptide binding]; other site 221109000440 RPB11 interaction site [polypeptide binding]; other site 221109000441 RPB3 interaction site [polypeptide binding]; other site 221109000442 RPB12 interaction site [polypeptide binding]; other site 221109000443 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 221109000444 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 221109000445 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 221109000446 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 221109000447 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 221109000448 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 221109000449 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 221109000450 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 221109000451 G-loop; other site 221109000452 DNA binding site [nucleotide binding] 221109000453 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 221109000454 S17 interaction site [polypeptide binding]; other site 221109000455 S8 interaction site; other site 221109000456 16S rRNA interaction site [nucleotide binding]; other site 221109000457 streptomycin interaction site [chemical binding]; other site 221109000458 23S rRNA interaction site [nucleotide binding]; other site 221109000459 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 221109000460 30S ribosomal protein S7; Validated; Region: PRK05302 221109000461 elongation factor G; Reviewed; Region: PRK00007 221109000462 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 221109000463 G1 box; other site 221109000464 putative GEF interaction site [polypeptide binding]; other site 221109000465 GTP/Mg2+ binding site [chemical binding]; other site 221109000466 Switch I region; other site 221109000467 G2 box; other site 221109000468 G3 box; other site 221109000469 Switch II region; other site 221109000470 G4 box; other site 221109000471 G5 box; other site 221109000472 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 221109000473 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 221109000474 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 221109000475 elongation factor Tu; Reviewed; Region: PRK00049 221109000476 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 221109000477 G1 box; other site 221109000478 GEF interaction site [polypeptide binding]; other site 221109000479 GTP/Mg2+ binding site [chemical binding]; other site 221109000480 Switch I region; other site 221109000481 G2 box; other site 221109000482 G3 box; other site 221109000483 Switch II region; other site 221109000484 G4 box; other site 221109000485 G5 box; other site 221109000486 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 221109000487 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 221109000488 Antibiotic Binding Site [chemical binding]; other site 221109000489 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 221109000490 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 221109000491 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 221109000492 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 221109000493 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 221109000494 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 221109000495 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 221109000496 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 221109000497 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 221109000498 putative translocon binding site; other site 221109000499 protein-rRNA interface [nucleotide binding]; other site 221109000500 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 221109000501 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 221109000502 G-X-X-G motif; other site 221109000503 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 221109000504 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 221109000505 23S rRNA interface [nucleotide binding]; other site 221109000506 5S rRNA interface [nucleotide binding]; other site 221109000507 putative antibiotic binding site [chemical binding]; other site 221109000508 L25 interface [polypeptide binding]; other site 221109000509 L27 interface [polypeptide binding]; other site 221109000510 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 221109000511 23S rRNA interface [nucleotide binding]; other site 221109000512 putative translocon interaction site; other site 221109000513 signal recognition particle (SRP54) interaction site; other site 221109000514 L23 interface [polypeptide binding]; other site 221109000515 trigger factor interaction site; other site 221109000516 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 221109000517 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 221109000518 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 221109000519 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 221109000520 RNA binding site [nucleotide binding]; other site 221109000521 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 221109000522 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 221109000523 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 221109000524 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 221109000525 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 221109000526 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 221109000527 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 221109000528 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 221109000529 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 221109000530 5S rRNA interface [nucleotide binding]; other site 221109000531 L27 interface [polypeptide binding]; other site 221109000532 23S rRNA interface [nucleotide binding]; other site 221109000533 L5 interface [polypeptide binding]; other site 221109000534 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 221109000535 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 221109000536 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 221109000537 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 221109000538 23S rRNA binding site [nucleotide binding]; other site 221109000539 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 221109000540 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 221109000541 SecY translocase; Region: SecY; pfam00344 221109000542 adenylate kinase; Reviewed; Region: adk; PRK00279 221109000543 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 221109000544 AMP-binding site [chemical binding]; other site 221109000545 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 221109000546 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 221109000547 rRNA binding site [nucleotide binding]; other site 221109000548 predicted 30S ribosome binding site; other site 221109000549 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 221109000550 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 221109000551 30S ribosomal protein S13; Region: bact_S13; TIGR03631 221109000552 30S ribosomal protein S11; Validated; Region: PRK05309 221109000553 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 221109000554 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 221109000555 alphaNTD homodimer interface [polypeptide binding]; other site 221109000556 alphaNTD - beta interaction site [polypeptide binding]; other site 221109000557 alphaNTD - beta' interaction site [polypeptide binding]; other site 221109000558 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 221109000559 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 221109000560 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 221109000561 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 221109000562 Walker A/P-loop; other site 221109000563 ATP binding site [chemical binding]; other site 221109000564 Q-loop/lid; other site 221109000565 ABC transporter signature motif; other site 221109000566 Walker B; other site 221109000567 D-loop; other site 221109000568 H-loop/switch region; other site 221109000569 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 221109000570 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 221109000571 Walker A/P-loop; other site 221109000572 ATP binding site [chemical binding]; other site 221109000573 Q-loop/lid; other site 221109000574 ABC transporter signature motif; other site 221109000575 Walker B; other site 221109000576 D-loop; other site 221109000577 H-loop/switch region; other site 221109000578 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 221109000579 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 221109000580 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 221109000581 dimerization interface 3.5A [polypeptide binding]; other site 221109000582 active site 221109000583 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 221109000584 23S rRNA interface [nucleotide binding]; other site 221109000585 L3 interface [polypeptide binding]; other site 221109000586 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 221109000587 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 221109000588 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 221109000589 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 221109000590 Int/Topo IB signature motif; other site 221109000591 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 221109000592 non-specific DNA binding site [nucleotide binding]; other site 221109000593 salt bridge; other site 221109000594 sequence-specific DNA binding site [nucleotide binding]; other site 221109000595 Helix-turn-helix domain; Region: HTH_17; cl17695 221109000596 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 221109000597 Integral membrane protein DUF95; Region: DUF95; pfam01944 221109000598 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 221109000599 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221109000600 HlyD family secretion protein; Region: HlyD_3; pfam13437 221109000601 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 221109000602 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 221109000603 Walker A/P-loop; other site 221109000604 ATP binding site [chemical binding]; other site 221109000605 Q-loop/lid; other site 221109000606 ABC transporter signature motif; other site 221109000607 Walker B; other site 221109000608 D-loop; other site 221109000609 H-loop/switch region; other site 221109000610 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 221109000611 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 221109000612 FtsX-like permease family; Region: FtsX; pfam02687 221109000613 YcxB-like protein; Region: YcxB; pfam14317 221109000614 YcxB-like protein; Region: YcxB; pfam14317 221109000615 D5 N terminal like; Region: D5_N; smart00885 221109000616 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 221109000617 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 221109000618 Initiator Replication protein; Region: Rep_3; pfam01051 221109000619 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 221109000620 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 221109000621 catalytic residues [active] 221109000622 catalytic nucleophile [active] 221109000623 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 221109000624 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 221109000625 cofactor binding site; other site 221109000626 DNA binding site [nucleotide binding] 221109000627 substrate interaction site [chemical binding]; other site 221109000628 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 221109000629 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 221109000630 substrate interaction site [chemical binding]; other site 221109000631 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 221109000632 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 221109000633 Z1 domain; Region: Z1; pfam10593 221109000634 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 221109000635 AIPR protein; Region: AIPR; pfam10592 221109000636 VPS10 domain; Region: VPS10; smart00602 221109000637 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 221109000638 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 221109000639 NADP binding site [chemical binding]; other site 221109000640 dimer interface [polypeptide binding]; other site 221109000641 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 221109000642 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 221109000643 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 221109000644 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 221109000645 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 221109000646 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 221109000647 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109000648 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109000649 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 221109000650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109000651 Coenzyme A binding pocket [chemical binding]; other site 221109000652 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 221109000653 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 221109000654 HlyD family secretion protein; Region: HlyD_3; pfam13437 221109000655 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 221109000656 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 221109000657 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 221109000658 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 221109000659 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 221109000660 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 221109000661 active site 221109000662 metal binding site [ion binding]; metal-binding site 221109000663 Domain of unknown function DUF59; Region: DUF59; cl00941 221109000664 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 221109000665 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 221109000666 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 221109000667 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 221109000668 Putative catalytic NodB homology domain of Bacillus subtilis putative polysaccharide deacetylase PdaB, and its bacterial homologs; Region: CE4_BsPdaB_like; cd10949 221109000669 NodB motif; other site 221109000670 putative active site [active] 221109000671 putative catalytic site [active] 221109000672 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 221109000673 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221109000674 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 221109000675 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 221109000676 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 221109000677 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109000678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 221109000679 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 221109000680 Domain of unknown function (DUF955); Region: DUF955; pfam06114 221109000681 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 221109000682 non-specific DNA binding site [nucleotide binding]; other site 221109000683 salt bridge; other site 221109000684 sequence-specific DNA binding site [nucleotide binding]; other site 221109000685 positive control sigma-like factor; Validated; Region: PRK06930 221109000686 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 221109000687 DNA binding residues [nucleotide binding] 221109000688 phage major tail protein, TP901-1 family; Region: phgtail_TP901_1; TIGR02126 221109000689 Phage protein; Region: DUF3647; pfam12363 221109000690 Phage-related protein [Function unknown]; Region: COG5412 221109000691 phiKZ-like phage internal head proteins; Region: phiKZ_IP; pfam12699 221109000692 Phage tail protein; Region: Sipho_tail; pfam05709 221109000693 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 221109000694 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 221109000695 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 221109000696 Haemolysin XhlA; Region: XhlA; pfam10779 221109000697 holin, SPP1 family; Region: holin_SPP1; TIGR01592 221109000698 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 221109000699 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 221109000700 active site 221109000701 metal binding site [ion binding]; metal-binding site 221109000702 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109000703 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109000704 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 221109000705 intersubunit interface [polypeptide binding]; other site 221109000706 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 221109000707 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 221109000708 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 221109000709 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109000710 NAD binding site [chemical binding]; other site 221109000711 catalytic residues [active] 221109000712 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 221109000713 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 221109000714 NAD binding site [chemical binding]; other site 221109000715 homotetramer interface [polypeptide binding]; other site 221109000716 homodimer interface [polypeptide binding]; other site 221109000717 substrate binding site [chemical binding]; other site 221109000718 active site 221109000719 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 221109000720 homodimer interface [polypeptide binding]; other site 221109000721 catalytic residues [active] 221109000722 NAD binding site [chemical binding]; other site 221109000723 substrate binding pocket [chemical binding]; other site 221109000724 flexible flap; other site 221109000725 mevalonate kinase; Region: mevalon_kin; TIGR00549 221109000726 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 221109000727 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 221109000728 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 221109000729 diphosphomevalonate decarboxylase; Region: PLN02407 221109000730 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 221109000731 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 221109000732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109000733 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 221109000734 DNA binding residues [nucleotide binding] 221109000735 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 221109000736 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 221109000737 Uncharacterized conserved protein [Function unknown]; Region: COG1624 221109000738 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 221109000739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 221109000740 YbbR-like protein; Region: YbbR; pfam07949 221109000741 YbbR-like protein; Region: YbbR; pfam07949 221109000742 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 221109000743 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 221109000744 active site 221109000745 substrate binding site [chemical binding]; other site 221109000746 metal binding site [ion binding]; metal-binding site 221109000747 Transposase IS200 like; Region: Y1_Tnp; cl00848 221109000748 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221109000749 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 221109000750 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 221109000751 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 221109000752 glutaminase active site [active] 221109000753 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 221109000754 dimer interface [polypeptide binding]; other site 221109000755 active site 221109000756 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 221109000757 dimer interface [polypeptide binding]; other site 221109000758 active site 221109000759 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 221109000760 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 221109000761 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 221109000762 putative active site [active] 221109000763 catalytic triad [active] 221109000764 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 221109000765 PA/protease domain interface [polypeptide binding]; other site 221109000766 putative integrin binding motif; other site 221109000767 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 221109000768 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 221109000769 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 221109000770 MutS domain III; Region: MutS_III; pfam05192 221109000771 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 221109000772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000773 Walker A/P-loop; other site 221109000774 ATP binding site [chemical binding]; other site 221109000775 Q-loop/lid; other site 221109000776 ABC transporter signature motif; other site 221109000777 Walker B; other site 221109000778 D-loop; other site 221109000779 H-loop/switch region; other site 221109000780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109000781 Coenzyme A binding pocket [chemical binding]; other site 221109000782 DctM-like transporters; Region: DctM; pfam06808 221109000783 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 221109000784 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 221109000785 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221109000786 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 221109000787 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 221109000788 Protein of unknown function; Region: DUF3658; pfam12395 221109000789 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 221109000790 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 221109000791 FAD binding pocket [chemical binding]; other site 221109000792 conserved FAD binding motif [chemical binding]; other site 221109000793 phosphate binding motif [ion binding]; other site 221109000794 beta-alpha-beta structure motif; other site 221109000795 NAD binding pocket [chemical binding]; other site 221109000796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000797 ABC transporter; Region: ABC_tran; pfam00005 221109000798 ABC transporter signature motif; other site 221109000799 Walker B; other site 221109000800 D-loop; other site 221109000801 H-loop/switch region; other site 221109000802 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 221109000803 LytTr DNA-binding domain; Region: LytTR; pfam04397 221109000804 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109000805 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109000806 Walker A/P-loop; other site 221109000807 ATP binding site [chemical binding]; other site 221109000808 Q-loop/lid; other site 221109000809 ABC transporter signature motif; other site 221109000810 Walker B; other site 221109000811 D-loop; other site 221109000812 H-loop/switch region; other site 221109000813 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109000814 Coenzyme A binding pocket [chemical binding]; other site 221109000815 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 221109000816 VPS10 domain; Region: VPS10; smart00602 221109000817 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 221109000818 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 221109000819 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109000820 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109000821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000822 Walker A/P-loop; other site 221109000823 ATP binding site [chemical binding]; other site 221109000824 Q-loop/lid; other site 221109000825 ABC transporter signature motif; other site 221109000826 Walker B; other site 221109000827 D-loop; other site 221109000828 H-loop/switch region; other site 221109000829 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109000830 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109000831 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 221109000832 Walker A/P-loop; other site 221109000833 ATP binding site [chemical binding]; other site 221109000834 Q-loop/lid; other site 221109000835 ABC transporter signature motif; other site 221109000836 Walker B; other site 221109000837 D-loop; other site 221109000838 H-loop/switch region; other site 221109000839 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 221109000840 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 221109000841 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 221109000842 siderophore binding site; other site 221109000843 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 221109000844 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 221109000845 ABC-ATPase subunit interface; other site 221109000846 dimer interface [polypeptide binding]; other site 221109000847 putative PBP binding regions; other site 221109000848 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 221109000849 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 221109000850 ABC-ATPase subunit interface; other site 221109000851 dimer interface [polypeptide binding]; other site 221109000852 putative PBP binding regions; other site 221109000853 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 221109000854 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221109000855 Walker A/P-loop; other site 221109000856 ATP binding site [chemical binding]; other site 221109000857 Q-loop/lid; other site 221109000858 ABC transporter signature motif; other site 221109000859 Walker B; other site 221109000860 D-loop; other site 221109000861 H-loop/switch region; other site 221109000862 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 221109000863 catalytic residues [active] 221109000864 dimer interface [polypeptide binding]; other site 221109000865 Predicted membrane protein [Function unknown]; Region: COG4325 221109000866 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 221109000867 AAA domain; Region: AAA_17; pfam13207 221109000868 AAA domain; Region: AAA_18; pfam13238 221109000869 small, acid-soluble spore protein O; Region: spore_sspO; TIGR02864 221109000870 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 221109000871 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 221109000872 putative substrate translocation pore; other site 221109000873 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 221109000874 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 221109000875 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109000876 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109000877 Walker A/P-loop; other site 221109000878 ATP binding site [chemical binding]; other site 221109000879 Q-loop/lid; other site 221109000880 ABC transporter signature motif; other site 221109000881 Walker B; other site 221109000882 D-loop; other site 221109000883 H-loop/switch region; other site 221109000884 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 221109000885 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 221109000886 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 221109000887 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109000888 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 221109000889 NlpC/P60 family; Region: NLPC_P60; pfam00877 221109000890 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 221109000891 catalytic residues [active] 221109000892 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 221109000893 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 221109000894 metal-binding site [ion binding] 221109000895 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 221109000896 Soluble P-type ATPase [General function prediction only]; Region: COG4087 221109000897 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 221109000898 dimerization interface [polypeptide binding]; other site 221109000899 putative DNA binding site [nucleotide binding]; other site 221109000900 putative Zn2+ binding site [ion binding]; other site 221109000901 Phosphotransferase enzyme family; Region: APH; pfam01636 221109000902 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 221109000903 active site 221109000904 substrate binding site [chemical binding]; other site 221109000905 ATP binding site [chemical binding]; other site 221109000906 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 221109000907 Isochorismatase family; Region: Isochorismatase; pfam00857 221109000908 catalytic triad [active] 221109000909 conserved cis-peptide bond; other site 221109000910 Heat induced stress protein YflT; Region: YflT; pfam11181 221109000911 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000912 Walker A/P-loop; other site 221109000913 ATP binding site [chemical binding]; other site 221109000914 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 221109000915 Q-loop/lid; other site 221109000916 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000917 ABC transporter signature motif; other site 221109000918 Walker B; other site 221109000919 D-loop; other site 221109000920 H-loop/switch region; other site 221109000921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109000922 Walker A/P-loop; other site 221109000923 ATP binding site [chemical binding]; other site 221109000924 Q-loop/lid; other site 221109000925 ABC transporter signature motif; other site 221109000926 Walker B; other site 221109000927 D-loop; other site 221109000928 H-loop/switch region; other site 221109000929 glycerate kinase; Region: TIGR00045 221109000930 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 221109000931 transmembrane helices; other site 221109000932 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 221109000933 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 221109000934 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 221109000935 Beta-lactamase; Region: Beta-lactamase; pfam00144 221109000936 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_8; cd04665 221109000937 nudix motif; other site 221109000938 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 221109000939 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109000940 Coenzyme A binding pocket [chemical binding]; other site 221109000941 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 221109000942 dimer interface [polypeptide binding]; other site 221109000943 active site/substrate binding site [active] 221109000944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109000945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109000946 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 221109000947 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109000948 putative substrate translocation pore; other site 221109000949 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 221109000950 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 221109000951 heme-binding site [chemical binding]; other site 221109000952 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 221109000953 FAD binding pocket [chemical binding]; other site 221109000954 FAD binding motif [chemical binding]; other site 221109000955 phosphate binding motif [ion binding]; other site 221109000956 beta-alpha-beta structure motif; other site 221109000957 NAD binding pocket [chemical binding]; other site 221109000958 Heme binding pocket [chemical binding]; other site 221109000959 Transcriptional regulator; Region: Rrf2; cl17282 221109000960 Predicted transcriptional regulator [Transcription]; Region: COG1959 221109000961 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109000962 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 221109000963 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 221109000964 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221109000965 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109000966 Coenzyme A binding pocket [chemical binding]; other site 221109000967 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 221109000968 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 221109000969 S-adenosylmethionine binding site [chemical binding]; other site 221109000970 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 221109000971 active site 221109000972 DNA binding site [nucleotide binding] 221109000973 DinB superfamily; Region: DinB_2; pfam12867 221109000974 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109000975 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 221109000976 active site 221109000977 Esterase/lipase [General function prediction only]; Region: COG1647 221109000978 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 221109000979 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 221109000980 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 221109000981 nudix motif; other site 221109000982 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 221109000983 active site 221109000984 NTP binding site [chemical binding]; other site 221109000985 metal binding triad [ion binding]; metal-binding site 221109000986 antibiotic binding site [chemical binding]; other site 221109000987 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 221109000988 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 221109000989 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 221109000990 active site 221109000991 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 221109000992 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 221109000993 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109000994 active site 221109000995 catalytic tetrad [active] 221109000996 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 221109000997 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 221109000998 active site 221109000999 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001000 Coenzyme A binding pocket [chemical binding]; other site 221109001001 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109001002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001003 Coenzyme A binding pocket [chemical binding]; other site 221109001004 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 221109001005 Ligand Binding Site [chemical binding]; other site 221109001006 Uncharacterized conserved protein [Function unknown]; Region: COG5646 221109001007 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 221109001008 S-adenosylmethionine binding site [chemical binding]; other site 221109001009 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 221109001010 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 221109001011 nudix motif; other site 221109001012 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 221109001013 Rrf2 family protein; Region: rrf2_super; TIGR00738 221109001014 Transcriptional regulator; Region: Rrf2; pfam02082 221109001015 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 221109001016 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 221109001017 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 221109001018 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 221109001019 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 221109001020 dimer interface [polypeptide binding]; other site 221109001021 active site 221109001022 metal binding site [ion binding]; metal-binding site 221109001023 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 221109001024 dimerization interface [polypeptide binding]; other site 221109001025 putative DNA binding site [nucleotide binding]; other site 221109001026 putative Zn2+ binding site [ion binding]; other site 221109001027 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_20; cd07254 221109001028 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109001029 putative metal binding site [ion binding]; other site 221109001030 Methyltransferase domain; Region: Methyltransf_31; pfam13847 221109001031 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 221109001032 S-adenosylmethionine binding site [chemical binding]; other site 221109001033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109001034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109001035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109001036 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109001037 NAD(P) binding site [chemical binding]; other site 221109001038 active site 221109001039 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 221109001040 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 221109001041 active site 221109001042 catalytic site [active] 221109001043 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221109001044 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109001045 nucleotide binding site [chemical binding]; other site 221109001046 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 221109001047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001048 Coenzyme A binding pocket [chemical binding]; other site 221109001049 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 221109001050 catalytic core [active] 221109001051 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 221109001052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 221109001053 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 221109001054 GTPase RsgA; Reviewed; Region: PRK01889 221109001055 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 221109001056 RNA binding site [nucleotide binding]; other site 221109001057 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 221109001058 GTPase/Zn-binding domain interface [polypeptide binding]; other site 221109001059 GTP/Mg2+ binding site [chemical binding]; other site 221109001060 G4 box; other site 221109001061 G5 box; other site 221109001062 G1 box; other site 221109001063 Switch I region; other site 221109001064 G2 box; other site 221109001065 G3 box; other site 221109001066 Switch II region; other site 221109001067 DinB family; Region: DinB; cl17821 221109001068 DinB superfamily; Region: DinB_2; pfam12867 221109001069 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109001070 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109001071 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 221109001072 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 221109001073 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109001074 Proteins of 100 residues with WXG; Region: WXG100; cl02005 221109001075 Protein of unknown function (DUF402); Region: DUF402; cl00979 221109001076 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 221109001077 non-specific DNA binding site [nucleotide binding]; other site 221109001078 salt bridge; other site 221109001079 sequence-specific DNA binding site [nucleotide binding]; other site 221109001080 Tetratricopeptide repeat; Region: TPR_12; pfam13424 221109001081 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 221109001082 nudix motif; other site 221109001083 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 221109001084 S-adenosylmethionine binding site [chemical binding]; other site 221109001085 Predicted transcriptional regulators [Transcription]; Region: COG1733 221109001086 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 221109001087 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 221109001088 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 221109001089 Predicted flavoprotein [General function prediction only]; Region: COG0431 221109001090 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109001091 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109001092 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 221109001093 active site 221109001094 phosphorylation site [posttranslational modification] 221109001095 intermolecular recognition site; other site 221109001096 dimerization interface [polypeptide binding]; other site 221109001097 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 221109001098 DNA binding site [nucleotide binding] 221109001099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 221109001100 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 221109001101 dimer interface [polypeptide binding]; other site 221109001102 phosphorylation site [posttranslational modification] 221109001103 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 221109001104 ATP binding site [chemical binding]; other site 221109001105 Mg2+ binding site [ion binding]; other site 221109001106 G-X-G motif; other site 221109001107 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 221109001108 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 221109001109 Walker A/P-loop; other site 221109001110 ATP binding site [chemical binding]; other site 221109001111 Q-loop/lid; other site 221109001112 ABC transporter signature motif; other site 221109001113 Walker B; other site 221109001114 D-loop; other site 221109001115 H-loop/switch region; other site 221109001116 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 221109001117 FtsX-like permease family; Region: FtsX; pfam02687 221109001118 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 221109001119 FtsX-like permease family; Region: FtsX; pfam02687 221109001120 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 221109001121 H+ Antiporter protein; Region: 2A0121; TIGR00900 221109001122 putative substrate translocation pore; other site 221109001123 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 221109001124 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 221109001125 HIGH motif; other site 221109001126 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 221109001127 active site 221109001128 KMSKS motif; other site 221109001129 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 221109001130 tRNA binding surface [nucleotide binding]; other site 221109001131 anticodon binding site; other site 221109001132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001133 Coenzyme A binding pocket [chemical binding]; other site 221109001134 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 221109001135 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 221109001136 Sulfate transporter family; Region: Sulfate_transp; pfam00916 221109001137 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 221109001138 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109001139 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001140 Coenzyme A binding pocket [chemical binding]; other site 221109001141 Glucuronate isomerase; Region: UxaC; pfam02614 221109001142 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 221109001143 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 221109001144 L-lactate permease; Region: Lactate_perm; cl00701 221109001145 Transcriptional regulators [Transcription]; Region: FadR; COG2186 221109001146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109001147 DNA-binding site [nucleotide binding]; DNA binding site 221109001148 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 221109001149 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 221109001150 Cysteine-rich domain; Region: CCG; pfam02754 221109001151 Cysteine-rich domain; Region: CCG; pfam02754 221109001152 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 221109001153 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 221109001154 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 221109001155 Uncharacterized conserved protein [Function unknown]; Region: COG1556 221109001156 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 221109001157 RibD C-terminal domain; Region: RibD_C; cl17279 221109001158 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 221109001159 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 221109001160 amino acid carrier protein; Region: agcS; TIGR00835 221109001161 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221109001162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001163 Coenzyme A binding pocket [chemical binding]; other site 221109001164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001165 Coenzyme A binding pocket [chemical binding]; other site 221109001166 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 221109001167 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109001168 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 221109001169 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 221109001170 DNA binding residues [nucleotide binding] 221109001171 dimer interface [polypeptide binding]; other site 221109001172 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 221109001173 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 221109001174 nucleoside/Zn binding site; other site 221109001175 dimer interface [polypeptide binding]; other site 221109001176 catalytic motif [active] 221109001177 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 221109001178 nudix motif; other site 221109001179 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 221109001180 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 221109001181 active site 221109001182 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 221109001183 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 221109001184 homodimer interface [polypeptide binding]; other site 221109001185 NAD binding pocket [chemical binding]; other site 221109001186 ATP binding pocket [chemical binding]; other site 221109001187 Mg binding site [ion binding]; other site 221109001188 active-site loop [active] 221109001189 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 221109001190 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 221109001191 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 221109001192 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109001193 active site 221109001194 catalytic tetrad [active] 221109001195 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 221109001196 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109001197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109001198 ABC transporter; Region: ABC_tran_2; pfam12848 221109001199 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109001200 Domain of unknown function DUF20; Region: UPF0118; pfam01594 221109001201 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 221109001202 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221109001203 active site 221109001204 HIGH motif; other site 221109001205 nucleotide binding site [chemical binding]; other site 221109001206 Predicted transcriptional regulators [Transcription]; Region: COG1695 221109001207 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 221109001208 TspO/MBR family; Region: TspO_MBR; cl01379 221109001209 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 221109001210 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 221109001211 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 221109001212 Uncharacterized conserved protein [Function unknown]; Region: COG1801 221109001213 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 221109001214 YugN-like family; Region: YugN; pfam08868 221109001215 BCCT family transporter; Region: BCCT; pfam02028 221109001216 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 221109001217 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 221109001218 H+ Antiporter protein; Region: 2A0121; TIGR00900 221109001219 putative substrate translocation pore; other site 221109001220 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 221109001221 dimer interface [polypeptide binding]; other site 221109001222 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 221109001223 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 221109001224 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 221109001225 pullulanase, type I; Region: pulA_typeI; TIGR02104 221109001226 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 221109001227 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 221109001228 Ca binding site [ion binding]; other site 221109001229 active site 221109001230 catalytic site [active] 221109001231 glycogen branching enzyme; Provisional; Region: PRK12313 221109001232 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 221109001233 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 221109001234 active site 221109001235 catalytic site [active] 221109001236 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 221109001237 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 221109001238 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 221109001239 ligand binding site; other site 221109001240 oligomer interface; other site 221109001241 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 221109001242 dimer interface [polypeptide binding]; other site 221109001243 N-terminal domain interface [polypeptide binding]; other site 221109001244 sulfate 1 binding site; other site 221109001245 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 221109001246 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 221109001247 oligomer interface; other site 221109001248 ligand binding site; other site 221109001249 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 221109001250 dimer interface [polypeptide binding]; other site 221109001251 N-terminal domain interface [polypeptide binding]; other site 221109001252 sulfate 1 binding site; other site 221109001253 glycogen synthase; Provisional; Region: glgA; PRK00654 221109001254 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 221109001255 ADP-binding pocket [chemical binding]; other site 221109001256 homodimer interface [polypeptide binding]; other site 221109001257 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 221109001258 homodimer interface [polypeptide binding]; other site 221109001259 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 221109001260 active site pocket [active] 221109001261 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 221109001262 putative hydrophobic ligand binding site [chemical binding]; other site 221109001263 metal-dependent hydrolase; Provisional; Region: PRK13291 221109001264 DinB superfamily; Region: DinB_2; pfam12867 221109001265 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 221109001266 S-adenosylmethionine binding site [chemical binding]; other site 221109001267 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 221109001268 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 221109001269 salt bridge; other site 221109001270 non-specific DNA binding site [nucleotide binding]; other site 221109001271 sequence-specific DNA binding site [nucleotide binding]; other site 221109001272 Protein of unknown function (DUF817); Region: DUF817; pfam05675 221109001273 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 221109001274 transaminase; Reviewed; Region: PRK08068 221109001275 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 221109001276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109001277 homodimer interface [polypeptide binding]; other site 221109001278 catalytic residue [active] 221109001279 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 221109001280 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 221109001281 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 221109001282 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 221109001283 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 221109001284 catalytic motif [active] 221109001285 Zn binding site [ion binding]; other site 221109001286 RibD C-terminal domain; Region: RibD_C; cl17279 221109001287 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 221109001288 dimerization interface [polypeptide binding]; other site 221109001289 active site 221109001290 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 221109001291 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 221109001292 DNA binding residues [nucleotide binding] 221109001293 dimer interface [polypeptide binding]; other site 221109001294 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109001295 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109001296 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109001297 Walker A/P-loop; other site 221109001298 ATP binding site [chemical binding]; other site 221109001299 Q-loop/lid; other site 221109001300 ABC transporter signature motif; other site 221109001301 Walker B; other site 221109001302 D-loop; other site 221109001303 H-loop/switch region; other site 221109001304 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109001305 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109001306 Walker A/P-loop; other site 221109001307 ATP binding site [chemical binding]; other site 221109001308 Q-loop/lid; other site 221109001309 ABC transporter signature motif; other site 221109001310 Walker B; other site 221109001311 D-loop; other site 221109001312 H-loop/switch region; other site 221109001313 Predicted transcriptional regulators [Transcription]; Region: COG1725 221109001314 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109001315 DNA-binding site [nucleotide binding]; DNA binding site 221109001316 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 221109001317 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 221109001318 active site 221109001319 catalytic residue [active] 221109001320 dimer interface [polypeptide binding]; other site 221109001321 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 221109001322 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 221109001323 metal binding site [ion binding]; metal-binding site 221109001324 intersubunit interface [polypeptide binding]; other site 221109001325 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 221109001326 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 221109001327 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 221109001328 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 221109001329 ABC-ATPase subunit interface; other site 221109001330 dimer interface [polypeptide binding]; other site 221109001331 putative PBP binding regions; other site 221109001332 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 221109001333 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 221109001334 ABC-ATPase subunit interface; other site 221109001335 dimer interface [polypeptide binding]; other site 221109001336 putative PBP binding regions; other site 221109001337 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 221109001338 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 221109001339 tetramer interface [polypeptide binding]; other site 221109001340 heme binding pocket [chemical binding]; other site 221109001341 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 221109001342 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 221109001343 FeS/SAM binding site; other site 221109001344 YfkB-like domain; Region: YfkB; pfam08756 221109001345 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_34; cd04693 221109001346 nudix motif; other site 221109001347 Homoserine O-succinyltransferase; Region: HTS; pfam04204 221109001348 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 221109001349 proposed active site lysine [active] 221109001350 conserved cys residue [active] 221109001351 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 221109001352 QueT transporter; Region: QueT; pfam06177 221109001353 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109001354 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_8; cd07246 221109001355 putative dimer interface [polypeptide binding]; other site 221109001356 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 221109001357 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 221109001358 putative metal binding site [ion binding]; other site 221109001359 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 221109001360 active site 221109001361 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 221109001362 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 221109001363 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 221109001364 Predicted esterase [General function prediction only]; Region: COG0400 221109001365 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221109001366 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 221109001367 dimerization interface [polypeptide binding]; other site 221109001368 putative Zn2+ binding site [ion binding]; other site 221109001369 putative DNA binding site [nucleotide binding]; other site 221109001370 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 221109001371 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109001372 active site 221109001373 catalytic tetrad [active] 221109001374 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 221109001375 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 221109001376 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 221109001377 Walker A/P-loop; other site 221109001378 ATP binding site [chemical binding]; other site 221109001379 Q-loop/lid; other site 221109001380 ABC transporter signature motif; other site 221109001381 Walker B; other site 221109001382 D-loop; other site 221109001383 H-loop/switch region; other site 221109001384 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 221109001385 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109001386 ABC transporter; Region: ABC_tran_2; pfam12848 221109001387 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109001388 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109001389 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 221109001390 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221109001391 Walker A/P-loop; other site 221109001392 ATP binding site [chemical binding]; other site 221109001393 Q-loop/lid; other site 221109001394 ABC transporter signature motif; other site 221109001395 Walker B; other site 221109001396 D-loop; other site 221109001397 H-loop/switch region; other site 221109001398 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 221109001399 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 221109001400 putative ligand binding residues [chemical binding]; other site 221109001401 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 221109001402 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 221109001403 ABC-ATPase subunit interface; other site 221109001404 dimer interface [polypeptide binding]; other site 221109001405 putative PBP binding regions; other site 221109001406 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 221109001407 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 221109001408 ABC-ATPase subunit interface; other site 221109001409 dimer interface [polypeptide binding]; other site 221109001410 putative PBP binding regions; other site 221109001411 hypothetical protein; Validated; Region: PRK00124 221109001412 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 221109001413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109001414 Coenzyme A binding pocket [chemical binding]; other site 221109001415 Protein of unknown function (DUF3219); Region: DUF3219; pfam11514 221109001416 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 221109001417 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 221109001418 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 221109001419 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 221109001420 putative RNA binding site [nucleotide binding]; other site 221109001421 Methyltransferase domain; Region: Methyltransf_26; pfam13659 221109001422 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 221109001423 putative catalytic site [active] 221109001424 putative metal binding site [ion binding]; other site 221109001425 putative phosphate binding site [ion binding]; other site 221109001426 ornithine carbamoyltransferase; Provisional; Region: PRK00779 221109001427 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 221109001428 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 221109001429 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 221109001430 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 221109001431 active site 221109001432 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 221109001433 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 221109001434 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 221109001435 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221109001436 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 221109001437 homoserine kinase; Provisional; Region: PRK01212 221109001438 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 221109001439 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 221109001440 threonine synthase; Reviewed; Region: PRK06721 221109001441 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 221109001442 homodimer interface [polypeptide binding]; other site 221109001443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109001444 catalytic residue [active] 221109001445 homoserine dehydrogenase; Provisional; Region: PRK06349 221109001446 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 221109001447 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 221109001448 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 221109001449 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 221109001450 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 221109001451 putative substrate translocation pore; other site 221109001452 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 221109001453 substrate binding pocket [chemical binding]; other site 221109001454 substrate-Mg2+ binding site; other site 221109001455 aspartate-rich region 1; other site 221109001456 aspartate-rich region 2; other site 221109001457 BCCT family transporter; Region: BCCT; pfam02028 221109001458 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 221109001459 thiamine phosphate binding site [chemical binding]; other site 221109001460 active site 221109001461 pyrophosphate binding site [ion binding]; other site 221109001462 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 221109001463 substrate binding site [chemical binding]; other site 221109001464 multimerization interface [polypeptide binding]; other site 221109001465 ATP binding site [chemical binding]; other site 221109001466 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 221109001467 dimer interface [polypeptide binding]; other site 221109001468 substrate binding site [chemical binding]; other site 221109001469 ATP binding site [chemical binding]; other site 221109001470 Putative transcription activator [Transcription]; Region: TenA; COG0819 221109001471 thiW protein; Region: thiW; TIGR02359 221109001472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109001473 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 221109001474 ATP binding site [chemical binding]; other site 221109001475 Q-loop/lid; other site 221109001476 ABC transporter signature motif; other site 221109001477 Walker B; other site 221109001478 D-loop; other site 221109001479 H-loop/switch region; other site 221109001480 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 221109001481 LytTr DNA-binding domain; Region: LytTR; pfam04397 221109001482 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109001483 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109001484 Walker A/P-loop; other site 221109001485 ATP binding site [chemical binding]; other site 221109001486 Q-loop/lid; other site 221109001487 ABC transporter signature motif; other site 221109001488 Walker B; other site 221109001489 D-loop; other site 221109001490 H-loop/switch region; other site 221109001491 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 221109001492 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 221109001493 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 221109001494 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 221109001495 Spore germination protein; Region: Spore_permease; cl17796 221109001496 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 221109001497 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 221109001498 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109001499 NAD(P) binding site [chemical binding]; other site 221109001500 catalytic residues [active] 221109001501 similar to transposase for Tn1546 221109001502 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 221109001503 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109001504 putative substrate translocation pore; other site 221109001505 amino acid transporter; Region: 2A0306; TIGR00909 221109001506 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 221109001507 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 221109001508 inhibitor-cofactor binding pocket; inhibition site 221109001509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109001510 catalytic residue [active] 221109001511 Phosphotransferase enzyme family; Region: APH; pfam01636 221109001512 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 221109001513 active site 221109001514 ATP binding site [chemical binding]; other site 221109001515 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 221109001516 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109001517 NAD binding site [chemical binding]; other site 221109001518 catalytic residues [active] 221109001519 substrate binding site [chemical binding]; other site 221109001520 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 221109001521 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 221109001522 putative substrate translocation pore; other site 221109001523 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 221109001524 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 221109001525 N- and C-terminal domain interface [polypeptide binding]; other site 221109001526 active site 221109001527 putative catalytic site [active] 221109001528 metal binding site [ion binding]; metal-binding site 221109001529 ATP binding site [chemical binding]; other site 221109001530 carbohydrate binding site [chemical binding]; other site 221109001531 L-rhamnose isomerase; Provisional; Region: PRK01076 221109001532 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 221109001533 rhamnulose-1-phosphate aldolase; Region: rhamnu_1P_ald; TIGR02624 221109001534 intersubunit interface [polypeptide binding]; other site 221109001535 active site 221109001536 Zn2+ binding site [ion binding]; other site 221109001537 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 221109001538 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 221109001539 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 221109001540 Lamin Tail Domain; Region: LTD; pfam00932 221109001541 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 221109001542 generic binding surface II; other site 221109001543 generic binding surface I; other site 221109001544 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 221109001545 generic binding surface II; other site 221109001546 generic binding surface I; other site 221109001547 Staphylococcal nuclease homologues; Region: SNc; smart00318 221109001548 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 221109001549 Catalytic site; other site 221109001550 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 221109001551 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 221109001552 putative active site [active] 221109001553 putative metal binding site [ion binding]; other site 221109001554 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 221109001555 Protein of unknown function (DUF997); Region: DUF997; pfam06196 221109001556 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 221109001557 Na binding site [ion binding]; other site 221109001558 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 221109001559 Uncharacterized conserved protein [Function unknown]; Region: COG3595 221109001560 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 221109001561 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 221109001562 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 221109001563 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 221109001564 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 221109001565 acyl-activating enzyme (AAE) consensus motif; other site 221109001566 putative AMP binding site [chemical binding]; other site 221109001567 putative active site [active] 221109001568 putative CoA binding site [chemical binding]; other site 221109001569 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 221109001570 Virulence factor; Region: Virulence_fact; pfam13769 221109001571 HEAT repeats; Region: HEAT_2; pfam13646 221109001572 HEAT repeats; Region: HEAT_2; pfam13646 221109001573 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 221109001574 intracellular protease, PfpI family; Region: PfpI; TIGR01382 221109001575 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 221109001576 proposed catalytic triad [active] 221109001577 conserved cys residue [active] 221109001578 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 221109001579 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109001580 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_6; cd07242 221109001581 putative dimer interface [polypeptide binding]; other site 221109001582 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109001583 ligand binding site [chemical binding]; other site 221109001584 Zn binding site [ion binding]; other site 221109001585 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 221109001586 active site 221109001587 putative catalytic site [active] 221109001588 DNA binding site [nucleotide binding] 221109001589 putative phosphate binding site [ion binding]; other site 221109001590 metal binding site A [ion binding]; metal-binding site 221109001591 AP binding site [nucleotide binding]; other site 221109001592 metal binding site B [ion binding]; metal-binding site 221109001593 Predicted transcriptional regulators [Transcription]; Region: COG1725 221109001594 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109001595 DNA-binding site [nucleotide binding]; DNA binding site 221109001596 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 221109001597 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109001598 Walker A/P-loop; other site 221109001599 ATP binding site [chemical binding]; other site 221109001600 Q-loop/lid; other site 221109001601 ABC transporter signature motif; other site 221109001602 Walker B; other site 221109001603 D-loop; other site 221109001604 H-loop/switch region; other site 221109001605 similar to L-2,4-diaminobutyric acid acetyl transferase 221109001606 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 221109001607 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 221109001608 inhibitor-cofactor binding pocket; inhibition site 221109001609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109001610 catalytic residue [active] 221109001611 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 221109001612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109001613 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109001614 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 221109001615 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 221109001616 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 221109001617 substrate binding site [chemical binding]; other site 221109001618 active site 221109001619 catalytic residues [active] 221109001620 heterodimer interface [polypeptide binding]; other site 221109001621 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 221109001622 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 221109001623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109001624 catalytic residue [active] 221109001625 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 221109001626 active site 221109001627 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 221109001628 active site 221109001629 ribulose/triose binding site [chemical binding]; other site 221109001630 phosphate binding site [ion binding]; other site 221109001631 substrate (anthranilate) binding pocket [chemical binding]; other site 221109001632 product (indole) binding pocket [chemical binding]; other site 221109001633 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 221109001634 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 221109001635 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 221109001636 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 221109001637 Glutamine amidotransferase class-I; Region: GATase; pfam00117 221109001638 glutamine binding [chemical binding]; other site 221109001639 catalytic triad [active] 221109001640 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 221109001641 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 221109001642 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 221109001643 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 221109001644 putative FMN binding site [chemical binding]; other site 221109001645 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 221109001646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109001647 Zn2+ binding site [ion binding]; other site 221109001648 Mg2+ binding site [ion binding]; other site 221109001649 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109001650 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 221109001651 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 221109001652 peptidase T; Region: peptidase-T; TIGR01882 221109001653 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 221109001654 metal binding site [ion binding]; metal-binding site 221109001655 dimer interface [polypeptide binding]; other site 221109001656 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 221109001657 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 221109001658 active site residue [active] 221109001659 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 221109001660 active site residue [active] 221109001661 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 221109001662 CHASE3 domain; Region: CHASE3; cl05000 221109001663 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 221109001664 dimerization interface [polypeptide binding]; other site 221109001665 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109001666 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109001667 dimer interface [polypeptide binding]; other site 221109001668 putative CheW interface [polypeptide binding]; other site 221109001669 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 221109001670 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109001671 active site 221109001672 catalytic tetrad [active] 221109001673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109001674 Zn2+ binding site [ion binding]; other site 221109001675 Mg2+ binding site [ion binding]; other site 221109001676 isopentenyl-diphosphate delta-isomerase, type 2; Region: IPP_isom_2; TIGR02151 221109001677 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 221109001678 homotetramer interface [polypeptide binding]; other site 221109001679 FMN binding site [chemical binding]; other site 221109001680 homodimer contacts [polypeptide binding]; other site 221109001681 putative active site [active] 221109001682 putative substrate binding site [chemical binding]; other site 221109001683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 221109001684 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 221109001685 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 221109001686 ABC-ATPase subunit interface; other site 221109001687 dimer interface [polypeptide binding]; other site 221109001688 putative PBP binding regions; other site 221109001689 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 221109001690 ABC-ATPase subunit interface; other site 221109001691 dimer interface [polypeptide binding]; other site 221109001692 putative PBP binding regions; other site 221109001693 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 221109001694 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221109001695 Walker A/P-loop; other site 221109001696 ATP binding site [chemical binding]; other site 221109001697 Q-loop/lid; other site 221109001698 ABC transporter signature motif; other site 221109001699 Walker B; other site 221109001700 D-loop; other site 221109001701 H-loop/switch region; other site 221109001702 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 221109001703 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 221109001704 putative ligand binding residues [chemical binding]; other site 221109001705 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 221109001706 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 221109001707 catalytic residues [active] 221109001708 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 221109001709 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 221109001710 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 221109001711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109001712 homodimer interface [polypeptide binding]; other site 221109001713 catalytic residue [active] 221109001714 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 221109001715 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 221109001716 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 221109001717 metal binding site [ion binding]; metal-binding site 221109001718 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 221109001719 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 221109001720 substrate binding site [chemical binding]; other site 221109001721 glutamase interaction surface [polypeptide binding]; other site 221109001722 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 221109001723 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 221109001724 catalytic residues [active] 221109001725 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 221109001726 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 221109001727 putative active site [active] 221109001728 oxyanion strand; other site 221109001729 catalytic triad [active] 221109001730 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 221109001731 putative active site pocket [active] 221109001732 4-fold oligomerization interface [polypeptide binding]; other site 221109001733 metal binding residues [ion binding]; metal-binding site 221109001734 3-fold/trimer interface [polypeptide binding]; other site 221109001735 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 221109001736 histidinol dehydrogenase; Region: hisD; TIGR00069 221109001737 NAD binding site [chemical binding]; other site 221109001738 dimerization interface [polypeptide binding]; other site 221109001739 product binding site; other site 221109001740 substrate binding site [chemical binding]; other site 221109001741 zinc binding site [ion binding]; other site 221109001742 catalytic residues [active] 221109001743 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 221109001744 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 221109001745 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 221109001746 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 221109001747 dimer interface [polypeptide binding]; other site 221109001748 motif 1; other site 221109001749 active site 221109001750 motif 2; other site 221109001751 motif 3; other site 221109001752 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 221109001753 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 221109001754 active site 221109001755 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 221109001756 PGAP1-like protein; Region: PGAP1; pfam07819 221109001757 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 221109001758 FAD binding domain; Region: FAD_binding_4; pfam01565 221109001759 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 221109001760 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 221109001761 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 221109001762 Walker A/P-loop; other site 221109001763 ATP binding site [chemical binding]; other site 221109001764 Q-loop/lid; other site 221109001765 ABC transporter signature motif; other site 221109001766 Walker B; other site 221109001767 D-loop; other site 221109001768 H-loop/switch region; other site 221109001769 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221109001770 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 221109001771 dimer interface [polypeptide binding]; other site 221109001772 conserved gate region; other site 221109001773 putative PBP binding loops; other site 221109001774 ABC-ATPase subunit interface; other site 221109001775 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221109001776 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 221109001777 dimer interface [polypeptide binding]; other site 221109001778 conserved gate region; other site 221109001779 putative PBP binding loops; other site 221109001780 ABC-ATPase subunit interface; other site 221109001781 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 221109001782 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 221109001783 substrate binding pocket [chemical binding]; other site 221109001784 membrane-bound complex binding site; other site 221109001785 hinge residues; other site 221109001786 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 221109001787 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 221109001788 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 221109001789 Protein of unknown function (DUF456); Region: DUF456; pfam04306 221109001790 Isochorismatase family; Region: Isochorismatase; pfam00857 221109001791 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 221109001792 catalytic triad [active] 221109001793 conserved cis-peptide bond; other site 221109001794 prolyl-tRNA synthetase; Provisional; Region: PRK08661 221109001795 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_arch_euk; cd00778 221109001796 dimer interface [polypeptide binding]; other site 221109001797 motif 1; other site 221109001798 active site 221109001799 motif 2; other site 221109001800 motif 3; other site 221109001801 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 221109001802 anticodon binding site; other site 221109001803 zinc-binding site [ion binding]; other site 221109001804 Predicted transcriptional regulators [Transcription]; Region: COG1695 221109001805 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 221109001806 hypothetical protein; Validated; Region: PRK07668 221109001807 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 221109001808 amidohydrolase; Region: amidohydrolases; TIGR01891 221109001809 metal binding site [ion binding]; metal-binding site 221109001810 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 221109001811 catalytic residues [active] 221109001812 dimer interface [polypeptide binding]; other site 221109001813 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 221109001814 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 221109001815 active site residue [active] 221109001816 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 221109001817 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 221109001818 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 221109001819 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 221109001820 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 221109001821 active site 221109001822 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 221109001823 DNA-binding site [nucleotide binding]; DNA binding site 221109001824 RNA-binding motif; other site 221109001825 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 221109001826 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 221109001827 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 221109001828 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 221109001829 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 221109001830 protein binding site [polypeptide binding]; other site 221109001831 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109001832 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 221109001833 active site 221109001834 phosphorylation site [posttranslational modification] 221109001835 intermolecular recognition site; other site 221109001836 dimerization interface [polypeptide binding]; other site 221109001837 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 221109001838 DNA binding site [nucleotide binding] 221109001839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 221109001840 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 221109001841 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 221109001842 dimer interface [polypeptide binding]; other site 221109001843 phosphorylation site [posttranslational modification] 221109001844 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 221109001845 ATP binding site [chemical binding]; other site 221109001846 Mg2+ binding site [ion binding]; other site 221109001847 G-X-G motif; other site 221109001848 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 221109001849 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 221109001850 G1 box; other site 221109001851 putative GEF interaction site [polypeptide binding]; other site 221109001852 GTP/Mg2+ binding site [chemical binding]; other site 221109001853 Switch I region; other site 221109001854 G2 box; other site 221109001855 G3 box; other site 221109001856 Switch II region; other site 221109001857 G4 box; other site 221109001858 G5 box; other site 221109001859 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 221109001860 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 221109001861 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 221109001862 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 221109001863 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 221109001864 PAS domain; Region: PAS_9; pfam13426 221109001865 putative active site [active] 221109001866 heme pocket [chemical binding]; other site 221109001867 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 221109001868 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 221109001869 Amidinotransferase; Region: Amidinotransf; pfam02274 221109001870 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 221109001871 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 221109001872 putative active site [active] 221109001873 putative metal binding site [ion binding]; other site 221109001874 Domain of unknown function (DUF368); Region: DUF368; pfam04018 221109001875 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 221109001876 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 221109001877 catalytic residues [active] 221109001878 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109001879 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 221109001880 active site 221109001881 phosphorylation site [posttranslational modification] 221109001882 intermolecular recognition site; other site 221109001883 dimerization interface [polypeptide binding]; other site 221109001884 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 221109001885 DNA binding site [nucleotide binding] 221109001886 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 221109001887 dimerization interface [polypeptide binding]; other site 221109001888 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 221109001889 dimer interface [polypeptide binding]; other site 221109001890 phosphorylation site [posttranslational modification] 221109001891 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 221109001892 ATP binding site [chemical binding]; other site 221109001893 Mg2+ binding site [ion binding]; other site 221109001894 G-X-G motif; other site 221109001895 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109001896 Predicted membrane protein [Function unknown]; Region: COG3212 221109001897 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109001898 Predicted membrane protein [Function unknown]; Region: COG3212 221109001899 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109001900 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109001901 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 221109001902 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 221109001903 active site 221109001904 metal binding site [ion binding]; metal-binding site 221109001905 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 221109001906 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 221109001907 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 221109001908 dimer interface [polypeptide binding]; other site 221109001909 conserved gate region; other site 221109001910 putative PBP binding loops; other site 221109001911 ABC-ATPase subunit interface; other site 221109001912 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 221109001913 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 221109001914 dimer interface [polypeptide binding]; other site 221109001915 conserved gate region; other site 221109001916 ABC-ATPase subunit interface; other site 221109001917 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 221109001918 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 221109001919 Walker A/P-loop; other site 221109001920 ATP binding site [chemical binding]; other site 221109001921 Q-loop/lid; other site 221109001922 ABC transporter signature motif; other site 221109001923 Walker B; other site 221109001924 D-loop; other site 221109001925 H-loop/switch region; other site 221109001926 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 221109001927 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 221109001928 substrate binding pocket [chemical binding]; other site 221109001929 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 221109001930 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221109001931 MarR family; Region: MarR; pfam01047 221109001932 MarR family; Region: MarR_2; cl17246 221109001933 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 221109001934 YppG-like protein; Region: YppG; pfam14179 221109001935 Esterase/lipase [General function prediction only]; Region: COG1647 221109001936 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 221109001937 nucleophilic elbow; other site 221109001938 catalytic triad; other site 221109001939 EDD domain protein, DegV family; Region: DegV; TIGR00762 221109001940 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 221109001941 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 221109001942 EamA-like transporter family; Region: EamA; pfam00892 221109001943 helicase 45; Provisional; Region: PTZ00424 221109001944 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 221109001945 ATP binding site [chemical binding]; other site 221109001946 Mg++ binding site [ion binding]; other site 221109001947 motif III; other site 221109001948 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 221109001949 nucleotide binding region [chemical binding]; other site 221109001950 ATP-binding site [chemical binding]; other site 221109001951 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109001952 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109001953 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 221109001954 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 221109001955 active site 221109001956 trimer interface [polypeptide binding]; other site 221109001957 allosteric site; other site 221109001958 active site lid [active] 221109001959 hexamer (dimer of trimers) interface [polypeptide binding]; other site 221109001960 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 221109001961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109001962 DNA-binding site [nucleotide binding]; DNA binding site 221109001963 UTRA domain; Region: UTRA; pfam07702 221109001964 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 221109001965 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 221109001966 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 221109001967 putative active site [active] 221109001968 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 221109001969 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 221109001970 putative active site [active] 221109001971 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 221109001972 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 221109001973 active site turn [active] 221109001974 phosphorylation site [posttranslational modification] 221109001975 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 221109001976 Uncharacterized conserved protein [Function unknown]; Region: COG3589 221109001977 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 221109001978 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 221109001979 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 221109001980 Rhomboid family; Region: Rhomboid; pfam01694 221109001981 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 221109001982 putative carbohydrate kinase; Provisional; Region: PRK10565 221109001983 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 221109001984 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 221109001985 putative substrate binding site [chemical binding]; other site 221109001986 putative ATP binding site [chemical binding]; other site 221109001987 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 221109001988 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 221109001989 PemK-like protein; Region: PemK; pfam02452 221109001990 Rsbr N terminal; Region: Rsbr_N; pfam08678 221109001991 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 221109001992 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 221109001993 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 221109001994 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 221109001995 ATP binding site [chemical binding]; other site 221109001996 Mg2+ binding site [ion binding]; other site 221109001997 G-X-G motif; other site 221109001998 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 221109001999 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 221109002000 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 221109002001 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 221109002002 anti sigma factor interaction site; other site 221109002003 regulatory phosphorylation site [posttranslational modification]; other site 221109002004 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 221109002005 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 221109002006 ATP binding site [chemical binding]; other site 221109002007 Mg2+ binding site [ion binding]; other site 221109002008 G-X-G motif; other site 221109002009 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 221109002010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109002011 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 221109002012 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 221109002013 DNA binding residues [nucleotide binding] 221109002014 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 221109002015 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 221109002016 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 221109002017 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 221109002018 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 221109002019 RNA binding site [nucleotide binding]; other site 221109002020 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 221109002021 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 221109002022 tetramer interface [polypeptide binding]; other site 221109002023 heme binding pocket [chemical binding]; other site 221109002024 NADPH binding site [chemical binding]; other site 221109002025 hypothetical protein; Provisional; Region: PRK04351 221109002026 SprT homologues; Region: SprT; cl01182 221109002027 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 221109002028 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 221109002029 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 221109002030 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109002031 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 221109002032 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 221109002033 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 221109002034 hypothetical protein; Provisional; Region: PRK06184 221109002035 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 221109002036 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 221109002037 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 221109002038 Serine hydrolase; Region: Ser_hydrolase; cl17834 221109002039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221109002040 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 221109002041 Protein of unknown function, DUF393; Region: DUF393; pfam04134 221109002042 Putative transcription activator [Transcription]; Region: TenA; COG0819 221109002043 conserved hypothetical protein; Region: lin0512_fam; TIGR02058 221109002044 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 221109002045 substrate binding site [chemical binding]; other site 221109002046 multimerization interface [polypeptide binding]; other site 221109002047 ATP binding site [chemical binding]; other site 221109002048 thiamine monophosphate kinase; Provisional; Region: PRK05731 221109002049 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 221109002050 ATP binding site [chemical binding]; other site 221109002051 dimerization interface [polypeptide binding]; other site 221109002052 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 221109002053 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 221109002054 Glycoprotease family; Region: Peptidase_M22; pfam00814 221109002055 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 221109002056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109002057 Coenzyme A binding pocket [chemical binding]; other site 221109002058 UGMP family protein; Validated; Region: PRK09604 221109002059 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 221109002060 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 221109002061 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 221109002062 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 221109002063 Transporter associated domain; Region: CorC_HlyC; pfam03471 221109002064 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 221109002065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002066 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002067 ABC transporter; Region: ABC_tran_2; pfam12848 221109002068 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002069 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 221109002070 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 221109002071 CoA binding domain; Region: CoA_binding; pfam02629 221109002072 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 221109002073 CAAX protease self-immunity; Region: Abi; pfam02517 221109002074 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 221109002075 oligomerisation interface [polypeptide binding]; other site 221109002076 mobile loop; other site 221109002077 roof hairpin; other site 221109002078 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 221109002079 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 221109002080 ring oligomerisation interface [polypeptide binding]; other site 221109002081 ATP/Mg binding site [chemical binding]; other site 221109002082 stacking interactions; other site 221109002083 hinge regions; other site 221109002084 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 221109002085 nucleoside/Zn binding site; other site 221109002086 dimer interface [polypeptide binding]; other site 221109002087 catalytic motif [active] 221109002088 A new structural DNA glycosylase; Region: AlkD_like; cd06561 221109002089 active site 221109002090 BCCT family transporter; Region: BCCT; pfam02028 221109002091 tartrate dehydrogenase; Provisional; Region: PRK08194 221109002092 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 221109002093 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 221109002094 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 221109002095 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 221109002096 Na binding site [ion binding]; other site 221109002097 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 221109002098 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 221109002099 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 221109002100 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109002101 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 221109002102 active site 221109002103 Zn binding site [ion binding]; other site 221109002104 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 221109002105 Beta-lactamase; Region: Beta-lactamase; cl17358 221109002106 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_6; cd06243 221109002107 putative active site [active] 221109002108 Zn binding site [ion binding]; other site 221109002109 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 221109002110 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 221109002111 acyl-activating enzyme (AAE) consensus motif; other site 221109002112 putative AMP binding site [chemical binding]; other site 221109002113 putative active site [active] 221109002114 putative CoA binding site [chemical binding]; other site 221109002115 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109002116 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 221109002117 active site 221109002118 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109002119 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 221109002120 NAD(P) binding site [chemical binding]; other site 221109002121 homotetramer interface [polypeptide binding]; other site 221109002122 homodimer interface [polypeptide binding]; other site 221109002123 active site 221109002124 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 221109002125 active site 221109002126 catalytic site [active] 221109002127 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 221109002128 active site 221109002129 catalytic site [active] 221109002130 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109002131 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 221109002132 FAD binding site [chemical binding]; other site 221109002133 substrate binding site [chemical binding]; other site 221109002134 catalytic base [active] 221109002135 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 221109002136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109002137 NAD(P) binding site [chemical binding]; other site 221109002138 active site 221109002139 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 221109002140 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 221109002141 dimer interface [polypeptide binding]; other site 221109002142 active site 221109002143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109002144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109002145 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 221109002146 active site 221109002147 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 221109002148 Phosphotransferase enzyme family; Region: APH; pfam01636 221109002149 putative active site [active] 221109002150 putative substrate binding site [chemical binding]; other site 221109002151 ATP binding site [chemical binding]; other site 221109002152 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 221109002153 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 221109002154 enoyl-CoA hydratase; Provisional; Region: PRK06688 221109002155 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 221109002156 substrate binding site [chemical binding]; other site 221109002157 oxyanion hole (OAH) forming residues; other site 221109002158 trimer interface [polypeptide binding]; other site 221109002159 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 221109002160 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 221109002161 TM-ABC transporter signature motif; other site 221109002162 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 221109002163 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 221109002164 TM-ABC transporter signature motif; other site 221109002165 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 221109002166 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 221109002167 Walker A/P-loop; other site 221109002168 ATP binding site [chemical binding]; other site 221109002169 Q-loop/lid; other site 221109002170 ABC transporter signature motif; other site 221109002171 Walker B; other site 221109002172 D-loop; other site 221109002173 H-loop/switch region; other site 221109002174 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 221109002175 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 221109002176 Walker A/P-loop; other site 221109002177 ATP binding site [chemical binding]; other site 221109002178 Q-loop/lid; other site 221109002179 ABC transporter signature motif; other site 221109002180 Walker B; other site 221109002181 D-loop; other site 221109002182 H-loop/switch region; other site 221109002183 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 221109002184 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_3; cd06336 221109002185 putative ligand binding site [chemical binding]; other site 221109002186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109002187 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 221109002188 active site 221109002189 putative acyltransferase; Provisional; Region: PRK05790 221109002190 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 221109002191 dimer interface [polypeptide binding]; other site 221109002192 active site 221109002193 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 221109002194 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 221109002195 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 221109002196 Predicted membrane protein [Function unknown]; Region: COG1288 221109002197 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 221109002198 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 221109002199 Spore germination protein; Region: Spore_permease; cl17796 221109002200 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 221109002201 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 221109002202 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 221109002203 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 221109002204 active site 221109002205 FMN binding site [chemical binding]; other site 221109002206 substrate binding site [chemical binding]; other site 221109002207 3Fe-4S cluster binding site [ion binding]; other site 221109002208 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 221109002209 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 221109002210 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 221109002211 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002212 ABC transporter; Region: ABC_tran_2; pfam12848 221109002213 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002214 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 221109002215 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 221109002216 glutamine binding [chemical binding]; other site 221109002217 catalytic triad [active] 221109002218 aminodeoxychorismate synthase; Provisional; Region: PRK07508 221109002219 chorismate binding enzyme; Region: Chorismate_bind; cl10555 221109002220 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 221109002221 substrate-cofactor binding pocket; other site 221109002222 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 221109002223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109002224 intracellular protease, PfpI family; Region: PfpI; TIGR01382 221109002225 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 221109002226 proposed catalytic triad [active] 221109002227 conserved cys residue [active] 221109002228 BCCT family transporter; Region: BCCT; pfam02028 221109002229 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 221109002230 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 221109002231 putative metal binding site [ion binding]; other site 221109002232 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 221109002233 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 221109002234 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 221109002235 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221109002236 Walker A/P-loop; other site 221109002237 ATP binding site [chemical binding]; other site 221109002238 Q-loop/lid; other site 221109002239 ABC transporter signature motif; other site 221109002240 Walker B; other site 221109002241 D-loop; other site 221109002242 H-loop/switch region; other site 221109002243 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 221109002244 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 221109002245 ABC-ATPase subunit interface; other site 221109002246 dimer interface [polypeptide binding]; other site 221109002247 putative PBP binding regions; other site 221109002248 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 221109002249 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 221109002250 ABC-ATPase subunit interface; other site 221109002251 dimer interface [polypeptide binding]; other site 221109002252 putative PBP binding regions; other site 221109002253 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 221109002254 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 221109002255 putative ligand binding residues [chemical binding]; other site 221109002256 amidase; Provisional; Region: PRK06529 221109002257 Amidase; Region: Amidase; cl11426 221109002258 AbgT putative transporter family; Region: ABG_transport; pfam03806 221109002259 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 221109002260 MoxR-like ATPases [General function prediction only]; Region: COG0714 221109002261 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 221109002262 Walker A motif; other site 221109002263 ATP binding site [chemical binding]; other site 221109002264 Walker B motif; other site 221109002265 arginine finger; other site 221109002266 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 221109002267 Protein of unknown function DUF58; Region: DUF58; pfam01882 221109002268 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 221109002269 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 221109002270 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 221109002271 GMP synthase; Reviewed; Region: guaA; PRK00074 221109002272 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 221109002273 AMP/PPi binding site [chemical binding]; other site 221109002274 candidate oxyanion hole; other site 221109002275 catalytic triad [active] 221109002276 potential glutamine specificity residues [chemical binding]; other site 221109002277 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 221109002278 ATP Binding subdomain [chemical binding]; other site 221109002279 Ligand Binding sites [chemical binding]; other site 221109002280 Dimerization subdomain; other site 221109002281 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 221109002282 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 221109002283 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109002284 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109002285 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109002286 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109002287 Walker A/P-loop; other site 221109002288 ATP binding site [chemical binding]; other site 221109002289 Q-loop/lid; other site 221109002290 ABC transporter signature motif; other site 221109002291 Walker B; other site 221109002292 D-loop; other site 221109002293 H-loop/switch region; other site 221109002294 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 221109002295 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 221109002296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221109002297 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221109002298 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 221109002299 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 221109002300 galactoside permease; Reviewed; Region: lacY; PRK09528 221109002301 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 221109002302 putative substrate translocation pore; other site 221109002303 Peptidase C26; Region: Peptidase_C26; pfam07722 221109002304 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 221109002305 catalytic triad [active] 221109002306 RibD C-terminal domain; Region: RibD_C; cl17279 221109002307 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 221109002308 DoxX-like family; Region: DoxX_3; pfam13781 221109002309 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 221109002310 YndJ-like protein; Region: YndJ; pfam14158 221109002311 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 221109002312 dockerin binding interface; other site 221109002313 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 221109002314 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 221109002315 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 221109002316 putative active site [active] 221109002317 catalytic triad [active] 221109002318 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 221109002319 PA/protease domain interface [polypeptide binding]; other site 221109002320 putative integrin binding motif; other site 221109002321 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 221109002322 methionine sulfoxide reductase A; Provisional; Region: PRK14054 221109002323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 221109002324 MOSC domain; Region: MOSC; pfam03473 221109002325 3-alpha domain; Region: 3-alpha; pfam03475 221109002326 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 221109002327 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 221109002328 DNA binding site [nucleotide binding] 221109002329 active site 221109002330 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 221109002331 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 221109002332 hypothetical protein; Provisional; Region: PRK04164 221109002333 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 221109002334 AIR carboxylase; Region: AIRC; pfam00731 221109002335 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 221109002336 ATP-grasp domain; Region: ATP-grasp; pfam02222 221109002337 adenylosuccinate lyase; Provisional; Region: PRK07492 221109002338 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 221109002339 tetramer interface [polypeptide binding]; other site 221109002340 active site 221109002341 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 221109002342 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 221109002343 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 221109002344 ATP binding site [chemical binding]; other site 221109002345 active site 221109002346 substrate binding site [chemical binding]; other site 221109002347 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 221109002348 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 221109002349 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 221109002350 putative active site [active] 221109002351 catalytic triad [active] 221109002352 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 221109002353 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 221109002354 dimerization interface [polypeptide binding]; other site 221109002355 ATP binding site [chemical binding]; other site 221109002356 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 221109002357 dimerization interface [polypeptide binding]; other site 221109002358 ATP binding site [chemical binding]; other site 221109002359 amidophosphoribosyltransferase; Provisional; Region: PRK07631 221109002360 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 221109002361 active site 221109002362 tetramer interface [polypeptide binding]; other site 221109002363 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109002364 active site 221109002365 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 221109002366 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 221109002367 dimerization interface [polypeptide binding]; other site 221109002368 putative ATP binding site [chemical binding]; other site 221109002369 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 221109002370 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 221109002371 active site 221109002372 substrate binding site [chemical binding]; other site 221109002373 cosubstrate binding site; other site 221109002374 catalytic site [active] 221109002375 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 221109002376 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 221109002377 purine monophosphate binding site [chemical binding]; other site 221109002378 dimer interface [polypeptide binding]; other site 221109002379 putative catalytic residues [active] 221109002380 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 221109002381 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 221109002382 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 221109002383 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 221109002384 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 221109002385 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 221109002386 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 221109002387 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 221109002388 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 221109002389 active site 221109002390 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 221109002391 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 221109002392 TrpR-related protein YerC/YecD; Region: yecD_yerC; TIGR02531 221109002393 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 221109002394 arylformamidase; Region: trp_arylform; TIGR03035 221109002395 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 221109002396 kynureninase; Region: kynureninase; TIGR01814 221109002397 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221109002398 catalytic residue [active] 221109002399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109002400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109002401 PcrB family; Region: PcrB; pfam01884 221109002402 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 221109002403 substrate binding site [chemical binding]; other site 221109002404 putative active site [active] 221109002405 dimer interface [polypeptide binding]; other site 221109002406 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 221109002407 Part of AAA domain; Region: AAA_19; pfam13245 221109002408 Family description; Region: UvrD_C_2; pfam13538 221109002409 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 221109002410 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 221109002411 nucleotide binding pocket [chemical binding]; other site 221109002412 K-X-D-G motif; other site 221109002413 catalytic site [active] 221109002414 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 221109002415 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 221109002416 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 221109002417 Dimer interface [polypeptide binding]; other site 221109002418 BRCT sequence motif; other site 221109002419 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 221109002420 putative dimer interface [polypeptide binding]; other site 221109002421 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 221109002422 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 221109002423 putative dimer interface [polypeptide binding]; other site 221109002424 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 221109002425 non-specific DNA binding site [nucleotide binding]; other site 221109002426 salt bridge; other site 221109002427 sequence-specific DNA binding site [nucleotide binding]; other site 221109002428 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 221109002429 binding surface 221109002430 TPR motif; other site 221109002431 Tetratricopeptide repeat; Region: TPR_12; pfam13424 221109002432 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 221109002433 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 221109002434 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 221109002435 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 221109002436 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 221109002437 GatB domain; Region: GatB_Yqey; pfam02637 221109002438 putative lipid kinase; Reviewed; Region: PRK13337 221109002439 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 221109002440 TRAM domain; Region: TRAM; cl01282 221109002441 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 221109002442 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 221109002443 S-adenosylmethionine binding site [chemical binding]; other site 221109002444 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 221109002445 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 221109002446 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 221109002447 oligomer interface [polypeptide binding]; other site 221109002448 active site 221109002449 metal binding site [ion binding]; metal-binding site 221109002450 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221109002451 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 221109002452 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 221109002453 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109002454 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 221109002455 dimer interface [polypeptide binding]; other site 221109002456 conserved gate region; other site 221109002457 putative PBP binding loops; other site 221109002458 ABC-ATPase subunit interface; other site 221109002459 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109002460 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 221109002461 dimer interface [polypeptide binding]; other site 221109002462 conserved gate region; other site 221109002463 putative PBP binding loops; other site 221109002464 ABC-ATPase subunit interface; other site 221109002465 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 221109002466 Cache domain; Region: Cache_1; pfam02743 221109002467 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 221109002468 dimerization interface [polypeptide binding]; other site 221109002469 Histidine kinase; Region: His_kinase; pfam06580 221109002470 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 221109002471 Mg2+ binding site [ion binding]; other site 221109002472 G-X-G motif; other site 221109002473 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 221109002474 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 221109002475 active site 221109002476 phosphorylation site [posttranslational modification] 221109002477 intermolecular recognition site; other site 221109002478 dimerization interface [polypeptide binding]; other site 221109002479 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221109002480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221109002481 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 221109002482 beta-galactosidase; Region: BGL; TIGR03356 221109002483 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221109002484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109002485 nucleotide binding site [chemical binding]; other site 221109002486 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 221109002487 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 221109002488 metal-dependent hydrolase; Provisional; Region: PRK13291 221109002489 DinB superfamily; Region: DinB_2; pfam12867 221109002490 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 221109002491 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 221109002492 FMN binding site [chemical binding]; other site 221109002493 active site 221109002494 catalytic residues [active] 221109002495 substrate binding site [chemical binding]; other site 221109002496 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 221109002497 CHY zinc finger; Region: zf-CHY; pfam05495 221109002498 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 221109002499 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 221109002500 DNA binding residues [nucleotide binding] 221109002501 putative dimer interface [polypeptide binding]; other site 221109002502 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 221109002503 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 221109002504 putative NAD(P) binding site [chemical binding]; other site 221109002505 putative substrate binding site [chemical binding]; other site 221109002506 catalytic Zn binding site [ion binding]; other site 221109002507 structural Zn binding site [ion binding]; other site 221109002508 dimer interface [polypeptide binding]; other site 221109002509 Methyltransferase domain; Region: Methyltransf_31; pfam13847 221109002510 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 221109002511 S-adenosylmethionine binding site [chemical binding]; other site 221109002512 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 221109002513 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 221109002514 dimer interface [polypeptide binding]; other site 221109002515 ADP-ribose binding site [chemical binding]; other site 221109002516 active site 221109002517 nudix motif; other site 221109002518 metal binding site [ion binding]; metal-binding site 221109002519 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 221109002520 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 221109002521 active site 221109002522 Nuclease-related domain; Region: NERD; pfam08378 221109002523 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 221109002524 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 221109002525 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 221109002526 similar to transposase for IS652 221109002527 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 221109002528 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 221109002529 Catalytic site [active] 221109002530 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 221109002531 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 221109002532 active site 221109002533 metal binding site [ion binding]; metal-binding site 221109002534 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221109002535 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 221109002536 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 221109002537 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 221109002538 Walker A/P-loop; other site 221109002539 ATP binding site [chemical binding]; other site 221109002540 Q-loop/lid; other site 221109002541 ABC transporter signature motif; other site 221109002542 Walker B; other site 221109002543 D-loop; other site 221109002544 H-loop/switch region; other site 221109002545 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 221109002546 Walker A/P-loop; other site 221109002547 ATP binding site [chemical binding]; other site 221109002548 Q-loop/lid; other site 221109002549 ABC transporter signature motif; other site 221109002550 Walker B; other site 221109002551 D-loop; other site 221109002552 H-loop/switch region; other site 221109002553 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 221109002554 YKOF-related Family; Region: Ykof; pfam07615 221109002555 YKOF-related Family; Region: Ykof; pfam07615 221109002556 Phage lysis protein, holin; Region: Phage_holin; cl04675 221109002557 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 221109002558 ATP binding site [chemical binding]; other site 221109002559 Chloramphenicol (Cm) binding site [chemical binding]; other site 221109002560 Chitin binding domain; Region: Chitin_bind_3; pfam03067 221109002561 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 221109002562 aromatic chitin/cellulose binding site residues [chemical binding]; other site 221109002563 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 221109002564 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 221109002565 NAD binding site [chemical binding]; other site 221109002566 sugar binding site [chemical binding]; other site 221109002567 divalent metal binding site [ion binding]; other site 221109002568 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109002569 dimer interface [polypeptide binding]; other site 221109002570 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 221109002571 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 221109002572 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 221109002573 putative active site [active] 221109002574 FOG: CBS domain [General function prediction only]; Region: COG0517 221109002575 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 221109002576 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 221109002577 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 221109002578 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 221109002579 Walker A motif; other site 221109002580 ATP binding site [chemical binding]; other site 221109002581 Walker B motif; other site 221109002582 arginine finger; other site 221109002583 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 221109002584 Very long chain acyl-CoA dehydrogenase; Region: VLCAD; cd01161 221109002585 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109002586 FAD binding site [chemical binding]; other site 221109002587 substrate binding pocket [chemical binding]; other site 221109002588 catalytic base [active] 221109002589 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 221109002590 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 221109002591 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 221109002592 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 221109002593 tetrameric interface [polypeptide binding]; other site 221109002594 NAD binding site [chemical binding]; other site 221109002595 catalytic residues [active] 221109002596 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 221109002597 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 221109002598 substrate binding site [chemical binding]; other site 221109002599 oxyanion hole (OAH) forming residues; other site 221109002600 trimer interface [polypeptide binding]; other site 221109002601 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 221109002602 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 221109002603 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 221109002604 putative NAD(P) binding site [chemical binding]; other site 221109002605 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 221109002606 homodimer interface [polypeptide binding]; other site 221109002607 metal binding site [ion binding]; metal-binding site 221109002608 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 221109002609 metal binding site [ion binding]; metal-binding site 221109002610 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 221109002611 putative hydrophobic ligand binding site [chemical binding]; other site 221109002612 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 221109002613 protein binding site [polypeptide binding]; other site 221109002614 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 221109002615 hypothetical protein; Provisional; Region: PRK06771 221109002616 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 221109002617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109002618 Coenzyme A binding pocket [chemical binding]; other site 221109002619 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 221109002620 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 221109002621 active site 221109002622 Nitronate monooxygenase; Region: NMO; pfam03060 221109002623 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 221109002624 FMN binding site [chemical binding]; other site 221109002625 substrate binding site [chemical binding]; other site 221109002626 putative catalytic residue [active] 221109002627 Coat F domain; Region: Coat_F; pfam07875 221109002628 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 221109002629 amidase catalytic site [active] 221109002630 Zn binding residues [ion binding]; other site 221109002631 substrate binding site [chemical binding]; other site 221109002632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109002633 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 221109002634 active site 221109002635 phosphorylation site [posttranslational modification] 221109002636 intermolecular recognition site; other site 221109002637 dimerization interface [polypeptide binding]; other site 221109002638 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 221109002639 DNA binding site [nucleotide binding] 221109002640 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 221109002641 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 221109002642 ATP binding site [chemical binding]; other site 221109002643 Mg2+ binding site [ion binding]; other site 221109002644 G-X-G motif; other site 221109002645 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 221109002646 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 221109002647 Walker A/P-loop; other site 221109002648 ATP binding site [chemical binding]; other site 221109002649 Q-loop/lid; other site 221109002650 ABC transporter signature motif; other site 221109002651 Walker B; other site 221109002652 D-loop; other site 221109002653 H-loop/switch region; other site 221109002654 FtsX-like permease family; Region: FtsX; pfam02687 221109002655 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109002656 NOSIC (NUC001) domain; Region: NOSIC; smart00931 221109002657 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 221109002658 DNA binding residues [nucleotide binding] 221109002659 dimerization interface [polypeptide binding]; other site 221109002660 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 221109002661 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 221109002662 active site 221109002663 phosphorylation site [posttranslational modification] 221109002664 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 221109002665 active site 221109002666 P-loop; other site 221109002667 phosphorylation site [posttranslational modification] 221109002668 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 221109002669 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 221109002670 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 221109002671 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 221109002672 putative substrate binding site [chemical binding]; other site 221109002673 putative ATP binding site [chemical binding]; other site 221109002674 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 221109002675 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 221109002676 dimerization interface [polypeptide binding]; other site 221109002677 putative DNA binding site [nucleotide binding]; other site 221109002678 putative Zn2+ binding site [ion binding]; other site 221109002679 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 221109002680 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 221109002681 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 221109002682 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 221109002683 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 221109002684 metal ion-dependent adhesion site (MIDAS); other site 221109002685 MoxR-like ATPases [General function prediction only]; Region: COG0714 221109002686 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 221109002687 Walker A motif; other site 221109002688 ATP binding site [chemical binding]; other site 221109002689 Walker B motif; other site 221109002690 arginine finger; other site 221109002691 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 221109002692 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 221109002693 NAD binding site [chemical binding]; other site 221109002694 ligand binding site [chemical binding]; other site 221109002695 catalytic site [active] 221109002696 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 221109002697 putative DNA binding site [nucleotide binding]; other site 221109002698 dimerization interface [polypeptide binding]; other site 221109002699 putative Zn2+ binding site [ion binding]; other site 221109002700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3860 221109002701 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109002702 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109002703 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109002704 Coenzyme A binding pocket [chemical binding]; other site 221109002705 Helix-turn-helix domain; Region: HTH_17; cl17695 221109002706 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 221109002707 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 221109002708 active site 221109002709 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 221109002710 homodimer interface [polypeptide binding]; other site 221109002711 homotetramer interface [polypeptide binding]; other site 221109002712 active site pocket [active] 221109002713 cleavage site 221109002714 hypothetical protein; Provisional; Region: PRK06770 221109002715 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 221109002716 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 221109002717 catalytic residues [active] 221109002718 holin, SPP1 family; Region: holin_SPP1; TIGR01592 221109002719 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 221109002720 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 221109002721 active site 221109002722 metal binding site [ion binding]; metal-binding site 221109002723 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 221109002724 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002725 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002726 ABC transporter; Region: ABC_tran_2; pfam12848 221109002727 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109002728 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 221109002729 active site 221109002730 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 221109002731 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 221109002732 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109002733 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109002734 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 221109002735 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 221109002736 Na2 binding site [ion binding]; other site 221109002737 putative substrate binding site 1 [chemical binding]; other site 221109002738 Na binding site 1 [ion binding]; other site 221109002739 putative substrate binding site 2 [chemical binding]; other site 221109002740 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 221109002741 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109002742 NAD(P) binding site [chemical binding]; other site 221109002743 catalytic residues [active] 221109002744 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 221109002745 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 221109002746 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 221109002747 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109002748 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 221109002749 active site 221109002750 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 221109002751 CoA-transferase family III; Region: CoA_transf_3; pfam02515 221109002752 rod shape-determining protein MreB; Provisional; Region: PRK13930 221109002753 MreB and similar proteins; Region: MreB_like; cd10225 221109002754 nucleotide binding site [chemical binding]; other site 221109002755 Mg binding site [ion binding]; other site 221109002756 putative protofilament interaction site [polypeptide binding]; other site 221109002757 RodZ interaction site [polypeptide binding]; other site 221109002758 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 221109002759 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 221109002760 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 221109002761 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 221109002762 putative NADP binding site [chemical binding]; other site 221109002763 putative dimer interface [polypeptide binding]; other site 221109002764 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 221109002765 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 221109002766 putative acyl-acceptor binding pocket; other site 221109002767 glutaminase; Reviewed; Region: PRK12357 221109002768 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 221109002769 Uncharacterized conserved protein [Function unknown]; Region: COG2135 221109002770 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 221109002771 amino acid carrier protein; Region: agcS; TIGR00835 221109002772 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 221109002773 Low molecular weight phosphatase family; Region: LMWPc; cd00115 221109002774 active site 221109002775 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 221109002776 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 221109002777 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 221109002778 substrate binding pocket [chemical binding]; other site 221109002779 membrane-bound complex binding site; other site 221109002780 hinge residues; other site 221109002781 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221109002782 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 221109002783 dimer interface [polypeptide binding]; other site 221109002784 conserved gate region; other site 221109002785 putative PBP binding loops; other site 221109002786 ABC-ATPase subunit interface; other site 221109002787 YfkD-like protein; Region: YfkD; pfam14167 221109002788 Predicted permease [General function prediction only]; Region: COG2056 221109002789 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 221109002790 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 221109002791 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 221109002792 NodB motif; other site 221109002793 active site 221109002794 catalytic site [active] 221109002795 Cd binding site [ion binding]; other site 221109002796 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 221109002797 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 221109002798 Walker A motif; other site 221109002799 ATP binding site [chemical binding]; other site 221109002800 Walker B motif; other site 221109002801 arginine finger; other site 221109002802 UvrB/uvrC motif; Region: UVR; pfam02151 221109002803 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 221109002804 Walker A motif; other site 221109002805 ATP binding site [chemical binding]; other site 221109002806 Walker B motif; other site 221109002807 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 221109002808 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 221109002809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 221109002810 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 221109002811 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 221109002812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 221109002813 Predicted transcriptional regulators [Transcription]; Region: COG1725 221109002814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109002815 DNA-binding site [nucleotide binding]; DNA binding site 221109002816 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109002817 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109002818 Walker A/P-loop; other site 221109002819 ATP binding site [chemical binding]; other site 221109002820 Q-loop/lid; other site 221109002821 ABC transporter signature motif; other site 221109002822 Walker B; other site 221109002823 D-loop; other site 221109002824 H-loop/switch region; other site 221109002825 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109002826 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109002827 Walker A/P-loop; other site 221109002828 ATP binding site [chemical binding]; other site 221109002829 Q-loop/lid; other site 221109002830 ABC transporter signature motif; other site 221109002831 Walker B; other site 221109002832 D-loop; other site 221109002833 H-loop/switch region; other site 221109002834 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 221109002835 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 221109002836 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109002837 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 221109002838 TIGR01777 family protein; Region: yfcH 221109002839 putative NAD(P) binding site [chemical binding]; other site 221109002840 putative active site [active] 221109002841 RecX family; Region: RecX; cl00936 221109002842 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 221109002843 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 221109002844 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 221109002845 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 221109002846 minor groove reading motif; other site 221109002847 helix-hairpin-helix signature motif; other site 221109002848 substrate binding pocket [chemical binding]; other site 221109002849 active site 221109002850 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 221109002851 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 221109002852 DNA binding and oxoG recognition site [nucleotide binding] 221109002853 hypothetical protein; Provisional; Region: PRK13662 221109002854 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109002855 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109002856 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 221109002857 Walker A/P-loop; other site 221109002858 ATP binding site [chemical binding]; other site 221109002859 Q-loop/lid; other site 221109002860 ABC transporter signature motif; other site 221109002861 Walker B; other site 221109002862 D-loop; other site 221109002863 H-loop/switch region; other site 221109002864 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 221109002865 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 221109002866 inhibitor-cofactor binding pocket; inhibition site 221109002867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109002868 catalytic residue [active] 221109002869 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 221109002870 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 221109002871 catalytic triad [active] 221109002872 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 221109002873 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 221109002874 metal binding site 2 [ion binding]; metal-binding site 221109002875 putative DNA binding helix; other site 221109002876 metal binding site 1 [ion binding]; metal-binding site 221109002877 dimer interface [polypeptide binding]; other site 221109002878 structural Zn2+ binding site [ion binding]; other site 221109002879 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 221109002880 similar to transposase for IS652 221109002881 similar to AraC/XylS family transcriptional regulator 221109002882 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 221109002883 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_7; cd08353 221109002884 putative dimer interface [polypeptide binding]; other site 221109002885 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109002886 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 221109002887 DinB superfamily; Region: DinB_2; pfam12867 221109002888 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 221109002889 CAAX protease self-immunity; Region: Abi; pfam02517 221109002890 EcsC protein family; Region: EcsC; pfam12787 221109002891 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 221109002892 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 221109002893 S-adenosylmethionine binding site [chemical binding]; other site 221109002894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109002895 Uncharacterized protein family (UPF0257); Region: UPF0257; cl14672 221109002896 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109002897 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 221109002898 TraB family; Region: TraB; pfam01963 221109002899 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 221109002900 TAP-like protein; Region: Abhydrolase_4; pfam08386 221109002901 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 221109002902 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 221109002903 nudix motif; other site 221109002904 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 221109002905 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 221109002906 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 221109002907 motif II; other site 221109002908 Predicted acetyltransferase [General function prediction only]; Region: COG5628 221109002909 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 221109002910 substrate binding pocket [chemical binding]; other site 221109002911 YesK-like protein; Region: YesK; pfam14150 221109002912 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; Region: ACP_syn_III_C; pfam08541 221109002913 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 221109002914 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 221109002915 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 221109002916 Predicted membrane protein [Function unknown]; Region: COG3766 221109002917 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 221109002918 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 221109002919 spermidine synthase; Provisional; Region: PRK03612 221109002920 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 221109002921 S-adenosylmethionine binding site [chemical binding]; other site 221109002922 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 221109002923 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 221109002924 DNA binding residues [nucleotide binding] 221109002925 CAAX protease self-immunity; Region: Abi; pfam02517 221109002926 malate:quinone oxidoreductase; Validated; Region: PRK05257 221109002927 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 221109002928 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109002929 3D domain; Region: 3D; cl01439 221109002930 Predicted transcriptional regulators [Transcription]; Region: COG1695 221109002931 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 221109002932 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 221109002933 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 221109002934 DNA binding residues [nucleotide binding] 221109002935 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 221109002936 putative metal binding site [ion binding]; other site 221109002937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109002938 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 221109002939 NAD(P) binding site [chemical binding]; other site 221109002940 active site 221109002941 isochorismate synthase DhbC; Validated; Region: PRK06923 221109002942 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 221109002943 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 221109002944 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 221109002945 acyl-activating enzyme (AAE) consensus motif; other site 221109002946 active site 221109002947 AMP binding site [chemical binding]; other site 221109002948 substrate binding site [chemical binding]; other site 221109002949 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 221109002950 Isochorismatase family; Region: Isochorismatase; pfam00857 221109002951 catalytic triad [active] 221109002952 conserved cis-peptide bond; other site 221109002953 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 221109002954 Condensation domain; Region: Condensation; pfam00668 221109002955 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 221109002956 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 221109002957 acyl-activating enzyme (AAE) consensus motif; other site 221109002958 AMP binding site [chemical binding]; other site 221109002959 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 221109002960 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 221109002961 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 221109002962 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 221109002963 acyl-activating enzyme (AAE) consensus motif; other site 221109002964 AMP binding site [chemical binding]; other site 221109002965 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 221109002966 MbtH-like protein; Region: MbtH; pfam03621 221109002967 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 221109002968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109002969 putative substrate translocation pore; other site 221109002970 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 221109002971 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 221109002972 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 221109002973 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 221109002974 dimerization interface [polypeptide binding]; other site 221109002975 putative DNA binding site [nucleotide binding]; other site 221109002976 putative Zn2+ binding site [ion binding]; other site 221109002977 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221109002978 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 221109002979 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 221109002980 conserved hypothetical protein; Region: lin0512_fam; TIGR02058 221109002981 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 221109002982 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109002983 DNA-binding site [nucleotide binding]; DNA binding site 221109002984 UTRA domain; Region: UTRA; pfam07702 221109002985 phosphonate C-P lyase system protein PhnG; Region: PhnG_redo; TIGR03293 221109002986 phosphonate C-P lyase system protein PhnH; Region: PhnH_redo; TIGR03292 221109002987 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 221109002988 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 221109002989 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 221109002990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109002991 Walker A/P-loop; other site 221109002992 ATP binding site [chemical binding]; other site 221109002993 Q-loop/lid; other site 221109002994 ABC transporter signature motif; other site 221109002995 Walker B; other site 221109002996 D-loop; other site 221109002997 H-loop/switch region; other site 221109002998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 221109002999 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 221109003000 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 221109003001 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 221109003002 active site 221109003003 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 221109003004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109003005 Walker A/P-loop; other site 221109003006 ATP binding site [chemical binding]; other site 221109003007 Q-loop/lid; other site 221109003008 ABC transporter signature motif; other site 221109003009 Walker B; other site 221109003010 D-loop; other site 221109003011 H-loop/switch region; other site 221109003012 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 221109003013 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 221109003014 active site 221109003015 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 221109003016 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 221109003017 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 221109003018 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 221109003019 Walker A/P-loop; other site 221109003020 ATP binding site [chemical binding]; other site 221109003021 Q-loop/lid; other site 221109003022 ABC transporter signature motif; other site 221109003023 Walker B; other site 221109003024 D-loop; other site 221109003025 H-loop/switch region; other site 221109003026 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 221109003027 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 221109003028 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 221109003029 dimer interface [polypeptide binding]; other site 221109003030 conserved gate region; other site 221109003031 ABC-ATPase subunit interface; other site 221109003032 AAA domain; Region: AAA_18; pfam13238 221109003033 Uncharacterized conserved protein [Function unknown]; Region: COG1284 221109003034 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109003035 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109003036 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 221109003037 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 221109003038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221109003039 putative active site [active] 221109003040 putative metal binding site [ion binding]; other site 221109003041 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 221109003042 nudix motif; other site 221109003043 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 221109003044 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 221109003045 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 221109003046 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 221109003047 classical (c) SDRs; Region: SDR_c; cd05233 221109003048 NAD(P) binding site [chemical binding]; other site 221109003049 active site 221109003050 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 221109003051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109003052 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 221109003053 Sodium Bile acid symporter family; Region: SBF; pfam01758 221109003054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109003055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109003056 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 221109003057 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 221109003058 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 221109003059 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 221109003060 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 221109003061 active site 221109003062 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 221109003063 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 221109003064 Walker A/P-loop; other site 221109003065 ATP binding site [chemical binding]; other site 221109003066 Q-loop/lid; other site 221109003067 ABC transporter signature motif; other site 221109003068 Walker B; other site 221109003069 D-loop; other site 221109003070 H-loop/switch region; other site 221109003071 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 221109003072 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 221109003073 dimer interface [polypeptide binding]; other site 221109003074 conserved gate region; other site 221109003075 putative PBP binding loops; other site 221109003076 ABC-ATPase subunit interface; other site 221109003077 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 221109003078 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221109003079 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 221109003080 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 221109003081 substrate binding pocket [chemical binding]; other site 221109003082 membrane-bound complex binding site; other site 221109003083 hinge residues; other site 221109003084 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 221109003085 dimer interface [polypeptide binding]; other site 221109003086 conserved gate region; other site 221109003087 putative PBP binding loops; other site 221109003088 ABC-ATPase subunit interface; other site 221109003089 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 221109003090 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 221109003091 Walker A/P-loop; other site 221109003092 ATP binding site [chemical binding]; other site 221109003093 Q-loop/lid; other site 221109003094 ABC transporter signature motif; other site 221109003095 Walker B; other site 221109003096 D-loop; other site 221109003097 H-loop/switch region; other site 221109003098 Predicted membrane protein [Function unknown]; Region: COG2364 221109003099 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109003100 Propionate catabolism activator; Region: PrpR_N; pfam06506 221109003101 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 221109003102 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 221109003103 Walker A motif; other site 221109003104 ATP binding site [chemical binding]; other site 221109003105 Walker B motif; other site 221109003106 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 221109003107 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 221109003108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 221109003109 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 221109003110 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 221109003111 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 221109003112 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 221109003113 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 221109003114 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 221109003115 DHHA2 domain; Region: DHHA2; pfam02833 221109003116 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 221109003117 DNA-binding site [nucleotide binding]; DNA binding site 221109003118 RNA-binding motif; other site 221109003119 Small acid-soluble spore protein P family; Region: SspP; cl12105 221109003120 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 221109003121 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 221109003122 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109003123 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109003124 Walker A/P-loop; other site 221109003125 ATP binding site [chemical binding]; other site 221109003126 Q-loop/lid; other site 221109003127 ABC transporter signature motif; other site 221109003128 Walker B; other site 221109003129 D-loop; other site 221109003130 H-loop/switch region; other site 221109003131 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 221109003132 hypothetical protein; Provisional; Region: PRK13660 221109003133 Uncharacterized conserved protein [Function unknown]; Region: COG2968 221109003134 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 221109003135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 221109003136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109003137 Coenzyme A binding pocket [chemical binding]; other site 221109003138 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 221109003139 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 221109003140 dimer interface [polypeptide binding]; other site 221109003141 active site 221109003142 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 221109003143 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 221109003144 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 221109003145 active site 221109003146 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 221109003147 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109003148 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109003149 SEC-C motif; Region: SEC-C; pfam02810 221109003150 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 221109003151 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109003152 cyclohexanol reductases, including levodione reductase, classical (c) SDRs; Region: cyclohexanol_reductase_SDR_c; cd05330 221109003153 NAD binding site [chemical binding]; other site 221109003154 homotetramer interface [polypeptide binding]; other site 221109003155 homodimer interface [polypeptide binding]; other site 221109003156 active site 221109003157 substrate binding site [chemical binding]; other site 221109003158 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 221109003159 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109003160 Zn binding site [ion binding]; other site 221109003161 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 221109003162 Zn binding site [ion binding]; other site 221109003163 Methyltransferase domain; Region: Methyltransf_31; pfam13847 221109003164 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 221109003165 S-adenosylmethionine binding site [chemical binding]; other site 221109003166 Predicted flavoprotein [General function prediction only]; Region: COG0431 221109003167 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109003168 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 221109003169 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 221109003170 putative substrate translocation pore; other site 221109003171 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 221109003172 dimer interface [polypeptide binding]; other site 221109003173 substrate binding site [chemical binding]; other site 221109003174 ATP binding site [chemical binding]; other site 221109003175 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 221109003176 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 221109003177 active site 221109003178 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 221109003179 endonuclease III; Region: ENDO3c; smart00478 221109003180 minor groove reading motif; other site 221109003181 helix-hairpin-helix signature motif; other site 221109003182 substrate binding pocket [chemical binding]; other site 221109003183 active site 221109003184 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 221109003185 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 221109003186 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221109003187 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 221109003188 active site 221109003189 metal binding site [ion binding]; metal-binding site 221109003190 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 221109003191 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109003192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109003193 Walker A/P-loop; other site 221109003194 ATP binding site [chemical binding]; other site 221109003195 Q-loop/lid; other site 221109003196 ABC transporter signature motif; other site 221109003197 Walker B; other site 221109003198 D-loop; other site 221109003199 H-loop/switch region; other site 221109003200 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 221109003201 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109003202 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 221109003203 Walker A/P-loop; other site 221109003204 ATP binding site [chemical binding]; other site 221109003205 Q-loop/lid; other site 221109003206 ABC transporter signature motif; other site 221109003207 Walker B; other site 221109003208 D-loop; other site 221109003209 H-loop/switch region; other site 221109003210 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 221109003211 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 221109003212 NRDE protein; Region: NRDE; pfam05742 221109003213 gamma-glutamyl kinase; Provisional; Region: PRK05429 221109003214 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 221109003215 nucleotide binding site [chemical binding]; other site 221109003216 homotetrameric interface [polypeptide binding]; other site 221109003217 putative phosphate binding site [ion binding]; other site 221109003218 putative allosteric binding site; other site 221109003219 PUA domain; Region: PUA; pfam01472 221109003220 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 221109003221 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 221109003222 putative catalytic cysteine [active] 221109003223 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 221109003224 substrate binding site [chemical binding]; other site 221109003225 THF binding site; other site 221109003226 zinc-binding site [ion binding]; other site 221109003227 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109003228 FOG: CBS domain [General function prediction only]; Region: COG0517 221109003229 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; cd02205 221109003230 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 221109003231 active site 221109003232 catalytic site [active] 221109003233 substrate binding site [chemical binding]; other site 221109003234 acyl-CoA synthetase; Validated; Region: PRK08316 221109003235 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 221109003236 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 221109003237 acyl-activating enzyme (AAE) consensus motif; other site 221109003238 acyl-activating enzyme (AAE) consensus motif; other site 221109003239 putative AMP binding site [chemical binding]; other site 221109003240 putative active site [active] 221109003241 putative CoA binding site [chemical binding]; other site 221109003242 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 221109003243 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109003244 dimer interface [polypeptide binding]; other site 221109003245 putative metal binding site [ion binding]; other site 221109003246 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109003247 active site 221109003248 xanthine permease; Region: pbuX; TIGR03173 221109003249 maltose O-acetyltransferase; Provisional; Region: PRK10092 221109003250 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 221109003251 active site 221109003252 substrate binding site [chemical binding]; other site 221109003253 trimer interface [polypeptide binding]; other site 221109003254 CoA binding site [chemical binding]; other site 221109003255 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 221109003256 putative active site [active] 221109003257 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 221109003258 putative NAD(P) binding site [chemical binding]; other site 221109003259 active site 221109003260 putative substrate binding site [chemical binding]; other site 221109003261 Uncharacterized conserved protein [Function unknown]; Region: COG1912 221109003262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 221109003263 Histidine kinase; Region: HisKA_3; pfam07730 221109003264 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 221109003265 ATP binding site [chemical binding]; other site 221109003266 Mg2+ binding site [ion binding]; other site 221109003267 G-X-G motif; other site 221109003268 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109003269 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 221109003270 active site 221109003271 phosphorylation site [posttranslational modification] 221109003272 intermolecular recognition site; other site 221109003273 dimerization interface [polypeptide binding]; other site 221109003274 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 221109003275 DNA binding residues [nucleotide binding] 221109003276 dimerization interface [polypeptide binding]; other site 221109003277 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 221109003278 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109003279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109003280 Walker A/P-loop; other site 221109003281 ATP binding site [chemical binding]; other site 221109003282 Q-loop/lid; other site 221109003283 ABC transporter signature motif; other site 221109003284 Walker B; other site 221109003285 D-loop; other site 221109003286 H-loop/switch region; other site 221109003287 ABC-2 type transporter; Region: ABC2_membrane; cl17235 221109003288 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 221109003289 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 221109003290 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 221109003291 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221109003292 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 221109003293 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 221109003294 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 221109003295 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 221109003296 heterotetramer interface [polypeptide binding]; other site 221109003297 active site pocket [active] 221109003298 cleavage site 221109003299 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 221109003300 nucleotide binding site [chemical binding]; other site 221109003301 N-acetyl-L-glutamate binding site [chemical binding]; other site 221109003302 acetylornithine aminotransferase; Provisional; Region: PRK02627 221109003303 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 221109003304 inhibitor-cofactor binding pocket; inhibition site 221109003305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109003306 catalytic residue [active] 221109003307 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 221109003308 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 221109003309 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 221109003310 catalytic site [active] 221109003311 subunit interface [polypeptide binding]; other site 221109003312 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 221109003313 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109003314 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 221109003315 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 221109003316 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109003317 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109003318 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cd00532 221109003319 substrate binding site [chemical binding]; other site 221109003320 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 221109003321 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 221109003322 topology modulation protein; Reviewed; Region: PRK08118 221109003323 AAA domain; Region: AAA_17; pfam13207 221109003324 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 221109003325 homodimer interface [polypeptide binding]; other site 221109003326 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 221109003327 substrate-cofactor binding pocket; other site 221109003328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109003329 catalytic residue [active] 221109003330 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 221109003331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109003332 ABC transporter signature motif; other site 221109003333 Walker B; other site 221109003334 D-loop; other site 221109003335 H-loop/switch region; other site 221109003336 epoxyqueuosine reductase; Region: TIGR00276 221109003337 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 221109003338 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 221109003339 Putative amidase domain; Region: Amidase_6; pfam12671 221109003340 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 221109003341 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 221109003342 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 221109003343 TPP-binding site [chemical binding]; other site 221109003344 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 221109003345 dimer interface [polypeptide binding]; other site 221109003346 PYR/PP interface [polypeptide binding]; other site 221109003347 TPP binding site [chemical binding]; other site 221109003348 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 221109003349 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 221109003350 E3 interaction surface; other site 221109003351 lipoyl attachment site [posttranslational modification]; other site 221109003352 e3 binding domain; Region: E3_binding; pfam02817 221109003353 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 221109003354 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 221109003355 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 221109003356 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 221109003357 multidrug efflux protein; Reviewed; Region: PRK01766 221109003358 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 221109003359 cation binding site [ion binding]; other site 221109003360 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 221109003361 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 221109003362 active site 221109003363 homodimer interface [polypeptide binding]; other site 221109003364 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 221109003365 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 221109003366 Spore germination protein; Region: Spore_permease; cl17796 221109003367 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 221109003368 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_cladeD; cd03379 221109003369 active site clefts [active] 221109003370 zinc binding site [ion binding]; other site 221109003371 dimer interface [polypeptide binding]; other site 221109003372 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 221109003373 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109003374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109003375 Walker A/P-loop; other site 221109003376 ATP binding site [chemical binding]; other site 221109003377 Q-loop/lid; other site 221109003378 ABC transporter signature motif; other site 221109003379 Walker B; other site 221109003380 D-loop; other site 221109003381 H-loop/switch region; other site 221109003382 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109003383 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 221109003384 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 221109003385 Walker A/P-loop; other site 221109003386 ATP binding site [chemical binding]; other site 221109003387 Q-loop/lid; other site 221109003388 ABC transporter signature motif; other site 221109003389 Walker B; other site 221109003390 D-loop; other site 221109003391 H-loop/switch region; other site 221109003392 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 221109003393 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 221109003394 PRC-barrel domain; Region: PRC; pfam05239 221109003395 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 221109003396 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109003397 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 221109003398 YhdB-like protein; Region: YhdB; pfam14148 221109003399 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 221109003400 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 221109003401 Methyltransferase domain; Region: Methyltransf_23; pfam13489 221109003402 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 221109003403 S-adenosylmethionine binding site [chemical binding]; other site 221109003404 S-ribosylhomocysteinase; Provisional; Region: PRK02260 221109003405 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 221109003406 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 221109003407 dimer interface [polypeptide binding]; other site 221109003408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109003409 catalytic residue [active] 221109003410 cystathionine beta-lyase; Provisional; Region: PRK07671 221109003411 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 221109003412 homodimer interface [polypeptide binding]; other site 221109003413 substrate-cofactor binding pocket; other site 221109003414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109003415 catalytic residue [active] 221109003416 hypothetical protein; Provisional; Region: PRK08201 221109003417 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 221109003418 metal binding site [ion binding]; metal-binding site 221109003419 putative dimer interface [polypeptide binding]; other site 221109003420 short chain dehydrogenase; Provisional; Region: PRK06924 221109003421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109003422 NAD(P) binding site [chemical binding]; other site 221109003423 active site 221109003424 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 221109003425 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109003426 Walker A/P-loop; other site 221109003427 ATP binding site [chemical binding]; other site 221109003428 Q-loop/lid; other site 221109003429 ABC transporter signature motif; other site 221109003430 Walker B; other site 221109003431 D-loop; other site 221109003432 H-loop/switch region; other site 221109003433 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 221109003434 active site 221109003435 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 221109003436 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 221109003437 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 221109003438 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 221109003439 non-specific DNA binding site [nucleotide binding]; other site 221109003440 salt bridge; other site 221109003441 sequence-specific DNA binding site [nucleotide binding]; other site 221109003442 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 221109003443 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 221109003444 A short protein domain of unknown function; Region: IDEAL; smart00914 221109003445 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 221109003446 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109003447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109003448 dimer interface [polypeptide binding]; other site 221109003449 putative CheW interface [polypeptide binding]; other site 221109003450 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 221109003451 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 221109003452 putative substrate translocation pore; other site 221109003453 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 221109003454 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 221109003455 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 221109003456 NADP binding site [chemical binding]; other site 221109003457 active site 221109003458 putative substrate binding site [chemical binding]; other site 221109003459 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 221109003460 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 221109003461 substrate binding site; other site 221109003462 tetramer interface; other site 221109003463 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 221109003464 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 221109003465 putative ligand binding site [chemical binding]; other site 221109003466 putative catalytic site [active] 221109003467 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 221109003468 fumarate hydratase; Reviewed; Region: fumC; PRK00485 221109003469 Class II fumarases; Region: Fumarase_classII; cd01362 221109003470 active site 221109003471 tetramer interface [polypeptide binding]; other site 221109003472 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 221109003473 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 221109003474 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 221109003475 Walker A/P-loop; other site 221109003476 ATP binding site [chemical binding]; other site 221109003477 Q-loop/lid; other site 221109003478 ABC transporter signature motif; other site 221109003479 Walker B; other site 221109003480 D-loop; other site 221109003481 H-loop/switch region; other site 221109003482 TOBE domain; Region: TOBE_2; pfam08402 221109003483 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 221109003484 hypothetical protein; Provisional; Region: PRK13676 221109003485 YhzD-like protein; Region: YhzD; pfam14120 221109003486 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 221109003487 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 221109003488 Walker A/P-loop; other site 221109003489 ATP binding site [chemical binding]; other site 221109003490 Q-loop/lid; other site 221109003491 ABC transporter signature motif; other site 221109003492 Walker B; other site 221109003493 D-loop; other site 221109003494 H-loop/switch region; other site 221109003495 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 221109003496 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 221109003497 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 221109003498 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 221109003499 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 221109003500 putative homodimer interface [polypeptide binding]; other site 221109003501 putative homotetramer interface [polypeptide binding]; other site 221109003502 putative allosteric switch controlling residues; other site 221109003503 putative metal binding site [ion binding]; other site 221109003504 putative homodimer-homodimer interface [polypeptide binding]; other site 221109003505 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 221109003506 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 221109003507 metal-binding site [ion binding] 221109003508 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 221109003509 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 221109003510 metal-binding site [ion binding] 221109003511 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 221109003512 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 221109003513 motif II; other site 221109003514 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 221109003515 metal-binding site [ion binding] 221109003516 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 221109003517 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 221109003518 active site 221109003519 metal binding site [ion binding]; metal-binding site 221109003520 DNA binding site [nucleotide binding] 221109003521 P-loop containing region of AAA domain; Region: AAA_29; cl17516 221109003522 AAA domain; Region: AAA_23; pfam13476 221109003523 Uncharacterized conserved protein [Function unknown]; Region: COG4717 221109003524 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 221109003525 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 221109003526 generic binding surface II; other site 221109003527 generic binding surface I; other site 221109003528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109003529 Zn2+ binding site [ion binding]; other site 221109003530 Mg2+ binding site [ion binding]; other site 221109003531 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 221109003532 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 221109003533 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 221109003534 YtxH-like protein; Region: YtxH; pfam12732 221109003535 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 221109003536 HIT family signature motif; other site 221109003537 catalytic residue [active] 221109003538 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 221109003539 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109003540 Walker A/P-loop; other site 221109003541 ATP binding site [chemical binding]; other site 221109003542 Q-loop/lid; other site 221109003543 ABC transporter signature motif; other site 221109003544 Walker B; other site 221109003545 D-loop; other site 221109003546 H-loop/switch region; other site 221109003547 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 221109003548 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109003549 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 221109003550 metal binding site [ion binding]; metal-binding site 221109003551 dimer interface [polypeptide binding]; other site 221109003552 Ferritin-like domain; Region: Ferritin; pfam00210 221109003553 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 221109003554 dinuclear metal binding motif [ion binding]; other site 221109003555 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 221109003556 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 221109003557 active site 221109003558 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 221109003559 Predicted membrane protein [Function unknown]; Region: COG4758 221109003560 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 221109003561 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 221109003562 Histidine kinase; Region: HisKA_3; pfam07730 221109003563 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 221109003564 ATP binding site [chemical binding]; other site 221109003565 Mg2+ binding site [ion binding]; other site 221109003566 G-X-G motif; other site 221109003567 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 221109003568 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109003569 active site 221109003570 phosphorylation site [posttranslational modification] 221109003571 intermolecular recognition site; other site 221109003572 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 221109003573 DNA binding residues [nucleotide binding] 221109003574 dimerization interface [polypeptide binding]; other site 221109003575 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 221109003576 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 221109003577 catalytic residues [active] 221109003578 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 221109003579 Transglycosylase; Region: Transgly; pfam00912 221109003580 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 221109003581 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 221109003582 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 221109003583 substrate binding site [chemical binding]; other site 221109003584 active site 221109003585 ferrochelatase; Provisional; Region: PRK12435 221109003586 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 221109003587 C-terminal domain interface [polypeptide binding]; other site 221109003588 active site 221109003589 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 221109003590 active site 221109003591 N-terminal domain interface [polypeptide binding]; other site 221109003592 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 221109003593 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 221109003594 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109003595 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 221109003596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 221109003597 oligoendopeptidase F; Region: pepF; TIGR00181 221109003598 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 221109003599 active site 221109003600 Zn binding site [ion binding]; other site 221109003601 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 221109003602 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 221109003603 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 221109003604 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 221109003605 Phosphotransferase enzyme family; Region: APH; pfam01636 221109003606 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 221109003607 active site 221109003608 ATP binding site [chemical binding]; other site 221109003609 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 221109003610 substrate binding site [chemical binding]; other site 221109003611 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 221109003612 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 221109003613 acyl-activating enzyme (AAE) consensus motif; other site 221109003614 putative AMP binding site [chemical binding]; other site 221109003615 putative active site [active] 221109003616 putative CoA binding site [chemical binding]; other site 221109003617 ComK protein; Region: ComK; pfam06338 221109003618 Uncharacterized conserved protein [Function unknown]; Region: COG0398 221109003619 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 221109003620 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 221109003621 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 221109003622 Catalytic site [active] 221109003623 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 221109003624 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 221109003625 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 221109003626 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 221109003627 Part of AAA domain; Region: AAA_19; pfam13245 221109003628 Family description; Region: UvrD_C_2; pfam13538 221109003629 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 221109003630 Predicted membrane protein [Function unknown]; Region: COG2311 221109003631 Protein of unknown function (DUF418); Region: DUF418; cl12135 221109003632 Protein of unknown function (DUF418); Region: DUF418; pfam04235 221109003633 hypothetical protein; Provisional; Region: PRK13673 221109003634 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 221109003635 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 221109003636 active site 221109003637 catalytic site [active] 221109003638 short chain dehydrogenase; Provisional; Region: PRK06701 221109003639 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 221109003640 NAD binding site [chemical binding]; other site 221109003641 metal binding site [ion binding]; metal-binding site 221109003642 active site 221109003643 YppF-like protein; Region: YppF; pfam14178 221109003644 EDD domain protein, DegV family; Region: DegV; TIGR00762 221109003645 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 221109003646 Uncharacterized conserved protein [Function unknown]; Region: COG1284 221109003647 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109003648 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109003649 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 221109003650 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 221109003651 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 221109003652 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221109003653 active site 221109003654 motif I; other site 221109003655 motif II; other site 221109003656 esterase; Provisional; Region: PRK10566 221109003657 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 221109003658 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 221109003659 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 221109003660 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 221109003661 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109003662 putative substrate translocation pore; other site 221109003663 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221109003664 MarR family; Region: MarR; pfam01047 221109003665 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 221109003666 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 221109003667 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 221109003668 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 221109003669 putative ligand binding site [chemical binding]; other site 221109003670 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 221109003671 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 221109003672 dimer interface [polypeptide binding]; other site 221109003673 active site 221109003674 CoA binding pocket [chemical binding]; other site 221109003675 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 221109003676 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 221109003677 dimer interface [polypeptide binding]; other site 221109003678 active site 221109003679 multifunctional thiamine-phosphate pyrophosphorylase/synthase/phosphomethylpyrimidine kinase; Provisional; Region: PRK09517 221109003680 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 221109003681 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 221109003682 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 221109003683 active site 221109003684 HIGH motif; other site 221109003685 dimer interface [polypeptide binding]; other site 221109003686 KMSKS motif; other site 221109003687 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 221109003688 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 221109003689 Coenzyme A binding pocket [chemical binding]; other site 221109003690 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 221109003691 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 221109003692 Nitrogen regulatory protein P-II; Region: P-II; smart00938 221109003693 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 221109003694 ArsC family; Region: ArsC; pfam03960 221109003695 putative catalytic residues [active] 221109003696 thiol/disulfide switch; other site 221109003697 adaptor protein; Provisional; Region: PRK02315 221109003698 Competence protein CoiA-like family; Region: CoiA; pfam06054 221109003699 oligoendopeptidase F; Region: pepF; TIGR00181 221109003700 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 221109003701 active site 221109003702 Zn binding site [ion binding]; other site 221109003703 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 221109003704 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 221109003705 catalytic residues [active] 221109003706 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 221109003707 apolar tunnel; other site 221109003708 heme binding site [chemical binding]; other site 221109003709 dimerization interface [polypeptide binding]; other site 221109003710 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 221109003711 putative active site [active] 221109003712 putative metal binding residues [ion binding]; other site 221109003713 signature motif; other site 221109003714 putative triphosphate binding site [ion binding]; other site 221109003715 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 221109003716 synthetase active site [active] 221109003717 NTP binding site [chemical binding]; other site 221109003718 metal binding site [ion binding]; metal-binding site 221109003719 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 221109003720 ATP-NAD kinase; Region: NAD_kinase; pfam01513 221109003721 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 221109003722 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 221109003723 active site 221109003724 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 221109003725 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 221109003726 active site 221109003727 metal binding site [ion binding]; metal-binding site 221109003728 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 221109003729 MgtE intracellular N domain; Region: MgtE_N; pfam03448 221109003730 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 221109003731 Divalent cation transporter; Region: MgtE; pfam01769 221109003732 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 221109003733 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 221109003734 Predicted membrane protein [Function unknown]; Region: COG2323 221109003735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109003736 Coenzyme A binding pocket [chemical binding]; other site 221109003737 hypothetical protein; Provisional; Region: PRK13679 221109003738 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 221109003739 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 221109003740 Putative esterase; Region: Esterase; pfam00756 221109003741 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109003742 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109003743 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 221109003744 Walker A/P-loop; other site 221109003745 ATP binding site [chemical binding]; other site 221109003746 Q-loop/lid; other site 221109003747 ABC transporter signature motif; other site 221109003748 Walker B; other site 221109003749 D-loop; other site 221109003750 H-loop/switch region; other site 221109003751 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109003752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109003753 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 221109003754 Walker A/P-loop; other site 221109003755 ATP binding site [chemical binding]; other site 221109003756 Q-loop/lid; other site 221109003757 ABC transporter signature motif; other site 221109003758 Walker B; other site 221109003759 D-loop; other site 221109003760 H-loop/switch region; other site 221109003761 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 221109003762 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 221109003763 Int/Topo IB signature motif; other site 221109003764 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 221109003765 nudix motif; other site 221109003766 Phosphotransferase enzyme family; Region: APH; pfam01636 221109003767 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 221109003768 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 221109003769 substrate binding site [chemical binding]; other site 221109003770 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 221109003771 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 221109003772 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109003773 active site 221109003774 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 221109003775 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 221109003776 AAA domain; Region: AAA_17; pfam13207 221109003777 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 221109003778 nudix motif; other site 221109003779 topology modulation protein; Reviewed; Region: PRK08118 221109003780 AAA domain; Region: AAA_17; pfam13207 221109003781 hypothetical protein; Provisional; Region: PRK07758 221109003782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221109003783 MarR family; Region: MarR; pfam01047 221109003784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109003785 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221109003786 Coenzyme A binding pocket [chemical binding]; other site 221109003787 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 221109003788 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109003789 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 221109003790 DNA binding residues [nucleotide binding] 221109003791 YesK-like protein; Region: YesK; pfam14150 221109003792 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 221109003793 S-adenosylmethionine binding site [chemical binding]; other site 221109003794 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 221109003795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 221109003796 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109003797 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 221109003798 PAS domain; Region: PAS_9; pfam13426 221109003799 putative active site [active] 221109003800 heme pocket [chemical binding]; other site 221109003801 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 221109003802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109003803 dimer interface [polypeptide binding]; other site 221109003804 putative CheW interface [polypeptide binding]; other site 221109003805 BCCT family transporter; Region: BCCT; pfam02028 221109003806 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 221109003807 FAD binding domain; Region: FAD_binding_4; pfam01565 221109003808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 221109003809 Nucleoside recognition; Region: Gate; pfam07670 221109003810 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 221109003811 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 221109003812 inhibitor-cofactor binding pocket; inhibition site 221109003813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109003814 catalytic residue [active] 221109003815 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221109003816 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 221109003817 putative active site [active] 221109003818 putative catalytic site [active] 221109003819 putative deaminase; Validated; Region: PRK06846 221109003820 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 221109003821 active site 221109003822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109003823 Coenzyme A binding pocket [chemical binding]; other site 221109003824 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 221109003825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109003826 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 221109003827 DNA binding residues [nucleotide binding] 221109003828 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 221109003829 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 221109003830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109003831 Coenzyme A binding pocket [chemical binding]; other site 221109003832 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109003833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 221109003834 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 221109003835 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 221109003836 putative substrate translocation pore; other site 221109003837 hypothetical protein; Validated; Region: PRK06769 221109003838 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 221109003839 active site 221109003840 motif I; other site 221109003841 motif II; other site 221109003842 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 221109003843 YodA lipocalin-like domain; Region: YodA; pfam09223 221109003844 Protein of unknown function (DUF998); Region: DUF998; pfam06197 221109003845 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 221109003846 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109003847 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 221109003848 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 221109003849 putative substrate translocation pore; other site 221109003850 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 221109003851 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 221109003852 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 221109003853 lipoyl synthase; Provisional; Region: PRK05481 221109003854 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 221109003855 FeS/SAM binding site; other site 221109003856 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 221109003857 active site 221109003858 ATP binding site [chemical binding]; other site 221109003859 substrate binding site [chemical binding]; other site 221109003860 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 221109003861 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 221109003862 active site pocket [active] 221109003863 oxyanion hole [active] 221109003864 catalytic triad [active] 221109003865 active site nucleophile [active] 221109003866 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 221109003867 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 221109003868 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 221109003869 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 221109003870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109003871 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 221109003872 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 221109003873 DNA binding residues [nucleotide binding] 221109003874 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 221109003875 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 221109003876 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 221109003877 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 221109003878 Catalytic site [active] 221109003879 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 221109003880 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 221109003881 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 221109003882 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 221109003883 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 221109003884 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 221109003885 putative catalytic site [active] 221109003886 putative metal binding site [ion binding]; other site 221109003887 putative phosphate binding site [ion binding]; other site 221109003888 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 221109003889 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 221109003890 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 221109003891 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 221109003892 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 221109003893 non-specific DNA binding site [nucleotide binding]; other site 221109003894 salt bridge; other site 221109003895 sequence-specific DNA binding site [nucleotide binding]; other site 221109003896 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 221109003897 ABC1 family; Region: ABC1; cl17513 221109003898 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 221109003899 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 221109003900 active site 221109003901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 221109003902 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 221109003903 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 221109003904 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; pfam10661 221109003905 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 221109003906 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 221109003907 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; pfam10140 221109003908 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 221109003909 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 221109003910 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 221109003911 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 221109003912 type VII secretion effector, SACOL2603 family; Region: T7SS_SACOL2603; TIGR04197 221109003913 LXG domain of WXG superfamily; Region: LXG; pfam04740 221109003914 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109003915 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 221109003916 Protein of unknown function (DUF443); Region: DUF443; cl04467 221109003917 Protein of unknown function (DUF443); Region: DUF443; cl04467 221109003918 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 221109003919 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109003920 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 221109003921 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109003922 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 221109003923 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109003924 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 221109003925 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109003926 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109003927 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 221109003928 Predicted membrane protein [Function unknown]; Region: COG3212 221109003929 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109003930 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 221109003931 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 221109003932 active site 221109003933 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 221109003934 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 221109003935 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 221109003936 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 221109003937 active site 221109003938 catalytic residues [active] 221109003939 metal binding site [ion binding]; metal-binding site 221109003940 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 221109003941 non-specific DNA binding site [nucleotide binding]; other site 221109003942 salt bridge; other site 221109003943 sequence-specific DNA binding site [nucleotide binding]; other site 221109003944 Cupin domain; Region: Cupin_2; pfam07883 221109003945 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 221109003946 nucleotide binding site/active site [active] 221109003947 HIT family signature motif; other site 221109003948 catalytic residue [active] 221109003949 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 221109003950 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 221109003951 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 221109003952 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 221109003953 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 221109003954 PAS domain; Region: PAS_9; pfam13426 221109003955 putative active site [active] 221109003956 heme pocket [chemical binding]; other site 221109003957 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 221109003958 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 221109003959 Walker A motif; other site 221109003960 ATP binding site [chemical binding]; other site 221109003961 Walker B motif; other site 221109003962 arginine finger; other site 221109003963 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 221109003964 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 221109003965 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 221109003966 Glutamate binding site [chemical binding]; other site 221109003967 homodimer interface [polypeptide binding]; other site 221109003968 NAD binding site [chemical binding]; other site 221109003969 catalytic residues [active] 221109003970 Proline dehydrogenase; Region: Pro_dh; cl03282 221109003971 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 221109003972 Na binding site [ion binding]; other site 221109003973 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109003974 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 221109003975 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 221109003976 active site 221109003977 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 221109003978 Na binding site [ion binding]; other site 221109003979 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 221109003980 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 221109003981 putative metal binding site [ion binding]; other site 221109003982 putative dimer interface [polypeptide binding]; other site 221109003983 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 221109003984 FAD binding domain; Region: FAD_binding_4; pfam01565 221109003985 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 221109003986 PAS domain; Region: PAS_9; pfam13426 221109003987 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 221109003988 putative active site [active] 221109003989 heme pocket [chemical binding]; other site 221109003990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 221109003991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 221109003992 metal binding site [ion binding]; metal-binding site 221109003993 active site 221109003994 I-site; other site 221109003995 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 221109003996 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 221109003997 active site 221109003998 DNA polymerase IV; Reviewed; Region: PRK03103 221109003999 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 221109004000 active site 221109004001 DNA binding site [nucleotide binding] 221109004002 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 221109004003 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 221109004004 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 221109004005 ArsC family; Region: ArsC; pfam03960 221109004006 putative catalytic residues [active] 221109004007 thiol/disulfide switch; other site 221109004008 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 221109004009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109004010 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 221109004011 VanW like protein; Region: VanW; pfam04294 221109004012 Uncharacterized conserved protein [Function unknown]; Region: COG2353 221109004013 Phage lysis protein, holin; Region: Phage_holin; cl04675 221109004014 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 221109004015 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 221109004016 active site 221109004017 Zn binding site [ion binding]; other site 221109004018 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 221109004019 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 221109004020 Carbon starvation protein CstA; Region: CstA; pfam02554 221109004021 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 221109004022 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 221109004023 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 221109004024 P loop; other site 221109004025 Nucleotide binding site [chemical binding]; other site 221109004026 DTAP/Switch II; other site 221109004027 Switch I; other site 221109004028 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 221109004029 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 221109004030 NAD(P) binding site [chemical binding]; other site 221109004031 Predicted membrane protein [Function unknown]; Region: COG2323 221109004032 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 221109004033 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 221109004034 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 221109004035 stage V sporulation protein AD; Provisional; Region: PRK12404 221109004036 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 221109004037 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 221109004038 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 221109004039 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 221109004040 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 221109004041 dimer interface [polypeptide binding]; other site 221109004042 FMN binding site [chemical binding]; other site 221109004043 NADPH bind site [chemical binding]; other site 221109004044 YwpF-like protein; Region: YwpF; pfam14183 221109004045 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 221109004046 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 221109004047 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 221109004048 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 221109004049 Catalytic site [active] 221109004050 aminotransferase A; Validated; Region: PRK07683 221109004051 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 221109004052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109004053 homodimer interface [polypeptide binding]; other site 221109004054 catalytic residue [active] 221109004055 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 221109004056 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 221109004057 EamA-like transporter family; Region: EamA; pfam00892 221109004058 EamA-like transporter family; Region: EamA; pfam00892 221109004059 YkyB-like protein; Region: YkyB; pfam14177 221109004060 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 221109004061 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 221109004062 Cu(I) binding site [ion binding]; other site 221109004063 phosphodiesterase YaeI; Provisional; Region: PRK11340 221109004064 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 221109004065 putative active site [active] 221109004066 putative metal binding site [ion binding]; other site 221109004067 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 221109004068 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 221109004069 dimerization interface [polypeptide binding]; other site 221109004070 putative DNA binding site [nucleotide binding]; other site 221109004071 putative Zn2+ binding site [ion binding]; other site 221109004072 FOG: CBS domain [General function prediction only]; Region: COG0517 221109004073 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_30; cd04643 221109004074 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 221109004075 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 221109004076 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 221109004077 trimer interface [polypeptide binding]; other site 221109004078 active site 221109004079 substrate binding site [chemical binding]; other site 221109004080 CoA binding site [chemical binding]; other site 221109004081 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109004082 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 221109004083 metal binding site [ion binding]; metal-binding site 221109004084 putative dimer interface [polypeptide binding]; other site 221109004085 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 221109004086 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 221109004087 catalytic residues [active] 221109004088 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109004089 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109004090 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 221109004091 Walker A/P-loop; other site 221109004092 ATP binding site [chemical binding]; other site 221109004093 Q-loop/lid; other site 221109004094 ABC transporter signature motif; other site 221109004095 Walker B; other site 221109004096 D-loop; other site 221109004097 H-loop/switch region; other site 221109004098 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109004099 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109004100 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 221109004101 Walker A/P-loop; other site 221109004102 ATP binding site [chemical binding]; other site 221109004103 Q-loop/lid; other site 221109004104 ABC transporter signature motif; other site 221109004105 Walker B; other site 221109004106 D-loop; other site 221109004107 H-loop/switch region; other site 221109004108 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 221109004109 TrkA-N domain; Region: TrkA_N; pfam02254 221109004110 TrkA-C domain; Region: TrkA_C; pfam02080 221109004111 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 221109004112 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 221109004113 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 221109004114 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 221109004115 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 221109004116 active site 221109004117 catalytic residues [active] 221109004118 metal binding site [ion binding]; metal-binding site 221109004119 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 221109004120 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 221109004121 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 221109004122 TPP-binding site [chemical binding]; other site 221109004123 tetramer interface [polypeptide binding]; other site 221109004124 heterodimer interface [polypeptide binding]; other site 221109004125 phosphorylation loop region [posttranslational modification] 221109004126 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 221109004127 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 221109004128 alpha subunit interface [polypeptide binding]; other site 221109004129 TPP binding site [chemical binding]; other site 221109004130 heterodimer interface [polypeptide binding]; other site 221109004131 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 221109004132 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 221109004133 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 221109004134 E3 interaction surface; other site 221109004135 lipoyl attachment site [posttranslational modification]; other site 221109004136 e3 binding domain; Region: E3_binding; pfam02817 221109004137 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 221109004138 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 221109004139 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109004140 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 221109004141 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109004142 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109004143 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 221109004144 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 221109004145 NodB motif; other site 221109004146 active site 221109004147 catalytic site [active] 221109004148 metal binding site [ion binding]; metal-binding site 221109004149 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 221109004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 221109004151 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 221109004152 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 221109004153 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 221109004154 active site 221109004155 YlaH-like protein; Region: YlaH; pfam14036 221109004156 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 221109004157 hypothetical protein; Provisional; Region: PRK13666 221109004158 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 221109004159 pyruvate carboxylase; Reviewed; Region: PRK12999 221109004160 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109004161 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 221109004162 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 221109004163 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 221109004164 active site 221109004165 catalytic residues [active] 221109004166 metal binding site [ion binding]; metal-binding site 221109004167 homodimer binding site [polypeptide binding]; other site 221109004168 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 221109004169 carboxyltransferase (CT) interaction site; other site 221109004170 biotinylation site [posttranslational modification]; other site 221109004171 similar to recombinase for Bh.Int 221109004172 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 221109004173 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 221109004174 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 221109004175 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 221109004176 UbiA prenyltransferase family; Region: UbiA; pfam01040 221109004177 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 221109004178 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 221109004179 Cytochrome c; Region: Cytochrom_C; pfam00034 221109004180 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 221109004181 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 221109004182 D-pathway; other site 221109004183 Putative ubiquinol binding site [chemical binding]; other site 221109004184 Low-spin heme (heme b) binding site [chemical binding]; other site 221109004185 Putative water exit pathway; other site 221109004186 Binuclear center (heme o3/CuB) [ion binding]; other site 221109004187 K-pathway; other site 221109004188 Putative proton exit pathway; other site 221109004189 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 221109004190 Subunit I/III interface [polypeptide binding]; other site 221109004191 Subunit III/IV interface [polypeptide binding]; other site 221109004192 cytochrome c oxidase, subunit IVB; Region: CoxD_Bacillus; TIGR02908 221109004193 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 221109004194 Protein of unknown function (DUF420); Region: DUF420; pfam04238 221109004195 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109004196 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109004197 YugN-like family; Region: YugN; pfam08868 221109004198 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 221109004199 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 221109004200 Putative coat protein; Region: YlbD_coat; pfam14071 221109004201 YlbE-like protein; Region: YlbE; pfam14003 221109004202 Protein of unknown function (DUF964); Region: DUF964; pfam06133 221109004203 hypothetical protein; Provisional; Region: PRK02886 221109004204 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 221109004205 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 221109004206 S-adenosylmethionine binding site [chemical binding]; other site 221109004207 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 221109004208 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 221109004209 active site 221109004210 (T/H)XGH motif; other site 221109004211 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 221109004212 Nucleoside recognition; Region: Gate; pfam07670 221109004213 Nucleoside recognition; Region: Gate; pfam07670 221109004214 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 221109004215 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 221109004216 protein binding site [polypeptide binding]; other site 221109004217 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 221109004218 hypothetical protein; Provisional; Region: PRK13670 221109004219 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 221109004220 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 221109004221 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 221109004222 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 221109004223 hypothetical protein; Provisional; Region: PRK13688 221109004224 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109004225 Coenzyme A binding pocket [chemical binding]; other site 221109004226 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 221109004227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 221109004228 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 221109004229 cell division protein MraZ; Reviewed; Region: PRK00326 221109004230 MraZ protein; Region: MraZ; pfam02381 221109004231 MraZ protein; Region: MraZ; pfam02381 221109004232 MraW methylase family; Region: Methyltransf_5; pfam01795 221109004233 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 221109004234 Cell division protein FtsL; Region: FtsL; cl11433 221109004235 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 221109004236 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 221109004237 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 221109004238 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 221109004239 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 221109004240 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 221109004241 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 221109004242 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 221109004243 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 221109004244 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 221109004245 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221109004246 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221109004247 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221109004248 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 221109004249 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221109004250 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221109004251 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221109004252 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 221109004253 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 221109004254 Mg++ binding site [ion binding]; other site 221109004255 putative catalytic motif [active] 221109004256 putative substrate binding site [chemical binding]; other site 221109004257 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 221109004258 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 221109004259 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221109004260 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221109004261 stage V sporulation protein E; Region: spoVE; TIGR02615 221109004262 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 221109004263 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 221109004264 Cell division protein FtsQ; Region: FtsQ; pfam03799 221109004265 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 221109004266 Cell division protein FtsA; Region: FtsA; smart00842 221109004267 Cell division protein FtsA; Region: FtsA; pfam14450 221109004268 cell division protein FtsZ; Validated; Region: PRK09330 221109004269 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 221109004270 nucleotide binding site [chemical binding]; other site 221109004271 SulA interaction site; other site 221109004272 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 221109004273 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 221109004274 sporulation sigma factor SigE; Reviewed; Region: PRK08301 221109004275 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109004276 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 221109004277 DNA binding residues [nucleotide binding] 221109004278 sporulation sigma factor SigG; Reviewed; Region: PRK08215 221109004279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109004280 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 221109004281 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 221109004282 DNA binding residues [nucleotide binding] 221109004283 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 221109004284 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 221109004285 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 221109004286 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 221109004287 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221109004288 catalytic residue [active] 221109004289 Protein of unknown function (DUF552); Region: DUF552; pfam04472 221109004290 YGGT family; Region: YGGT; pfam02325 221109004291 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 221109004292 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 221109004293 RNA binding surface [nucleotide binding]; other site 221109004294 DivIVA protein; Region: DivIVA; pfam05103 221109004295 DivIVA domain; Region: DivI1A_domain; TIGR03544 221109004296 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 221109004297 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 221109004298 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221109004299 active site 221109004300 HIGH motif; other site 221109004301 nucleotide binding site [chemical binding]; other site 221109004302 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 221109004303 active site 221109004304 KMSKS motif; other site 221109004305 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 221109004306 tRNA binding surface [nucleotide binding]; other site 221109004307 anticodon binding site; other site 221109004308 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 221109004309 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 221109004310 lipoprotein signal peptidase; Provisional; Region: PRK14787 221109004311 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 221109004312 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 221109004313 RNA binding surface [nucleotide binding]; other site 221109004314 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 221109004315 active site 221109004316 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 221109004317 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109004318 active site 221109004319 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 221109004320 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 221109004321 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 221109004322 dihydroorotase; Validated; Region: pyrC; PRK09357 221109004323 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 221109004324 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 221109004325 active site 221109004326 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 221109004327 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 221109004328 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 221109004329 catalytic site [active] 221109004330 subunit interface [polypeptide binding]; other site 221109004331 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 221109004332 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109004333 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 221109004334 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 221109004335 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109004336 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109004337 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 221109004338 IMP binding site; other site 221109004339 dimer interface [polypeptide binding]; other site 221109004340 interdomain contacts; other site 221109004341 partial ornithine binding site; other site 221109004342 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 221109004343 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 221109004344 FAD binding pocket [chemical binding]; other site 221109004345 FAD binding motif [chemical binding]; other site 221109004346 phosphate binding motif [ion binding]; other site 221109004347 beta-alpha-beta structure motif; other site 221109004348 NAD binding pocket [chemical binding]; other site 221109004349 Iron coordination center [ion binding]; other site 221109004350 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 221109004351 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 221109004352 heterodimer interface [polypeptide binding]; other site 221109004353 active site 221109004354 FMN binding site [chemical binding]; other site 221109004355 homodimer interface [polypeptide binding]; other site 221109004356 substrate binding site [chemical binding]; other site 221109004357 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 221109004358 active site 221109004359 dimer interface [polypeptide binding]; other site 221109004360 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109004361 active site 221109004362 Methyltransferase domain; Region: Methyltransf_31; pfam13847 221109004363 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 221109004364 S-adenosylmethionine binding site [chemical binding]; other site 221109004365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221109004366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 221109004367 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 221109004368 dimerization interface [polypeptide binding]; other site 221109004369 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 221109004370 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 221109004371 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 221109004372 active site 221109004373 GIY-YIG motif/motif A; other site 221109004374 catalytic site [active] 221109004375 metal binding site [ion binding]; metal-binding site 221109004376 Domain of unknown function (DUF814); Region: DUF814; pfam05670 221109004377 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 221109004378 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 221109004379 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 221109004380 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 221109004381 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 221109004382 motif II; other site 221109004383 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 221109004384 hypothetical protein; Provisional; Region: PRK04323 221109004385 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 221109004386 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 221109004387 catalytic site [active] 221109004388 G-X2-G-X-G-K; other site 221109004389 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 221109004390 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 221109004391 Flavoprotein; Region: Flavoprotein; pfam02441 221109004392 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 221109004393 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 221109004394 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 221109004395 ATP binding site [chemical binding]; other site 221109004396 putative Mg++ binding site [ion binding]; other site 221109004397 helicase superfamily c-terminal domain; Region: HELICc; smart00490 221109004398 ATP-binding site [chemical binding]; other site 221109004399 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 221109004400 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 221109004401 putative active site [active] 221109004402 substrate binding site [chemical binding]; other site 221109004403 putative cosubstrate binding site; other site 221109004404 catalytic site [active] 221109004405 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 221109004406 substrate binding site [chemical binding]; other site 221109004407 16S rRNA methyltransferase B; Provisional; Region: PRK14902 221109004408 NusB family; Region: NusB; pfam01029 221109004409 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 221109004410 S-adenosylmethionine binding site [chemical binding]; other site 221109004411 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 221109004412 Protein phosphatase 2C; Region: PP2C; pfam00481 221109004413 active site 221109004414 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 221109004415 Catalytic domain of Protein Kinases; Region: PKc; cd00180 221109004416 active site 221109004417 ATP binding site [chemical binding]; other site 221109004418 substrate binding site [chemical binding]; other site 221109004419 activation loop (A-loop); other site 221109004420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 221109004421 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 221109004422 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 221109004423 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 221109004424 GTPase RsgA; Reviewed; Region: PRK00098 221109004425 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 221109004426 RNA binding site [nucleotide binding]; other site 221109004427 homodimer interface [polypeptide binding]; other site 221109004428 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 221109004429 GTPase/Zn-binding domain interface [polypeptide binding]; other site 221109004430 GTP/Mg2+ binding site [chemical binding]; other site 221109004431 G4 box; other site 221109004432 G5 box; other site 221109004433 G1 box; other site 221109004434 Switch I region; other site 221109004435 G2 box; other site 221109004436 G3 box; other site 221109004437 Switch II region; other site 221109004438 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 221109004439 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 221109004440 substrate binding site [chemical binding]; other site 221109004441 hexamer interface [polypeptide binding]; other site 221109004442 metal binding site [ion binding]; metal-binding site 221109004443 Thiamine pyrophosphokinase; Region: TPK; cd07995 221109004444 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 221109004445 active site 221109004446 dimerization interface [polypeptide binding]; other site 221109004447 thiamine binding site [chemical binding]; other site 221109004448 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 221109004449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 221109004450 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 221109004451 DAK2 domain; Region: Dak2; pfam02734 221109004452 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 221109004453 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 221109004454 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 221109004455 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 221109004456 putative L-serine binding site [chemical binding]; other site 221109004457 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 221109004458 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 221109004459 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 221109004460 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 221109004461 generic binding surface II; other site 221109004462 ssDNA binding site; other site 221109004463 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 221109004464 ATP binding site [chemical binding]; other site 221109004465 putative Mg++ binding site [ion binding]; other site 221109004466 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 221109004467 nucleotide binding region [chemical binding]; other site 221109004468 ATP-binding site [chemical binding]; other site 221109004469 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 221109004470 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 221109004471 active site 2 [active] 221109004472 active site 1 [active] 221109004473 putative phosphate acyltransferase; Provisional; Region: PRK05331 221109004474 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 221109004475 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 221109004476 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 221109004477 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 221109004478 NAD(P) binding site [chemical binding]; other site 221109004479 homotetramer interface [polypeptide binding]; other site 221109004480 homodimer interface [polypeptide binding]; other site 221109004481 active site 221109004482 acyl carrier protein; Provisional; Region: acpP; PRK00982 221109004483 ribonuclease III; Reviewed; Region: rnc; PRK00102 221109004484 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 221109004485 dimerization interface [polypeptide binding]; other site 221109004486 active site 221109004487 metal binding site [ion binding]; metal-binding site 221109004488 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 221109004489 dsRNA binding site [nucleotide binding]; other site 221109004490 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 221109004491 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 221109004492 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 221109004493 Walker A/P-loop; other site 221109004494 ATP binding site [chemical binding]; other site 221109004495 Q-loop/lid; other site 221109004496 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 221109004497 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 221109004498 ABC transporter signature motif; other site 221109004499 Walker B; other site 221109004500 D-loop; other site 221109004501 H-loop/switch region; other site 221109004502 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 221109004503 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 221109004504 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 221109004505 P loop; other site 221109004506 GTP binding site [chemical binding]; other site 221109004507 putative DNA-binding protein; Validated; Region: PRK00118 221109004508 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 221109004509 signal recognition particle protein; Provisional; Region: PRK10867 221109004510 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 221109004511 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 221109004512 P loop; other site 221109004513 GTP binding site [chemical binding]; other site 221109004514 Signal peptide binding domain; Region: SRP_SPB; pfam02978 221109004515 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 221109004516 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 221109004517 KH domain; Region: KH_4; pfam13083 221109004518 G-X-X-G motif; other site 221109004519 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 221109004520 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 221109004521 RimM N-terminal domain; Region: RimM; pfam01782 221109004522 PRC-barrel domain; Region: PRC; pfam05239 221109004523 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 221109004524 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 221109004525 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 221109004526 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 221109004527 Catalytic site [active] 221109004528 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 221109004529 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 221109004530 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 221109004531 GTP/Mg2+ binding site [chemical binding]; other site 221109004532 G4 box; other site 221109004533 G5 box; other site 221109004534 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 221109004535 G1 box; other site 221109004536 G1 box; other site 221109004537 GTP/Mg2+ binding site [chemical binding]; other site 221109004538 Switch I region; other site 221109004539 G2 box; other site 221109004540 G2 box; other site 221109004541 G3 box; other site 221109004542 G3 box; other site 221109004543 Switch II region; other site 221109004544 Switch II region; other site 221109004545 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 221109004546 RNA/DNA hybrid binding site [nucleotide binding]; other site 221109004547 active site 221109004548 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 221109004549 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 221109004550 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 221109004551 CoA-ligase; Region: Ligase_CoA; pfam00549 221109004552 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 221109004553 CoA binding domain; Region: CoA_binding; pfam02629 221109004554 CoA-ligase; Region: Ligase_CoA; pfam00549 221109004555 DNA protecting protein DprA; Region: dprA; TIGR00732 221109004556 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 221109004557 DNA topoisomerase I; Validated; Region: PRK05582 221109004558 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 221109004559 active site 221109004560 interdomain interaction site; other site 221109004561 putative metal-binding site [ion binding]; other site 221109004562 nucleotide binding site [chemical binding]; other site 221109004563 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 221109004564 domain I; other site 221109004565 DNA binding groove [nucleotide binding] 221109004566 phosphate binding site [ion binding]; other site 221109004567 domain II; other site 221109004568 domain III; other site 221109004569 nucleotide binding site [chemical binding]; other site 221109004570 catalytic site [active] 221109004571 domain IV; other site 221109004572 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221109004573 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221109004574 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 221109004575 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 221109004576 active site 221109004577 Int/Topo IB signature motif; other site 221109004578 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 221109004579 active site 221109004580 HslU subunit interaction site [polypeptide binding]; other site 221109004581 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 221109004582 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 221109004583 Walker A motif; other site 221109004584 ATP binding site [chemical binding]; other site 221109004585 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 221109004586 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 221109004587 transcriptional repressor CodY; Validated; Region: PRK04158 221109004588 CodY GAF-like domain; Region: CodY; pfam06018 221109004589 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 221109004590 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 221109004591 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 221109004592 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 221109004593 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 221109004594 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 221109004595 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 221109004596 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 221109004597 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 221109004598 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 221109004599 FliG C-terminal domain; Region: FliG_C; pfam01706 221109004600 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 221109004601 Flagellar assembly protein FliH; Region: FliH; pfam02108 221109004602 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 221109004603 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 221109004604 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 221109004605 Walker A motif/ATP binding site; other site 221109004606 Walker B motif; other site 221109004607 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 221109004608 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 221109004609 Uncharacterized conserved protein [Function unknown]; Region: COG3334 221109004610 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 221109004611 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 221109004612 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 221109004613 flagellar operon protein; Region: flg_new; TIGR02530 221109004614 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 221109004615 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 221109004616 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 221109004617 Flagellar protein (FlbD); Region: FlbD; pfam06289 221109004618 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 221109004619 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 221109004620 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 221109004621 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 221109004622 flagellar motor switch protein; Validated; Region: PRK08119 221109004623 CheC-like family; Region: CheC; pfam04509 221109004624 CheC-like family; Region: CheC; pfam04509 221109004625 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 221109004626 Response regulator receiver domain; Region: Response_reg; pfam00072 221109004627 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 221109004628 active site 221109004629 phosphorylation site [posttranslational modification] 221109004630 intermolecular recognition site; other site 221109004631 dimerization interface [polypeptide binding]; other site 221109004632 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 221109004633 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 221109004634 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 221109004635 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 221109004636 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 221109004637 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 221109004638 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 221109004639 FHIPEP family; Region: FHIPEP; pfam00771 221109004640 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 221109004641 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 221109004642 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 221109004643 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 221109004644 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 221109004645 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 221109004646 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 221109004647 active site 221109004648 phosphorylation site [posttranslational modification] 221109004649 intermolecular recognition site; other site 221109004650 dimerization interface [polypeptide binding]; other site 221109004651 CheB methylesterase; Region: CheB_methylest; pfam01339 221109004652 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 221109004653 putative CheA interaction surface; other site 221109004654 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 221109004655 CheC-like family; Region: CheC; pfam04509 221109004656 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 221109004657 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 221109004658 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109004659 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 221109004660 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 221109004661 DNA binding residues [nucleotide binding] 221109004662 Protein of unknown function (DUF342); Region: DUF342; pfam03961 221109004663 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 221109004664 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 221109004665 rRNA interaction site [nucleotide binding]; other site 221109004666 S8 interaction site; other site 221109004667 putative laminin-1 binding site; other site 221109004668 elongation factor Ts; Provisional; Region: tsf; PRK09377 221109004669 UBA/TS-N domain; Region: UBA; pfam00627 221109004670 Elongation factor TS; Region: EF_TS; pfam00889 221109004671 Elongation factor TS; Region: EF_TS; pfam00889 221109004672 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 221109004673 putative nucleotide binding site [chemical binding]; other site 221109004674 uridine monophosphate binding site [chemical binding]; other site 221109004675 homohexameric interface [polypeptide binding]; other site 221109004676 ribosome recycling factor; Reviewed; Region: frr; PRK00083 221109004677 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 221109004678 hinge region; other site 221109004679 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 221109004680 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; cd00475 221109004681 catalytic residue [active] 221109004682 putative FPP diphosphate binding site; other site 221109004683 putative FPP binding hydrophobic cleft; other site 221109004684 dimer interface [polypeptide binding]; other site 221109004685 putative IPP diphosphate binding site; other site 221109004686 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 221109004687 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 221109004688 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 221109004689 RIP metalloprotease RseP; Region: TIGR00054 221109004690 active site 221109004691 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 221109004692 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 221109004693 protein binding site [polypeptide binding]; other site 221109004694 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 221109004695 putative substrate binding region [chemical binding]; other site 221109004696 DNA polymerase III PolC; Validated; Region: polC; PRK00448 221109004697 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 221109004698 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 221109004699 generic binding surface II; other site 221109004700 generic binding surface I; other site 221109004701 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 221109004702 active site 221109004703 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 221109004704 active site 221109004705 catalytic site [active] 221109004706 substrate binding site [chemical binding]; other site 221109004707 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 221109004708 ribosome maturation protein RimP; Reviewed; Region: PRK00092 221109004709 Sm and related proteins; Region: Sm_like; cl00259 221109004710 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 221109004711 putative oligomer interface [polypeptide binding]; other site 221109004712 putative RNA binding site [nucleotide binding]; other site 221109004713 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 221109004714 NusA N-terminal domain; Region: NusA_N; pfam08529 221109004715 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 221109004716 RNA binding site [nucleotide binding]; other site 221109004717 homodimer interface [polypeptide binding]; other site 221109004718 NusA-like KH domain; Region: KH_5; pfam13184 221109004719 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 221109004720 G-X-X-G motif; other site 221109004721 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 221109004722 putative RNA binding cleft [nucleotide binding]; other site 221109004723 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 221109004724 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 221109004725 translation initiation factor IF-2; Region: IF-2; TIGR00487 221109004726 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 221109004727 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 221109004728 G1 box; other site 221109004729 putative GEF interaction site [polypeptide binding]; other site 221109004730 GTP/Mg2+ binding site [chemical binding]; other site 221109004731 Switch I region; other site 221109004732 G2 box; other site 221109004733 G3 box; other site 221109004734 Switch II region; other site 221109004735 G4 box; other site 221109004736 G5 box; other site 221109004737 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 221109004738 Translation-initiation factor 2; Region: IF-2; pfam11987 221109004739 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 221109004740 Protein of unknown function (DUF503); Region: DUF503; pfam04456 221109004741 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 221109004742 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 221109004743 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 221109004744 RNA binding site [nucleotide binding]; other site 221109004745 active site 221109004746 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 221109004747 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 221109004748 active site 221109004749 Riboflavin kinase; Region: Flavokinase; smart00904 221109004750 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 221109004751 16S/18S rRNA binding site [nucleotide binding]; other site 221109004752 S13e-L30e interaction site [polypeptide binding]; other site 221109004753 25S rRNA binding site [nucleotide binding]; other site 221109004754 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 221109004755 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 221109004756 RNase E interface [polypeptide binding]; other site 221109004757 trimer interface [polypeptide binding]; other site 221109004758 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 221109004759 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 221109004760 RNase E interface [polypeptide binding]; other site 221109004761 trimer interface [polypeptide binding]; other site 221109004762 active site 221109004763 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 221109004764 putative nucleic acid binding region [nucleotide binding]; other site 221109004765 G-X-X-G motif; other site 221109004766 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 221109004767 RNA binding site [nucleotide binding]; other site 221109004768 domain interface; other site 221109004769 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 221109004770 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 221109004771 NodB motif; other site 221109004772 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 221109004773 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 221109004774 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 221109004775 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 221109004776 dipicolinic acid synthetase, A subunit; Region: spore_dpaA; TIGR02853 221109004777 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 221109004778 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 221109004779 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 221109004780 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 221109004781 aspartate kinase I; Reviewed; Region: PRK08210 221109004782 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 221109004783 nucleotide binding site [chemical binding]; other site 221109004784 substrate binding site [chemical binding]; other site 221109004785 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 221109004786 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 221109004787 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 221109004788 active site 221109004789 YlzJ-like protein; Region: YlzJ; pfam14035 221109004790 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 221109004791 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 221109004792 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 221109004793 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 221109004794 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 221109004795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109004796 DNA-binding site [nucleotide binding]; DNA binding site 221109004797 UTRA domain; Region: UTRA; pfam07702 221109004798 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 221109004799 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 221109004800 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 221109004801 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 221109004802 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 221109004803 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109004804 classical (c) SDRs; Region: SDR_c; cd05233 221109004805 NAD(P) binding site [chemical binding]; other site 221109004806 active site 221109004807 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 221109004808 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 221109004809 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 221109004810 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 221109004811 Helix-turn-helix domain; Region: HTH_25; pfam13413 221109004812 non-specific DNA binding site [nucleotide binding]; other site 221109004813 salt bridge; other site 221109004814 sequence-specific DNA binding site [nucleotide binding]; other site 221109004815 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 221109004816 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 221109004817 competence damage-inducible protein A; Provisional; Region: PRK00549 221109004818 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 221109004819 putative MPT binding site; other site 221109004820 Competence-damaged protein; Region: CinA; pfam02464 221109004821 recombinase A; Provisional; Region: recA; PRK09354 221109004822 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 221109004823 hexamer interface [polypeptide binding]; other site 221109004824 Walker A motif; other site 221109004825 ATP binding site [chemical binding]; other site 221109004826 Walker B motif; other site 221109004827 phosphodiesterase; Provisional; Region: PRK12704 221109004828 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109004829 Zn2+ binding site [ion binding]; other site 221109004830 Mg2+ binding site [ion binding]; other site 221109004831 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 221109004832 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221109004833 putative active site [active] 221109004834 metal binding site [ion binding]; metal-binding site 221109004835 homodimer binding site [polypeptide binding]; other site 221109004836 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 221109004837 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 221109004838 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 221109004839 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 221109004840 FeS/SAM binding site; other site 221109004841 TRAM domain; Region: TRAM; pfam01938 221109004842 Predicted membrane protein [Function unknown]; Region: COG4550 221109004843 Outer spore coat protein E (CotE); Region: CotE; pfam10628 221109004844 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 221109004845 MutS domain I; Region: MutS_I; pfam01624 221109004846 MutS domain II; Region: MutS_II; pfam05188 221109004847 MutS domain III; Region: MutS_III; pfam05192 221109004848 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 221109004849 Walker A/P-loop; other site 221109004850 ATP binding site [chemical binding]; other site 221109004851 Q-loop/lid; other site 221109004852 ABC transporter signature motif; other site 221109004853 Walker B; other site 221109004854 D-loop; other site 221109004855 H-loop/switch region; other site 221109004856 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 221109004857 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 221109004858 ATP binding site [chemical binding]; other site 221109004859 Mg2+ binding site [ion binding]; other site 221109004860 G-X-G motif; other site 221109004861 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 221109004862 ATP binding site [chemical binding]; other site 221109004863 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 221109004864 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 221109004865 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 221109004866 dimerization interface [polypeptide binding]; other site 221109004867 DPS ferroxidase diiron center [ion binding]; other site 221109004868 ion pore; other site 221109004869 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 221109004870 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 221109004871 bacterial Hfq-like; Region: Hfq; cd01716 221109004872 hexamer interface [polypeptide binding]; other site 221109004873 Sm1 motif; other site 221109004874 RNA binding site [nucleotide binding]; other site 221109004875 Sm2 motif; other site 221109004876 putative transposase OrfB; Reviewed; Region: PHA02517 221109004877 HTH-like domain; Region: HTH_21; pfam13276 221109004878 Integrase core domain; Region: rve; pfam00665 221109004879 Integrase core domain; Region: rve_3; pfam13683 221109004880 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 221109004881 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 221109004882 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 221109004883 Na binding site [ion binding]; other site 221109004884 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 221109004885 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 221109004886 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 221109004887 active site 221109004888 phosphorylation site [posttranslational modification] 221109004889 intermolecular recognition site; other site 221109004890 dimerization interface [polypeptide binding]; other site 221109004891 LytTr DNA-binding domain; Region: LytTR; pfam04397 221109004892 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 221109004893 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 221109004894 Histidine kinase; Region: His_kinase; pfam06580 221109004895 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 221109004896 ATP binding site [chemical binding]; other site 221109004897 Mg2+ binding site [ion binding]; other site 221109004898 G-X-G motif; other site 221109004899 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 221109004900 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 221109004901 Na binding site [ion binding]; other site 221109004902 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109004903 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109004904 stage V sporulation protein K; Region: spore_V_K; TIGR02881 221109004905 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 221109004906 Walker A motif; other site 221109004907 ATP binding site [chemical binding]; other site 221109004908 Walker B motif; other site 221109004909 arginine finger; other site 221109004910 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 221109004911 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 221109004912 HflX GTPase family; Region: HflX; cd01878 221109004913 G1 box; other site 221109004914 GTP/Mg2+ binding site [chemical binding]; other site 221109004915 Switch I region; other site 221109004916 G2 box; other site 221109004917 G3 box; other site 221109004918 Switch II region; other site 221109004919 G4 box; other site 221109004920 G5 box; other site 221109004921 Aluminium resistance protein; Region: Alum_res; pfam06838 221109004922 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 221109004923 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 221109004924 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 221109004925 DNA binding residues [nucleotide binding] 221109004926 putative dimer interface [polypeptide binding]; other site 221109004927 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 221109004928 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 221109004929 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 221109004930 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 221109004931 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 221109004932 Active Sites [active] 221109004933 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 221109004934 Flavodoxin; Region: Flavodoxin_1; pfam00258 221109004935 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; cd06199 221109004936 FAD binding pocket [chemical binding]; other site 221109004937 FAD binding motif [chemical binding]; other site 221109004938 catalytic residues [active] 221109004939 NAD binding pocket [chemical binding]; other site 221109004940 phosphate binding motif [ion binding]; other site 221109004941 beta-alpha-beta structure motif; other site 221109004942 sulfite reductase subunit beta; Provisional; Region: PRK13504 221109004943 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 221109004944 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 221109004945 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 221109004946 active site 221109004947 SAM binding site [chemical binding]; other site 221109004948 homodimer interface [polypeptide binding]; other site 221109004949 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 221109004950 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 221109004951 putative active site [active] 221109004952 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 221109004953 putative active site [active] 221109004954 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 221109004955 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 221109004956 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 221109004957 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 221109004958 active site 221109004959 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 221109004960 ATP-sulfurylase; Region: ATPS; cd00517 221109004961 active site 221109004962 HXXH motif; other site 221109004963 flexible loop; other site 221109004964 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 221109004965 TrkA-C domain; Region: TrkA_C; pfam02080 221109004966 TrkA-C domain; Region: TrkA_C; pfam02080 221109004967 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 221109004968 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 221109004969 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 221109004970 ligand-binding site [chemical binding]; other site 221109004971 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 221109004972 TrkA-N domain; Region: TrkA_N; pfam02254 221109004973 TrkA-C domain; Region: TrkA_C; pfam02080 221109004974 Cation transport protein; Region: TrkH; cl17365 221109004975 Cation transport protein; Region: TrkH; pfam02386 221109004976 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 221109004977 Peptidase family M23; Region: Peptidase_M23; pfam01551 221109004978 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109004979 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109004980 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109004981 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 221109004982 dinuclear metal binding motif [ion binding]; other site 221109004983 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 221109004984 dinuclear metal binding motif [ion binding]; other site 221109004985 LexA repressor; Validated; Region: PRK00215 221109004986 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 221109004987 putative DNA binding site [nucleotide binding]; other site 221109004988 putative Zn2+ binding site [ion binding]; other site 221109004989 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 221109004990 Catalytic site [active] 221109004991 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 221109004992 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 221109004993 catalytic residues [active] 221109004994 catalytic nucleophile [active] 221109004995 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 221109004996 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 221109004997 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 221109004998 TPP-binding site [chemical binding]; other site 221109004999 dimer interface [polypeptide binding]; other site 221109005000 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 221109005001 PYR/PP interface [polypeptide binding]; other site 221109005002 dimer interface [polypeptide binding]; other site 221109005003 TPP binding site [chemical binding]; other site 221109005004 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 221109005005 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 221109005006 DinB superfamily; Region: DinB_2; pfam12867 221109005007 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109005008 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109005009 dimer interface [polypeptide binding]; other site 221109005010 putative CheW interface [polypeptide binding]; other site 221109005011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 221109005012 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 221109005013 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 221109005014 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 221109005015 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 221109005016 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 221109005017 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 221109005018 putative active site [active] 221109005019 heme pocket [chemical binding]; other site 221109005020 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 221109005021 dimer interface [polypeptide binding]; other site 221109005022 phosphorylation site [posttranslational modification] 221109005023 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 221109005024 ATP binding site [chemical binding]; other site 221109005025 Mg2+ binding site [ion binding]; other site 221109005026 G-X-G motif; other site 221109005027 aconitate hydratase; Validated; Region: PRK09277 221109005028 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 221109005029 substrate binding site [chemical binding]; other site 221109005030 ligand binding site [chemical binding]; other site 221109005031 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 221109005032 substrate binding site [chemical binding]; other site 221109005033 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 221109005034 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 221109005035 catalytic residues [active] 221109005036 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 221109005037 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 221109005038 active site 221109005039 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 221109005040 Haemolytic domain; Region: Haemolytic; pfam01809 221109005041 putative GTP cyclohydrolase; Provisional; Region: PRK13674 221109005042 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 221109005043 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 221109005044 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 221109005045 Walker A/P-loop; other site 221109005046 ATP binding site [chemical binding]; other site 221109005047 Q-loop/lid; other site 221109005048 ABC transporter signature motif; other site 221109005049 Walker B; other site 221109005050 D-loop; other site 221109005051 H-loop/switch region; other site 221109005052 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; cd02205 221109005053 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 221109005054 dimer interface [polypeptide binding]; other site 221109005055 conserved gate region; other site 221109005056 ABC-ATPase subunit interface; other site 221109005057 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221109005058 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 221109005059 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 221109005060 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 221109005061 ATP binding site [chemical binding]; other site 221109005062 Mg2+ binding site [ion binding]; other site 221109005063 G-X-G motif; other site 221109005064 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 221109005065 anchoring element; other site 221109005066 dimer interface [polypeptide binding]; other site 221109005067 ATP binding site [chemical binding]; other site 221109005068 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 221109005069 active site 221109005070 putative metal-binding site [ion binding]; other site 221109005071 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 221109005072 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 221109005073 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 221109005074 CAP-like domain; other site 221109005075 active site 221109005076 primary dimer interface [polypeptide binding]; other site 221109005077 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109005078 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109005079 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221109005080 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109005081 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 221109005082 active site 221109005083 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 221109005084 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109005085 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 221109005086 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 221109005087 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 221109005088 carboxyltransferase (CT) interaction site; other site 221109005089 biotinylation site [posttranslational modification]; other site 221109005090 enoyl-CoA hydratase; Provisional; Region: PRK07657 221109005091 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 221109005092 substrate binding site [chemical binding]; other site 221109005093 oxyanion hole (OAH) forming residues; other site 221109005094 trimer interface [polypeptide binding]; other site 221109005095 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 221109005096 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 221109005097 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 221109005098 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 221109005099 Dynamin family; Region: Dynamin_N; pfam00350 221109005100 G1 box; other site 221109005101 GTP/Mg2+ binding site [chemical binding]; other site 221109005102 G2 box; other site 221109005103 Switch I region; other site 221109005104 G3 box; other site 221109005105 Switch II region; other site 221109005106 G4 box; other site 221109005107 G5 box; other site 221109005108 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 221109005109 Dynamin family; Region: Dynamin_N; pfam00350 221109005110 G1 box; other site 221109005111 GTP/Mg2+ binding site [chemical binding]; other site 221109005112 G2 box; other site 221109005113 Switch I region; other site 221109005114 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 221109005115 Switch I region; other site 221109005116 G3 box; other site 221109005117 Switch II region; other site 221109005118 GTP/Mg2+ binding site [chemical binding]; other site 221109005119 G4 box; other site 221109005120 G5 box; other site 221109005121 5'-3' exonuclease; Region: 53EXOc; smart00475 221109005122 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 221109005123 active site 221109005124 metal binding site 1 [ion binding]; metal-binding site 221109005125 putative 5' ssDNA interaction site; other site 221109005126 metal binding site 3; metal-binding site 221109005127 metal binding site 2 [ion binding]; metal-binding site 221109005128 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 221109005129 putative DNA binding site [nucleotide binding]; other site 221109005130 putative metal binding site [ion binding]; other site 221109005131 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 221109005132 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 221109005133 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 221109005134 dimer interface [polypeptide binding]; other site 221109005135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109005136 catalytic residue [active] 221109005137 Predicted membrane protein [Function unknown]; Region: COG4325 221109005138 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 221109005139 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 221109005140 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 221109005141 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 221109005142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109005143 putative substrate translocation pore; other site 221109005144 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 221109005145 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 221109005146 dihydrodipicolinate synthase; Region: dapA; TIGR00674 221109005147 dimer interface [polypeptide binding]; other site 221109005148 active site 221109005149 catalytic residue [active] 221109005150 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 221109005151 FAD binding domain; Region: FAD_binding_2; pfam00890 221109005152 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 2; Region: PLPDE_III_DSD_D-TA_like_2; cd06813 221109005153 dimer interface [polypeptide binding]; other site 221109005154 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 221109005155 active site 221109005156 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221109005157 substrate binding site [chemical binding]; other site 221109005158 catalytic residue [active] 221109005159 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 221109005160 FAD binding domain; Region: FAD_binding_4; pfam01565 221109005161 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 221109005162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109005163 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 221109005164 active site 221109005165 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 221109005166 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 221109005167 motif II; other site 221109005168 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221109005169 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109005170 Walker A/P-loop; other site 221109005171 ATP binding site [chemical binding]; other site 221109005172 Q-loop/lid; other site 221109005173 ABC transporter signature motif; other site 221109005174 Walker B; other site 221109005175 D-loop; other site 221109005176 H-loop/switch region; other site 221109005177 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 221109005178 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 221109005179 BioY family; Region: BioY; pfam02632 221109005180 similar to transposase for IS658 221109005181 Bacitracin resistance protein BacA; Region: BacA; cl00858 221109005182 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 221109005183 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 221109005184 Soluble P-type ATPase [General function prediction only]; Region: COG4087 221109005185 short chain dehydrogenase; Provisional; Region: PRK06197 221109005186 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 221109005187 putative NAD(P) binding site [chemical binding]; other site 221109005188 active site 221109005189 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109005190 Coenzyme A binding pocket [chemical binding]; other site 221109005191 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221109005192 Protein of unknown function (DUF1670); Region: DUF1670; pfam07900 221109005193 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 221109005194 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 221109005195 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 221109005196 [2Fe-2S] cluster binding site [ion binding]; other site 221109005197 Ferredoxin [Energy production and conversion]; Region: COG1146 221109005198 4Fe-4S binding domain; Region: Fer4; cl02805 221109005199 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109005200 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 221109005201 putative active site [active] 221109005202 Zn binding site [ion binding]; other site 221109005203 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 221109005204 catalytic core [active] 221109005205 methionine sulfoxide reductase A; Provisional; Region: PRK14054 221109005206 methionine sulfoxide reductase B; Provisional; Region: PRK00222 221109005207 SelR domain; Region: SelR; pfam01641 221109005208 YqfQ-like protein; Region: YqfQ; pfam14181 221109005209 hypothetical protein; Provisional; Region: PRK13672 221109005210 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 221109005211 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 221109005212 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 221109005213 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 221109005214 folate binding site [chemical binding]; other site 221109005215 NADP+ binding site [chemical binding]; other site 221109005216 thymidylate synthase; Region: thym_sym; TIGR03284 221109005217 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 221109005218 dimerization interface [polypeptide binding]; other site 221109005219 active site 221109005220 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109005221 NlpC/P60 family; Region: NLPC_P60; pfam00877 221109005222 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 221109005223 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 221109005224 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 221109005225 DNA-binding site [nucleotide binding]; DNA binding site 221109005226 RNA-binding motif; other site 221109005227 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 221109005228 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 221109005229 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 221109005230 Putative D-pathway homolog; other site 221109005231 Low-spin heme binding site [chemical binding]; other site 221109005232 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 221109005233 Subunit I/II interface [polypeptide binding]; other site 221109005234 Putative Q-pathway; other site 221109005235 Putative alternate electron transfer pathway; other site 221109005236 Putative water exit pathway; other site 221109005237 Binuclear center (active site) [active] 221109005238 Putative K-pathway homolog; other site 221109005239 Putative proton exit pathway; other site 221109005240 Subunit I/IIa interface [polypeptide binding]; other site 221109005241 Electron transfer pathway; other site 221109005242 Phospholipid methyltransferase; Region: PEMT; cl17370 221109005243 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 221109005244 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 221109005245 malonyl-CoA binding site [chemical binding]; other site 221109005246 dimer interface [polypeptide binding]; other site 221109005247 active site 221109005248 product binding site; other site 221109005249 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 221109005250 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 221109005251 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 221109005252 cell division protein GpsB; Provisional; Region: PRK14127 221109005253 DivIVA domain; Region: DivI1A_domain; TIGR03544 221109005254 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 221109005255 active site 221109005256 catalytic motif [active] 221109005257 Zn binding site [ion binding]; other site 221109005258 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 221109005259 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 221109005260 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 221109005261 Transglycosylase; Region: Transgly; pfam00912 221109005262 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 221109005263 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 221109005264 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 221109005265 Interdomain contacts; other site 221109005266 Cytokine receptor motif; other site 221109005267 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 221109005268 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 221109005269 minor groove reading motif; other site 221109005270 helix-hairpin-helix signature motif; other site 221109005271 substrate binding pocket [chemical binding]; other site 221109005272 active site 221109005273 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 221109005274 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 221109005275 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 221109005276 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 221109005277 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 221109005278 putative dimer interface [polypeptide binding]; other site 221109005279 putative anticodon binding site; other site 221109005280 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 221109005281 homodimer interface [polypeptide binding]; other site 221109005282 motif 1; other site 221109005283 motif 2; other site 221109005284 active site 221109005285 motif 3; other site 221109005286 aspartate aminotransferase; Provisional; Region: PRK05764 221109005287 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 221109005288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109005289 homodimer interface [polypeptide binding]; other site 221109005290 catalytic residue [active] 221109005291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 221109005292 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 221109005293 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 221109005294 active site 221109005295 catalytic site [active] 221109005296 substrate binding site [chemical binding]; other site 221109005297 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 221109005298 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 221109005299 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 221109005300 tetramerization interface [polypeptide binding]; other site 221109005301 active site 221109005302 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 221109005303 putative DNA binding site [nucleotide binding]; other site 221109005304 putative Zn2+ binding site [ion binding]; other site 221109005305 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 221109005306 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 221109005307 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 221109005308 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 221109005309 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 221109005310 active site 221109005311 NTP binding site [chemical binding]; other site 221109005312 metal binding triad [ion binding]; metal-binding site 221109005313 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 221109005314 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 221109005315 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_5; cd04962 221109005316 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 221109005317 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 221109005318 active site 221109005319 dimer interfaces [polypeptide binding]; other site 221109005320 catalytic residues [active] 221109005321 dihydrodipicolinate reductase; Provisional; Region: PRK00048 221109005322 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 221109005323 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 221109005324 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 221109005325 homodimer interface [polypeptide binding]; other site 221109005326 metal binding site [ion binding]; metal-binding site 221109005327 Uncharacterized conserved protein [Function unknown]; Region: COG1284 221109005328 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109005329 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109005330 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 221109005331 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 221109005332 Protein of unknown function (DUF1405); Region: DUF1405; pfam07187 221109005333 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; cl00193 221109005334 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 221109005335 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 221109005336 cytochrome b6; Provisional; Region: PRK03735 221109005337 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 221109005338 interchain domain interface [polypeptide binding]; other site 221109005339 intrachain domain interface; other site 221109005340 heme bH binding site [chemical binding]; other site 221109005341 Qi binding site; other site 221109005342 heme bL binding site [chemical binding]; other site 221109005343 Qo binding site; other site 221109005344 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 221109005345 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 221109005346 iron-sulfur cluster [ion binding]; other site 221109005347 [2Fe-2S] cluster binding site [ion binding]; other site 221109005348 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 221109005349 hypothetical protein; Provisional; Region: PRK03636 221109005350 UPF0302 domain; Region: UPF0302; pfam08864 221109005351 IDEAL domain; Region: IDEAL; pfam08858 221109005352 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 221109005353 binding surface 221109005354 TPR motif; other site 221109005355 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 221109005356 binding surface 221109005357 TPR motif; other site 221109005358 TPR repeat; Region: TPR_11; pfam13414 221109005359 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 221109005360 binding surface 221109005361 TPR motif; other site 221109005362 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 221109005363 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 221109005364 hinge; other site 221109005365 active site 221109005366 prephenate dehydrogenase; Validated; Region: PRK06545 221109005367 prephenate dehydrogenase; Validated; Region: PRK08507 221109005368 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 221109005369 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 221109005370 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 221109005371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109005372 homodimer interface [polypeptide binding]; other site 221109005373 catalytic residue [active] 221109005374 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 221109005375 homotrimer interaction site [polypeptide binding]; other site 221109005376 active site 221109005377 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 221109005378 active site 221109005379 dimer interface [polypeptide binding]; other site 221109005380 metal binding site [ion binding]; metal-binding site 221109005381 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 221109005382 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 221109005383 Tetramer interface [polypeptide binding]; other site 221109005384 active site 221109005385 FMN-binding site [chemical binding]; other site 221109005386 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 221109005387 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 221109005388 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 221109005389 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 221109005390 active site 221109005391 multimer interface [polypeptide binding]; other site 221109005392 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 221109005393 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 221109005394 substrate binding pocket [chemical binding]; other site 221109005395 chain length determination region; other site 221109005396 substrate-Mg2+ binding site; other site 221109005397 catalytic residues [active] 221109005398 aspartate-rich region 1; other site 221109005399 active site lid residues [active] 221109005400 aspartate-rich region 2; other site 221109005401 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 221109005402 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 221109005403 S-adenosylmethionine binding site [chemical binding]; other site 221109005404 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 221109005405 transcription attenuation protein MtrB; Provisional; Region: PRK13251 221109005406 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 221109005407 IHF dimer interface [polypeptide binding]; other site 221109005408 IHF - DNA interface [nucleotide binding]; other site 221109005409 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 221109005410 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 221109005411 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 221109005412 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 221109005413 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 221109005414 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 221109005415 GTP-binding protein Der; Reviewed; Region: PRK00093 221109005416 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 221109005417 G1 box; other site 221109005418 GTP/Mg2+ binding site [chemical binding]; other site 221109005419 Switch I region; other site 221109005420 G2 box; other site 221109005421 Switch II region; other site 221109005422 G3 box; other site 221109005423 G4 box; other site 221109005424 G5 box; other site 221109005425 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 221109005426 G1 box; other site 221109005427 GTP/Mg2+ binding site [chemical binding]; other site 221109005428 Switch I region; other site 221109005429 G2 box; other site 221109005430 G3 box; other site 221109005431 Switch II region; other site 221109005432 G4 box; other site 221109005433 G5 box; other site 221109005434 YIEGIA protein; Region: YIEGIA; pfam14045 221109005435 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 221109005436 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 221109005437 RNA binding site [nucleotide binding]; other site 221109005438 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 221109005439 RNA binding site [nucleotide binding]; other site 221109005440 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 221109005441 RNA binding site [nucleotide binding]; other site 221109005442 S1_RPS1_repeat_hs4: 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_hs4; cd05692 221109005443 RNA binding site [nucleotide binding]; other site 221109005444 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 221109005445 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 221109005446 putative acyl-acceptor binding pocket; other site 221109005447 cytidylate kinase; Provisional; Region: cmk; PRK00023 221109005448 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 221109005449 CMP-binding site; other site 221109005450 The sites determining sugar specificity; other site 221109005451 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 221109005452 Flagellar protein YcgR; Region: YcgR_2; pfam12945 221109005453 PilZ domain; Region: PilZ; pfam07238 221109005454 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 221109005455 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 221109005456 putative active site [active] 221109005457 putative NTP binding site [chemical binding]; other site 221109005458 putative nucleic acid binding site [nucleotide binding]; other site 221109005459 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 221109005460 germination protein YpeB; Region: spore_YpeB; TIGR02889 221109005461 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 221109005462 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109005463 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 221109005464 Protease prsW family; Region: PrsW-protease; pfam13367 221109005465 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 221109005466 active site 221109005467 homotetramer interface [polypeptide binding]; other site 221109005468 homodimer interface [polypeptide binding]; other site 221109005469 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 221109005470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 221109005471 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109005472 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 221109005473 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 221109005474 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 221109005475 NAD(P) binding site [chemical binding]; other site 221109005476 adaptor protein; Provisional; Region: PRK02899 221109005477 CAAX protease self-immunity; Region: Abi; pfam02517 221109005478 DEAD-like helicases superfamily; Region: DEXDc; smart00487 221109005479 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 221109005480 ATP binding site [chemical binding]; other site 221109005481 putative Mg++ binding site [ion binding]; other site 221109005482 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 221109005483 nucleotide binding region [chemical binding]; other site 221109005484 ATP-binding site [chemical binding]; other site 221109005485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 221109005486 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 221109005487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 221109005488 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 221109005489 dimerization interface [polypeptide binding]; other site 221109005490 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 221109005491 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 221109005492 dimer interface [polypeptide binding]; other site 221109005493 phosphorylation site [posttranslational modification] 221109005494 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 221109005495 ATP binding site [chemical binding]; other site 221109005496 Mg2+ binding site [ion binding]; other site 221109005497 G-X-G motif; other site 221109005498 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109005499 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 221109005500 active site 221109005501 phosphorylation site [posttranslational modification] 221109005502 intermolecular recognition site; other site 221109005503 dimerization interface [polypeptide binding]; other site 221109005504 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 221109005505 DNA binding site [nucleotide binding] 221109005506 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 221109005507 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 221109005508 ResB-like family; Region: ResB; pfam05140 221109005509 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 221109005510 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 221109005511 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 221109005512 catalytic residues [active] 221109005513 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 221109005514 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 221109005515 RNA binding surface [nucleotide binding]; other site 221109005516 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 221109005517 active site 221109005518 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 221109005519 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 221109005520 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 221109005521 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 221109005522 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 221109005523 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 221109005524 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221109005525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109005526 Coenzyme A binding pocket [chemical binding]; other site 221109005527 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 221109005528 active site 221109005529 diaminopimelate decarboxylase; Region: lysA; TIGR01048 221109005530 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 221109005531 active site 221109005532 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221109005533 substrate binding site [chemical binding]; other site 221109005534 catalytic residues [active] 221109005535 dimer interface [polypeptide binding]; other site 221109005536 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 221109005537 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 221109005538 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 221109005539 similar to transposase for IS660 221109005540 sporulation sigma factor SigF; Validated; Region: PRK05572 221109005541 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109005542 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 221109005543 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 221109005544 DNA binding residues [nucleotide binding] 221109005545 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 221109005546 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 221109005547 ATP binding site [chemical binding]; other site 221109005548 Mg2+ binding site [ion binding]; other site 221109005549 G-X-G motif; other site 221109005550 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 221109005551 anti sigma factor interaction site; other site 221109005552 regulatory phosphorylation site [posttranslational modification]; other site 221109005553 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 221109005554 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 221109005555 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 221109005556 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 221109005557 classical (c) SDRs; Region: SDR_c; cd05233 221109005558 NAD(P) binding site [chemical binding]; other site 221109005559 active site 221109005560 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 221109005561 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 221109005562 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 221109005563 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 221109005564 purine nucleoside phosphorylase; Provisional; Region: PRK08202 221109005565 phosphopentomutase; Provisional; Region: PRK05362 221109005566 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 221109005567 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 221109005568 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 221109005569 active site 221109005570 Int/Topo IB signature motif; other site 221109005571 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 221109005572 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 221109005573 metal binding site 2 [ion binding]; metal-binding site 221109005574 putative DNA binding helix; other site 221109005575 metal binding site 1 [ion binding]; metal-binding site 221109005576 dimer interface [polypeptide binding]; other site 221109005577 structural Zn2+ binding site [ion binding]; other site 221109005578 stage II sporulation protein M; Region: spo_II_M; TIGR02831 221109005579 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 221109005580 dimer interface [polypeptide binding]; other site 221109005581 ADP-ribose binding site [chemical binding]; other site 221109005582 active site 221109005583 nudix motif; other site 221109005584 metal binding site [ion binding]; metal-binding site 221109005585 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 221109005586 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109005587 active site 221109005588 catalytic tetrad [active] 221109005589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 221109005590 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 221109005591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109005592 NAD(P) binding site [chemical binding]; other site 221109005593 active site 221109005594 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 221109005595 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 221109005596 active site 221109005597 catalytic site [active] 221109005598 metal binding site [ion binding]; metal-binding site 221109005599 dimer interface [polypeptide binding]; other site 221109005600 ribonuclease Z; Region: RNase_Z; TIGR02651 221109005601 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 221109005602 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 221109005603 NAD(P) binding site [chemical binding]; other site 221109005604 catalytic residues [active] 221109005605 DNA polymerase IV; Validated; Region: PRK01810 221109005606 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 221109005607 active site 221109005608 DNA binding site [nucleotide binding] 221109005609 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 221109005610 peptidase T-like protein; Region: PepT-like; TIGR01883 221109005611 metal binding site [ion binding]; metal-binding site 221109005612 putative dimer interface [polypeptide binding]; other site 221109005613 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 221109005614 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 221109005615 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 221109005616 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109005617 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 221109005618 dimer interface [polypeptide binding]; other site 221109005619 substrate binding site [chemical binding]; other site 221109005620 metal binding site [ion binding]; metal-binding site 221109005621 Predicted membrane protein [Function unknown]; Region: COG4129 221109005622 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 221109005623 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 221109005624 Disulphide isomerase; Region: Disulph_isomer; pfam06491 221109005625 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 221109005626 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 221109005627 E3 interaction surface; other site 221109005628 lipoyl attachment site [posttranslational modification]; other site 221109005629 e3 binding domain; Region: E3_binding; pfam02817 221109005630 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 221109005631 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 221109005632 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 221109005633 alpha subunit interface [polypeptide binding]; other site 221109005634 TPP binding site [chemical binding]; other site 221109005635 heterodimer interface [polypeptide binding]; other site 221109005636 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 221109005637 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 221109005638 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 221109005639 tetramer interface [polypeptide binding]; other site 221109005640 TPP-binding site [chemical binding]; other site 221109005641 heterodimer interface [polypeptide binding]; other site 221109005642 phosphorylation loop region [posttranslational modification] 221109005643 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 221109005644 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109005645 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 221109005646 butyrate kinase; Provisional; Region: PRK03011 221109005647 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 221109005648 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 221109005649 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 221109005650 NAD binding site [chemical binding]; other site 221109005651 Phe binding site; other site 221109005652 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 221109005653 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 221109005654 putative active site [active] 221109005655 heme pocket [chemical binding]; other site 221109005656 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 221109005657 putative active site [active] 221109005658 heme pocket [chemical binding]; other site 221109005659 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 221109005660 Walker A motif; other site 221109005661 ATP binding site [chemical binding]; other site 221109005662 Walker B motif; other site 221109005663 arginine finger; other site 221109005664 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 221109005665 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 221109005666 aspartate kinase; Reviewed; Region: PRK09034 221109005667 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 221109005668 putative catalytic residues [active] 221109005669 putative nucleotide binding site [chemical binding]; other site 221109005670 putative aspartate binding site [chemical binding]; other site 221109005671 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 221109005672 allosteric regulatory residue; other site 221109005673 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 221109005674 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 221109005675 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 221109005676 active site 221109005677 phosphorylation site [posttranslational modification] 221109005678 intermolecular recognition site; other site 221109005679 dimerization interface [polypeptide binding]; other site 221109005680 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 221109005681 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 221109005682 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 221109005683 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 221109005684 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 221109005685 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 221109005686 Walker A/P-loop; other site 221109005687 ATP binding site [chemical binding]; other site 221109005688 Q-loop/lid; other site 221109005689 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 221109005690 Q-loop/lid; other site 221109005691 ABC transporter signature motif; other site 221109005692 Walker B; other site 221109005693 D-loop; other site 221109005694 H-loop/switch region; other site 221109005695 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 221109005696 arginine repressor; Provisional; Region: PRK04280 221109005697 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 221109005698 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 221109005699 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 221109005700 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 221109005701 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 221109005702 substrate binding pocket [chemical binding]; other site 221109005703 chain length determination region; other site 221109005704 substrate-Mg2+ binding site; other site 221109005705 catalytic residues [active] 221109005706 aspartate-rich region 1; other site 221109005707 active site lid residues [active] 221109005708 aspartate-rich region 2; other site 221109005709 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 221109005710 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 221109005711 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 221109005712 generic binding surface II; other site 221109005713 generic binding surface I; other site 221109005714 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 221109005715 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 221109005716 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 221109005717 homodimer interface [polypeptide binding]; other site 221109005718 NADP binding site [chemical binding]; other site 221109005719 substrate binding site [chemical binding]; other site 221109005720 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 221109005721 putative RNA binding site [nucleotide binding]; other site 221109005722 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 221109005723 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 221109005724 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 221109005725 active site turn [active] 221109005726 phosphorylation site [posttranslational modification] 221109005727 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 221109005728 HPr interaction site; other site 221109005729 glycerol kinase (GK) interaction site [polypeptide binding]; other site 221109005730 active site 221109005731 phosphorylation site [posttranslational modification] 221109005732 CAT RNA binding domain; Region: CAT_RBD; smart01061 221109005733 transcriptional antiterminator BglG; Provisional; Region: PRK09772 221109005734 PRD domain; Region: PRD; pfam00874 221109005735 PRD domain; Region: PRD; pfam00874 221109005736 Asp23 family; Region: Asp23; pfam03780 221109005737 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 221109005738 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221109005739 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 221109005740 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 221109005741 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 221109005742 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 221109005743 carboxyltransferase (CT) interaction site; other site 221109005744 biotinylation site [posttranslational modification]; other site 221109005745 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 221109005746 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 221109005747 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 221109005748 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 221109005749 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 221109005750 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 221109005751 stage III sporulation protein AB; Region: spore_III_AB; TIGR02833 221109005752 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 221109005753 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 221109005754 Walker A motif; other site 221109005755 ATP binding site [chemical binding]; other site 221109005756 Walker B motif; other site 221109005757 arginine finger; other site 221109005758 elongation factor P; Validated; Region: PRK00529 221109005759 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 221109005760 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 221109005761 RNA binding site [nucleotide binding]; other site 221109005762 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 221109005763 RNA binding site [nucleotide binding]; other site 221109005764 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 221109005765 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 221109005766 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 221109005767 active site 221109005768 Conserved membrane protein YqhR; Region: YqhR; pfam11085 221109005769 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 221109005770 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 221109005771 active site 221109005772 nucleophile elbow; other site 221109005773 manganese transport transcriptional regulator; Provisional; Region: PRK03902 221109005774 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 221109005775 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 221109005776 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 221109005777 active site residue [active] 221109005778 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 221109005779 tetramer interface [polypeptide binding]; other site 221109005780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109005781 catalytic residue [active] 221109005782 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 221109005783 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 221109005784 tetramer interface [polypeptide binding]; other site 221109005785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109005786 catalytic residue [active] 221109005787 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 221109005788 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 221109005789 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 221109005790 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 221109005791 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 221109005792 ATP binding site [chemical binding]; other site 221109005793 putative Mg++ binding site [ion binding]; other site 221109005794 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 221109005795 nucleotide binding region [chemical binding]; other site 221109005796 ATP-binding site [chemical binding]; other site 221109005797 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 221109005798 YqzE-like protein; Region: YqzE; pfam14038 221109005799 Type II/IV secretion system protein; Region: T2SE; pfam00437 221109005800 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 221109005801 Walker A motif; other site 221109005802 ATP binding site [chemical binding]; other site 221109005803 Walker B motif; other site 221109005804 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 221109005805 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 221109005806 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 221109005807 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 221109005808 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 221109005809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109005810 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 221109005811 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 221109005812 Sulfatase; Region: Sulfatase; pfam00884 221109005813 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 221109005814 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109005815 nucleotide binding site [chemical binding]; other site 221109005816 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 221109005817 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 221109005818 Rhomboid family; Region: Rhomboid; pfam01694 221109005819 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 221109005820 TPR motif; other site 221109005821 TPR repeat; Region: TPR_11; pfam13414 221109005822 binding surface 221109005823 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 221109005824 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 221109005825 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 221109005826 YceG-like family; Region: YceG; pfam02618 221109005827 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 221109005828 PhoU domain; Region: PhoU; pfam01895 221109005829 PhoU domain; Region: PhoU; pfam01895 221109005830 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 221109005831 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 221109005832 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 221109005833 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 221109005834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109005835 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 221109005836 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 221109005837 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 221109005838 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 221109005839 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 221109005840 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 221109005841 PhoU domain; Region: PhoU; pfam01895 221109005842 PhoU domain; Region: PhoU; pfam01895 221109005843 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 221109005844 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 221109005845 endonuclease IV; Provisional; Region: PRK01060 221109005846 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; cd00019 221109005847 AP (apurinic/apyrimidinic) site pocket; other site 221109005848 DNA interaction; other site 221109005849 Metal-binding active site; metal-binding site 221109005850 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; cl17251 221109005851 DEAD-like helicases superfamily; Region: DEXDc; smart00487 221109005852 ATP binding site [chemical binding]; other site 221109005853 putative Mg++ binding site [ion binding]; other site 221109005854 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 221109005855 nucleotide binding region [chemical binding]; other site 221109005856 ATP-binding site [chemical binding]; other site 221109005857 Uncharacterized conserved protein [Function unknown]; Region: COG0327 221109005858 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 221109005859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 221109005860 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 221109005861 Uncharacterized conserved protein [Function unknown]; Region: COG0327 221109005862 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 221109005863 Family of unknown function (DUF633); Region: DUF633; pfam04816 221109005864 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 221109005865 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 221109005866 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 221109005867 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 221109005868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109005869 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 221109005870 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 221109005871 DNA binding residues [nucleotide binding] 221109005872 DNA primase; Validated; Region: dnaG; PRK05667 221109005873 CHC2 zinc finger; Region: zf-CHC2; pfam01807 221109005874 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 221109005875 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 221109005876 active site 221109005877 metal binding site [ion binding]; metal-binding site 221109005878 interdomain interaction site; other site 221109005879 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 221109005880 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 221109005881 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 221109005882 HTH domain; Region: HTH_11; pfam08279 221109005883 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_4; cd04617 221109005884 FOG: CBS domain [General function prediction only]; Region: COG0517 221109005885 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 221109005886 DALR anticodon binding domain; Region: DALR_1; pfam05746 221109005887 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 221109005888 dimer interface [polypeptide binding]; other site 221109005889 motif 1; other site 221109005890 active site 221109005891 motif 2; other site 221109005892 motif 3; other site 221109005893 Recombination protein O N terminal; Region: RecO_N; pfam11967 221109005894 DNA repair protein RecO; Region: reco; TIGR00613 221109005895 Recombination protein O C terminal; Region: RecO_C; pfam02565 221109005896 GTPase Era; Reviewed; Region: era; PRK00089 221109005897 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 221109005898 G1 box; other site 221109005899 GTP/Mg2+ binding site [chemical binding]; other site 221109005900 Switch I region; other site 221109005901 G2 box; other site 221109005902 Switch II region; other site 221109005903 G3 box; other site 221109005904 G4 box; other site 221109005905 G5 box; other site 221109005906 KH domain; Region: KH_2; pfam07650 221109005907 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 221109005908 metal-binding heat shock protein; Provisional; Region: PRK00016 221109005909 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 221109005910 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 221109005911 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109005912 Zn2+ binding site [ion binding]; other site 221109005913 Mg2+ binding site [ion binding]; other site 221109005914 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 221109005915 PhoH-like protein; Region: PhoH; pfam02562 221109005916 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 221109005917 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 221109005918 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 221109005919 hypothetical protein; Provisional; Region: PRK13665 221109005920 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 221109005921 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 221109005922 dimer interface [polypeptide binding]; other site 221109005923 active site residues [active] 221109005924 Nucleoside transporter; Region: Nucleoside_tran; cl15430 221109005925 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 221109005926 Yqey-like protein; Region: YqeY; pfam09424 221109005927 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 221109005928 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 221109005929 intersubunit interface [polypeptide binding]; other site 221109005930 active site 221109005931 catalytic residue [active] 221109005932 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 221109005933 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 221109005934 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 221109005935 FeS/SAM binding site; other site 221109005936 TRAM domain; Region: TRAM; cl01282 221109005937 RNA methyltransferase, RsmE family; Region: TIGR00046 221109005938 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 221109005939 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 221109005940 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 221109005941 S-adenosylmethionine binding site [chemical binding]; other site 221109005942 chaperone protein DnaJ; Provisional; Region: PRK14280 221109005943 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 221109005944 HSP70 interaction site [polypeptide binding]; other site 221109005945 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 221109005946 substrate binding site [polypeptide binding]; other site 221109005947 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 221109005948 Zn binding sites [ion binding]; other site 221109005949 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 221109005950 dimer interface [polypeptide binding]; other site 221109005951 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 221109005952 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 221109005953 nucleotide binding site [chemical binding]; other site 221109005954 NEF interaction site [polypeptide binding]; other site 221109005955 SBD interface [polypeptide binding]; other site 221109005956 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; cl01709 221109005957 heat shock protein GrpE; Provisional; Region: PRK14140 221109005958 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 221109005959 dimer interface [polypeptide binding]; other site 221109005960 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 221109005961 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 221109005962 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 221109005963 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 221109005964 FeS/SAM binding site; other site 221109005965 HemN C-terminal domain; Region: HemN_C; pfam06969 221109005966 GTP-binding protein LepA; Provisional; Region: PRK05433 221109005967 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 221109005968 G1 box; other site 221109005969 putative GEF interaction site [polypeptide binding]; other site 221109005970 GTP/Mg2+ binding site [chemical binding]; other site 221109005971 Switch I region; other site 221109005972 G2 box; other site 221109005973 G3 box; other site 221109005974 Switch II region; other site 221109005975 G4 box; other site 221109005976 G5 box; other site 221109005977 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 221109005978 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 221109005979 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 221109005980 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 221109005981 stage II sporulation protein P; Region: spore_II_P; TIGR02867 221109005982 germination protease; Provisional; Region: PRK02858 221109005983 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 221109005984 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 221109005985 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 221109005986 YqzM-like protein; Region: YqzM; pfam14141 221109005987 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 221109005988 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 221109005989 Competence protein; Region: Competence; pfam03772 221109005990 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 221109005991 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109005992 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 221109005993 catalytic motif [active] 221109005994 Zn binding site [ion binding]; other site 221109005995 SLBB domain; Region: SLBB; pfam10531 221109005996 comEA protein; Region: comE; TIGR01259 221109005997 Helix-hairpin-helix motif; Region: HHH; pfam00633 221109005998 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 221109005999 S-adenosylmethionine binding site [chemical binding]; other site 221109006000 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 221109006001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109006002 Zn2+ binding site [ion binding]; other site 221109006003 Mg2+ binding site [ion binding]; other site 221109006004 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 221109006005 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 221109006006 active site 221109006007 (T/H)XGH motif; other site 221109006008 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 221109006009 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 221109006010 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 221109006011 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 221109006012 shikimate binding site; other site 221109006013 NAD(P) binding site [chemical binding]; other site 221109006014 GTPase YqeH; Provisional; Region: PRK13796 221109006015 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 221109006016 GTP/Mg2+ binding site [chemical binding]; other site 221109006017 G4 box; other site 221109006018 G5 box; other site 221109006019 G1 box; other site 221109006020 Switch I region; other site 221109006021 G2 box; other site 221109006022 G3 box; other site 221109006023 Switch II region; other site 221109006024 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 221109006025 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 221109006026 active site 221109006027 motif I; other site 221109006028 motif II; other site 221109006029 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 221109006030 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 221109006031 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 221109006032 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 221109006033 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 221109006034 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 221109006035 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 221109006036 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 221109006037 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 221109006038 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 221109006039 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 221109006040 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221109006041 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221109006042 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221109006043 sporulation sigma factor SigK; Reviewed; Region: PRK05803 221109006044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109006045 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 221109006046 DNA binding residues [nucleotide binding] 221109006047 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 221109006048 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 221109006049 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 221109006050 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 221109006051 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 221109006052 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 221109006053 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 221109006054 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 221109006055 Sugar specificity; other site 221109006056 Pyrimidine base specificity; other site 221109006057 ATP-binding site [chemical binding]; other site 221109006058 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 221109006059 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 221109006060 S-adenosylmethionine binding site [chemical binding]; other site 221109006061 YceG-like family; Region: YceG; pfam02618 221109006062 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 221109006063 dimerization interface [polypeptide binding]; other site 221109006064 hypothetical protein; Provisional; Region: PRK13678 221109006065 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 221109006066 hypothetical protein; Provisional; Region: PRK05473 221109006067 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 221109006068 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 221109006069 motif 1; other site 221109006070 active site 221109006071 motif 2; other site 221109006072 motif 3; other site 221109006073 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 221109006074 DHHA1 domain; Region: DHHA1; pfam02272 221109006075 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 221109006076 Domain of unknown function DUF20; Region: UPF0118; pfam01594 221109006077 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 221109006078 AAA domain; Region: AAA_30; pfam13604 221109006079 Family description; Region: UvrD_C_2; pfam13538 221109006080 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 221109006081 binding surface 221109006082 Tetratricopeptide repeat; Region: TPR_16; pfam13432 221109006083 TPR motif; other site 221109006084 TPR repeat; Region: TPR_11; pfam13414 221109006085 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 221109006086 binding surface 221109006087 TPR motif; other site 221109006088 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 221109006089 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 221109006090 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 221109006091 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 221109006092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221109006093 catalytic residue [active] 221109006094 Predicted transcriptional regulator [Transcription]; Region: COG1959 221109006095 Transcriptional regulator; Region: Rrf2; pfam02082 221109006096 recombination factor protein RarA; Reviewed; Region: PRK13342 221109006097 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 221109006098 Walker A motif; other site 221109006099 ATP binding site [chemical binding]; other site 221109006100 Walker B motif; other site 221109006101 arginine finger; other site 221109006102 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 221109006103 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 221109006104 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 221109006105 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 221109006106 dimer interface [polypeptide binding]; other site 221109006107 anticodon binding site; other site 221109006108 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 221109006109 homodimer interface [polypeptide binding]; other site 221109006110 motif 1; other site 221109006111 active site 221109006112 motif 2; other site 221109006113 GAD domain; Region: GAD; pfam02938 221109006114 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 221109006115 active site 221109006116 motif 3; other site 221109006117 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 221109006118 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 221109006119 dimer interface [polypeptide binding]; other site 221109006120 motif 1; other site 221109006121 active site 221109006122 motif 2; other site 221109006123 motif 3; other site 221109006124 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 221109006125 anticodon binding site; other site 221109006126 similar to N-acetylmuramoyl-L-alanine amidase 221109006127 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 221109006128 putative active site [active] 221109006129 dimerization interface [polypeptide binding]; other site 221109006130 putative tRNAtyr binding site [nucleotide binding]; other site 221109006131 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 221109006132 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109006133 Zn2+ binding site [ion binding]; other site 221109006134 Mg2+ binding site [ion binding]; other site 221109006135 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 221109006136 synthetase active site [active] 221109006137 NTP binding site [chemical binding]; other site 221109006138 metal binding site [ion binding]; metal-binding site 221109006139 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 221109006140 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 221109006141 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109006142 active site 221109006143 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 221109006144 DHH family; Region: DHH; pfam01368 221109006145 DHHA1 domain; Region: DHHA1; pfam02272 221109006146 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 221109006147 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 221109006148 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 221109006149 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 221109006150 Protein export membrane protein; Region: SecD_SecF; pfam02355 221109006151 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 221109006152 stage V sporulation protein B; Region: spore_V_B; TIGR02900 221109006153 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 221109006154 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 221109006155 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 221109006156 transmembrane helices; other site 221109006157 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 221109006158 Preprotein translocase subunit; Region: YajC; pfam02699 221109006159 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 221109006160 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 221109006161 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 221109006162 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 221109006163 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 221109006164 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 221109006165 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 221109006166 Walker A motif; other site 221109006167 ATP binding site [chemical binding]; other site 221109006168 Walker B motif; other site 221109006169 arginine finger; other site 221109006170 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 221109006171 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 221109006172 RuvA N terminal domain; Region: RuvA_N; pfam01330 221109006173 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 221109006174 hypothetical protein; Validated; Region: PRK00110 221109006175 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109006176 prephenate dehydratase; Provisional; Region: PRK11898 221109006177 Prephenate dehydratase; Region: PDT; pfam00800 221109006178 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 221109006179 putative L-Phe binding site [chemical binding]; other site 221109006180 GTPase CgtA; Reviewed; Region: obgE; PRK12297 221109006181 GTP1/OBG; Region: GTP1_OBG; pfam01018 221109006182 Obg GTPase; Region: Obg; cd01898 221109006183 G1 box; other site 221109006184 GTP/Mg2+ binding site [chemical binding]; other site 221109006185 Switch I region; other site 221109006186 G2 box; other site 221109006187 G3 box; other site 221109006188 Switch II region; other site 221109006189 G4 box; other site 221109006190 G5 box; other site 221109006191 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 221109006192 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 221109006193 Protein of unknown function (DUF464); Region: DUF464; pfam04327 221109006194 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 221109006195 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 221109006196 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 221109006197 Peptidase family M50; Region: Peptidase_M50; pfam02163 221109006198 active site 221109006199 putative substrate binding region [chemical binding]; other site 221109006200 Peptidase family M23; Region: Peptidase_M23; pfam01551 221109006201 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 221109006202 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 221109006203 Switch I; other site 221109006204 Switch II; other site 221109006205 septum site-determining protein MinC; Region: minC; TIGR01222 221109006206 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 221109006207 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 221109006208 rod shape-determining protein MreC; Provisional; Region: PRK13922 221109006209 rod shape-determining protein MreC; Region: MreC; pfam04085 221109006210 rod shape-determining protein MreB; Provisional; Region: PRK13927 221109006211 MreB and similar proteins; Region: MreB_like; cd10225 221109006212 nucleotide binding site [chemical binding]; other site 221109006213 Mg binding site [ion binding]; other site 221109006214 putative protofilament interaction site [polypeptide binding]; other site 221109006215 RodZ interaction site [polypeptide binding]; other site 221109006216 RadC-like JAB domain; Region: RadC; pfam04002 221109006217 Type II intron maturase; Region: Intron_maturas2; pfam01348 221109006218 hypothetical protein; Reviewed; Region: PRK00024 221109006219 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 221109006220 MPN+ (JAMM) motif; other site 221109006221 Zinc-binding site [ion binding]; other site 221109006222 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 221109006223 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221109006224 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 221109006225 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109006226 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 221109006227 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109006228 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 221109006229 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221109006230 active site 221109006231 HIGH motif; other site 221109006232 nucleotide binding site [chemical binding]; other site 221109006233 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 221109006234 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 221109006235 active site 221109006236 KMSKS motif; other site 221109006237 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 221109006238 tRNA binding surface [nucleotide binding]; other site 221109006239 anticodon binding site; other site 221109006240 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 221109006241 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 221109006242 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 221109006243 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109006244 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 221109006245 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 221109006246 inhibitor-cofactor binding pocket; inhibition site 221109006247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109006248 catalytic residue [active] 221109006249 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; cd00384 221109006250 dimer interface [polypeptide binding]; other site 221109006251 active site 221109006252 Schiff base residues; other site 221109006253 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 221109006254 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 221109006255 active site 221109006256 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 221109006257 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 221109006258 domain interfaces; other site 221109006259 active site 221109006260 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 221109006261 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 221109006262 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 221109006263 tRNA; other site 221109006264 putative tRNA binding site [nucleotide binding]; other site 221109006265 putative NADP binding site [chemical binding]; other site 221109006266 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 221109006267 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 221109006268 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 221109006269 Walker A/P-loop; other site 221109006270 ATP binding site [chemical binding]; other site 221109006271 Q-loop/lid; other site 221109006272 ABC transporter signature motif; other site 221109006273 Walker B; other site 221109006274 D-loop; other site 221109006275 H-loop/switch region; other site 221109006276 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 221109006277 dimer interface [polypeptide binding]; other site 221109006278 conserved gate region; other site 221109006279 ABC-ATPase subunit interface; other site 221109006280 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 221109006281 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 221109006282 substrate binding pocket [chemical binding]; other site 221109006283 membrane-bound complex binding site; other site 221109006284 hinge residues; other site 221109006285 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 221109006286 G1 box; other site 221109006287 GTP/Mg2+ binding site [chemical binding]; other site 221109006288 Switch I region; other site 221109006289 G2 box; other site 221109006290 G3 box; other site 221109006291 Switch II region; other site 221109006292 G4 box; other site 221109006293 G5 box; other site 221109006294 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 221109006295 Found in ATP-dependent protease La (LON); Region: LON; smart00464 221109006296 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 221109006297 Walker A motif; other site 221109006298 ATP binding site [chemical binding]; other site 221109006299 Walker B motif; other site 221109006300 arginine finger; other site 221109006301 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 221109006302 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 221109006303 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 221109006304 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 221109006305 Walker A motif; other site 221109006306 ATP binding site [chemical binding]; other site 221109006307 Walker B motif; other site 221109006308 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 221109006309 trigger factor; Provisional; Region: tig; PRK01490 221109006310 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 221109006311 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 221109006312 Tetratricopeptide repeat; Region: TPR_16; pfam13432 221109006313 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 221109006314 TPR motif; other site 221109006315 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 221109006316 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 221109006317 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 221109006318 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 221109006319 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 221109006320 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 221109006321 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 221109006322 NAD binding site [chemical binding]; other site 221109006323 substrate binding site [chemical binding]; other site 221109006324 homodimer interface [polypeptide binding]; other site 221109006325 active site 221109006326 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109006327 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109006328 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109006329 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 221109006330 active site 221109006331 catalytic triad [active] 221109006332 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 221109006333 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 221109006334 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 221109006335 inhibitor binding site; inhibition site 221109006336 active site 221109006337 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 221109006338 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 221109006339 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109006340 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 221109006341 dimer interface [polypeptide binding]; other site 221109006342 conserved gate region; other site 221109006343 putative PBP binding loops; other site 221109006344 ABC-ATPase subunit interface; other site 221109006345 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 221109006346 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 221109006347 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 221109006348 dimer interface [polypeptide binding]; other site 221109006349 ABC-ATPase subunit interface; other site 221109006350 putative PBP binding loops; other site 221109006351 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 221109006352 Predicted integral membrane protein [Function unknown]; Region: COG5578 221109006353 Y-family of DNA polymerases; Region: PolY; cl12025 221109006354 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221109006355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221109006356 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221109006357 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 221109006358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109006359 NAD(P) binding site [chemical binding]; other site 221109006360 active site 221109006361 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 221109006362 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 221109006363 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 221109006364 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 221109006365 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 221109006366 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 221109006367 ABC-ATPase subunit interface; other site 221109006368 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 221109006369 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 221109006370 Walker A/P-loop; other site 221109006371 ATP binding site [chemical binding]; other site 221109006372 Q-loop/lid; other site 221109006373 ABC transporter signature motif; other site 221109006374 Walker B; other site 221109006375 D-loop; other site 221109006376 H-loop/switch region; other site 221109006377 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 221109006378 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 221109006379 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 221109006380 NodB motif; other site 221109006381 active site 221109006382 catalytic site [active] 221109006383 metal binding site [ion binding]; metal-binding site 221109006384 Cache domain; Region: Cache_1; pfam02743 221109006385 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 221109006386 dimerization interface [polypeptide binding]; other site 221109006387 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109006388 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109006389 dimer interface [polypeptide binding]; other site 221109006390 putative CheW interface [polypeptide binding]; other site 221109006391 Nuclease-related domain; Region: NERD; pfam08378 221109006392 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 221109006393 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 221109006394 active site 221109006395 metal binding site [ion binding]; metal-binding site 221109006396 homotetramer interface [polypeptide binding]; other site 221109006397 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 221109006398 active site 221109006399 dimerization interface [polypeptide binding]; other site 221109006400 ribonuclease PH; Reviewed; Region: rph; PRK00173 221109006401 Ribonuclease PH; Region: RNase_PH_bact; cd11362 221109006402 hexamer interface [polypeptide binding]; other site 221109006403 active site 221109006404 Spore germination protein [General function prediction only]; Region: COG5401 221109006405 Sporulation and spore germination; Region: Germane; pfam10646 221109006406 Sporulation and spore germination; Region: Germane; smart00909 221109006407 glutamate racemase; Provisional; Region: PRK00865 221109006408 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221109006409 MarR family; Region: MarR; pfam01047 221109006410 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109006411 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 221109006412 DNA binding residues [nucleotide binding] 221109006413 dimerization interface [polypeptide binding]; other site 221109006414 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 221109006415 active site 221109006416 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 221109006417 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 221109006418 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 221109006419 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 221109006420 L-aspartate oxidase; Provisional; Region: PRK06175 221109006421 FlaG protein; Region: FlaG; cl00591 221109006422 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 221109006423 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 221109006424 putative Iron-sulfur protein interface [polypeptide binding]; other site 221109006425 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 221109006426 proximal heme binding site [chemical binding]; other site 221109006427 distal heme binding site [chemical binding]; other site 221109006428 putative dimer interface [polypeptide binding]; other site 221109006429 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 221109006430 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 221109006431 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 221109006432 GIY-YIG motif/motif A; other site 221109006433 active site 221109006434 catalytic site [active] 221109006435 putative DNA binding site [nucleotide binding]; other site 221109006436 metal binding site [ion binding]; metal-binding site 221109006437 UvrB/uvrC motif; Region: UVR; pfam02151 221109006438 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 221109006439 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 221109006440 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 221109006441 catalytic residues [active] 221109006442 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 221109006443 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 221109006444 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 221109006445 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 221109006446 Ligand binding site [chemical binding]; other site 221109006447 Electron transfer flavoprotein domain; Region: ETF; pfam01012 221109006448 enoyl-CoA hydratase; Provisional; Region: PRK07658 221109006449 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 221109006450 substrate binding site [chemical binding]; other site 221109006451 oxyanion hole (OAH) forming residues; other site 221109006452 trimer interface [polypeptide binding]; other site 221109006453 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 221109006454 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109006455 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109006456 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 221109006457 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 221109006458 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 221109006459 acyl-activating enzyme (AAE) consensus motif; other site 221109006460 putative AMP binding site [chemical binding]; other site 221109006461 putative active site [active] 221109006462 putative CoA binding site [chemical binding]; other site 221109006463 Predicted membrane protein [Function unknown]; Region: COG3766 221109006464 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 221109006465 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 221109006466 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 221109006467 MutS domain III; Region: MutS_III; pfam05192 221109006468 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 221109006469 Walker A/P-loop; other site 221109006470 ATP binding site [chemical binding]; other site 221109006471 Q-loop/lid; other site 221109006472 ABC transporter signature motif; other site 221109006473 Walker B; other site 221109006474 D-loop; other site 221109006475 H-loop/switch region; other site 221109006476 Smr domain; Region: Smr; pfam01713 221109006477 hypothetical protein; Provisional; Region: PRK08609 221109006478 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 221109006479 active site 221109006480 primer binding site [nucleotide binding]; other site 221109006481 NTP binding site [chemical binding]; other site 221109006482 metal binding triad [ion binding]; metal-binding site 221109006483 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 221109006484 active site 221109006485 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 221109006486 Colicin V production protein; Region: Colicin_V; pfam02674 221109006487 Cell division protein ZapA; Region: ZapA; cl01146 221109006488 ribonuclease HIII; Provisional; Region: PRK00996 221109006489 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 221109006490 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 221109006491 RNA/DNA hybrid binding site [nucleotide binding]; other site 221109006492 active site 221109006493 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 221109006494 ligand binding site [chemical binding]; other site 221109006495 active site 221109006496 UGI interface [polypeptide binding]; other site 221109006497 catalytic site [active] 221109006498 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 221109006499 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 221109006500 putative tRNA-binding site [nucleotide binding]; other site 221109006501 B3/4 domain; Region: B3_4; pfam03483 221109006502 tRNA synthetase B5 domain; Region: B5; smart00874 221109006503 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 221109006504 dimer interface [polypeptide binding]; other site 221109006505 motif 1; other site 221109006506 motif 3; other site 221109006507 motif 2; other site 221109006508 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 221109006509 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 221109006510 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 221109006511 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 221109006512 dimer interface [polypeptide binding]; other site 221109006513 motif 1; other site 221109006514 active site 221109006515 motif 2; other site 221109006516 motif 3; other site 221109006517 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 221109006518 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 221109006519 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 221109006520 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 221109006521 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 221109006522 ABC-2 type transporter; Region: ABC2_membrane; cl17235 221109006523 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 221109006524 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109006525 Walker A/P-loop; other site 221109006526 ATP binding site [chemical binding]; other site 221109006527 Q-loop/lid; other site 221109006528 ABC transporter signature motif; other site 221109006529 Walker B; other site 221109006530 D-loop; other site 221109006531 H-loop/switch region; other site 221109006532 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 221109006533 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 221109006534 N-acetyl-D-glucosamine binding site [chemical binding]; other site 221109006535 catalytic residue [active] 221109006536 YvrJ protein family; Region: YvrJ; pfam12841 221109006537 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 221109006538 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 221109006539 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 221109006540 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109006541 Zn binding site [ion binding]; other site 221109006542 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 221109006543 Zn binding site [ion binding]; other site 221109006544 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 221109006545 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 221109006546 oligomer interface [polypeptide binding]; other site 221109006547 active site 221109006548 metal binding site [ion binding]; metal-binding site 221109006549 dUTPase; Region: dUTPase_2; pfam08761 221109006550 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 221109006551 active site 221109006552 homodimer interface [polypeptide binding]; other site 221109006553 metal binding site [ion binding]; metal-binding site 221109006554 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 221109006555 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 221109006556 active site 221109006557 NTP binding site [chemical binding]; other site 221109006558 metal binding triad [ion binding]; metal-binding site 221109006559 antibiotic binding site [chemical binding]; other site 221109006560 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 221109006561 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 221109006562 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 221109006563 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 221109006564 23S rRNA binding site [nucleotide binding]; other site 221109006565 L21 binding site [polypeptide binding]; other site 221109006566 L13 binding site [polypeptide binding]; other site 221109006567 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 221109006568 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 221109006569 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 221109006570 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 221109006571 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 221109006572 Cna protein B-type domain; Region: Cna_B; pfam05738 221109006573 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 221109006574 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 221109006575 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 221109006576 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 221109006577 active site 221109006578 dimer interface [polypeptide binding]; other site 221109006579 motif 1; other site 221109006580 motif 2; other site 221109006581 motif 3; other site 221109006582 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 221109006583 anticodon binding site; other site 221109006584 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 221109006585 primosomal protein DnaI; Reviewed; Region: PRK08939 221109006586 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 221109006587 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 221109006588 Walker A motif; other site 221109006589 ATP binding site [chemical binding]; other site 221109006590 Walker B motif; other site 221109006591 arginine finger; other site 221109006592 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 221109006593 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 221109006594 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 221109006595 ATP cone domain; Region: ATP-cone; pfam03477 221109006596 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 221109006597 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 221109006598 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 221109006599 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 221109006600 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 221109006601 CoA-binding site [chemical binding]; other site 221109006602 ATP-binding [chemical binding]; other site 221109006603 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 221109006604 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 221109006605 DNA binding site [nucleotide binding] 221109006606 catalytic residue [active] 221109006607 H2TH interface [polypeptide binding]; other site 221109006608 putative catalytic residues [active] 221109006609 turnover-facilitating residue; other site 221109006610 intercalation triad [nucleotide binding]; other site 221109006611 8OG recognition residue [nucleotide binding]; other site 221109006612 putative reading head residues; other site 221109006613 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 221109006614 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 221109006615 DNA polymerase I; Provisional; Region: PRK05755 221109006616 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 221109006617 active site 221109006618 metal binding site 1 [ion binding]; metal-binding site 221109006619 putative 5' ssDNA interaction site; other site 221109006620 metal binding site 3; metal-binding site 221109006621 metal binding site 2 [ion binding]; metal-binding site 221109006622 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 221109006623 putative DNA binding site [nucleotide binding]; other site 221109006624 putative metal binding site [ion binding]; other site 221109006625 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 221109006626 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 221109006627 active site 221109006628 DNA binding site [nucleotide binding] 221109006629 catalytic site [active] 221109006630 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 221109006631 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 221109006632 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 221109006633 putative active site [active] 221109006634 heme pocket [chemical binding]; other site 221109006635 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 221109006636 dimer interface [polypeptide binding]; other site 221109006637 phosphorylation site [posttranslational modification] 221109006638 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 221109006639 ATP binding site [chemical binding]; other site 221109006640 Mg2+ binding site [ion binding]; other site 221109006641 G-X-G motif; other site 221109006642 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109006643 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 221109006644 active site 221109006645 phosphorylation site [posttranslational modification] 221109006646 intermolecular recognition site; other site 221109006647 dimerization interface [polypeptide binding]; other site 221109006648 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 221109006649 DNA binding site [nucleotide binding] 221109006650 malate dehydrogenase; Reviewed; Region: PRK06223 221109006651 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 221109006652 NAD(P) binding site [chemical binding]; other site 221109006653 dimer interface [polypeptide binding]; other site 221109006654 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109006655 substrate binding site [chemical binding]; other site 221109006656 isocitrate dehydrogenase; Reviewed; Region: PRK07006 221109006657 isocitrate dehydrogenase; Validated; Region: PRK07362 221109006658 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 221109006659 dimer interface [polypeptide binding]; other site 221109006660 Citrate synthase; Region: Citrate_synt; pfam00285 221109006661 active site 221109006662 citrylCoA binding site [chemical binding]; other site 221109006663 oxalacetate/citrate binding site [chemical binding]; other site 221109006664 coenzyme A binding site [chemical binding]; other site 221109006665 catalytic triad [active] 221109006666 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 221109006667 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 221109006668 pyruvate kinase; Provisional; Region: PRK06354 221109006669 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 221109006670 domain interfaces; other site 221109006671 active site 221109006672 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 221109006673 6-phosphofructokinase; Provisional; Region: PRK03202 221109006674 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 221109006675 active site 221109006676 ADP/pyrophosphate binding site [chemical binding]; other site 221109006677 dimerization interface [polypeptide binding]; other site 221109006678 allosteric effector site; other site 221109006679 fructose-1,6-bisphosphate binding site; other site 221109006680 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 221109006681 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 221109006682 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 221109006683 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 221109006684 Transcriptional regulators [Transcription]; Region: FadR; COG2186 221109006685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109006686 DNA-binding site [nucleotide binding]; DNA binding site 221109006687 FCD domain; Region: FCD; pfam07729 221109006688 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 221109006689 Malic enzyme, N-terminal domain; Region: malic; pfam00390 221109006690 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 221109006691 putative NAD(P) binding site [chemical binding]; other site 221109006692 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 221109006693 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 221109006694 active site 221109006695 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 221109006696 generic binding surface I; other site 221109006697 generic binding surface II; other site 221109006698 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 221109006699 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 221109006700 DHH family; Region: DHH; pfam01368 221109006701 DHHA1 domain; Region: DHHA1; pfam02272 221109006702 YtpI-like protein; Region: YtpI; pfam14007 221109006703 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 221109006704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109006705 DNA-binding site [nucleotide binding]; DNA binding site 221109006706 DRTGG domain; Region: DRTGG; pfam07085 221109006707 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 221109006708 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; cd03440 221109006709 active site 2 [active] 221109006710 active site 1 [active] 221109006711 metal-dependent hydrolase; Provisional; Region: PRK00685 221109006712 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 221109006713 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 221109006714 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 221109006715 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 221109006716 active site 221109006717 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 221109006718 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 221109006719 hexamer interface [polypeptide binding]; other site 221109006720 ligand binding site [chemical binding]; other site 221109006721 putative active site [active] 221109006722 NAD(P) binding site [chemical binding]; other site 221109006723 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 221109006724 Ligand Binding Site [chemical binding]; other site 221109006725 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 221109006726 propionate/acetate kinase; Provisional; Region: PRK12379 221109006727 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 221109006728 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 221109006729 S-adenosylmethionine binding site [chemical binding]; other site 221109006730 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 221109006731 dimer interface [polypeptide binding]; other site 221109006732 catalytic triad [active] 221109006733 peroxidatic and resolving cysteines [active] 221109006734 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 221109006735 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 221109006736 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 221109006737 ATP-NAD kinase; Region: NAD_kinase; pfam01513 221109006738 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 221109006739 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 221109006740 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 221109006741 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 221109006742 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 221109006743 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 221109006744 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221109006745 catalytic residue [active] 221109006746 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 221109006747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109006748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109006749 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 221109006750 GAF domain; Region: GAF_2; pfam13185 221109006751 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 221109006752 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 221109006753 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 221109006754 active site 221109006755 GAF domain; Region: GAF_3; pfam13492 221109006756 GAF domain; Region: GAF_2; pfam13185 221109006757 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 221109006758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 221109006759 metal binding site [ion binding]; metal-binding site 221109006760 active site 221109006761 I-site; other site 221109006762 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 221109006763 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 221109006764 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 221109006765 RNA binding surface [nucleotide binding]; other site 221109006766 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 221109006767 active site 221109006768 catalytic residues [active] 221109006769 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 221109006770 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 221109006771 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 221109006772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109006773 NAD(P) binding site [chemical binding]; other site 221109006774 active site 221109006775 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 221109006776 Transcriptional regulator [Transcription]; Region: IclR; COG1414 221109006777 Bacterial transcriptional regulator; Region: IclR; pfam01614 221109006778 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221109006779 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 221109006780 substrate binding site [chemical binding]; other site 221109006781 ATP binding site [chemical binding]; other site 221109006782 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 221109006783 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 221109006784 active site 221109006785 intersubunit interface [polypeptide binding]; other site 221109006786 catalytic residue [active] 221109006787 galactonate dehydratase; Provisional; Region: PRK14017 221109006788 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 221109006789 putative active site pocket [active] 221109006790 putative metal binding site [ion binding]; other site 221109006791 similar to galactonate dehydratase 221109006792 fructuronate transporter; Provisional; Region: PRK10034; cl15264 221109006793 GntP family permease; Region: GntP_permease; pfam02447 221109006794 AMP-binding domain protein; Validated; Region: PRK08315 221109006795 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 221109006796 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 221109006797 acyl-activating enzyme (AAE) consensus motif; other site 221109006798 acyl-activating enzyme (AAE) consensus motif; other site 221109006799 putative AMP binding site [chemical binding]; other site 221109006800 putative active site [active] 221109006801 putative CoA binding site [chemical binding]; other site 221109006802 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 221109006803 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 221109006804 active site 221109006805 HIGH motif; other site 221109006806 dimer interface [polypeptide binding]; other site 221109006807 KMSKS motif; other site 221109006808 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 221109006809 RNA binding surface [nucleotide binding]; other site 221109006810 Transglycosylase; Region: Transgly; pfam00912 221109006811 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 221109006812 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 221109006813 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221109006814 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 221109006815 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 221109006816 FOG: CBS domain [General function prediction only]; Region: COG0517 221109006817 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 221109006818 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 221109006819 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 221109006820 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 221109006821 active site 221109006822 Zn binding site [ion binding]; other site 221109006823 flagellar motor protein MotS; Reviewed; Region: PRK06925 221109006824 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 221109006825 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 221109006826 ligand binding site [chemical binding]; other site 221109006827 flagellar motor protein MotP; Reviewed; Region: PRK06926 221109006828 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 221109006829 catabolite control protein A; Region: ccpA; TIGR01481 221109006830 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109006831 DNA binding site [nucleotide binding] 221109006832 domain linker motif; other site 221109006833 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 221109006834 dimerization interface [polypeptide binding]; other site 221109006835 effector binding site; other site 221109006836 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 221109006837 Chorismate mutase type II; Region: CM_2; cl00693 221109006838 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 221109006839 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 221109006840 Cell division protein FtsA; Region: FtsA; smart00842 221109006841 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 221109006842 nucleotide binding site [chemical binding]; other site 221109006843 YtxH-like protein; Region: YtxH; pfam12732 221109006844 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 221109006845 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 221109006846 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221109006847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221109006848 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221109006849 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 221109006850 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 221109006851 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 221109006852 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 221109006853 putative tRNA-binding site [nucleotide binding]; other site 221109006854 hypothetical protein; Provisional; Region: PRK13668 221109006855 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 221109006856 catalytic residues [active] 221109006857 YtoQ family protein; Region: YtoQ_fam; TIGR03646 221109006858 NTPase; Reviewed; Region: PRK03114 221109006859 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 221109006860 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 221109006861 oligomer interface [polypeptide binding]; other site 221109006862 active site 221109006863 metal binding site [ion binding]; metal-binding site 221109006864 Predicted small secreted protein [Function unknown]; Region: COG5584 221109006865 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109006866 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 221109006867 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 221109006868 Na binding site [ion binding]; other site 221109006869 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 221109006870 similar to recombinase for Bh.Int 221109006871 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 221109006872 succinic semialdehyde dehydrogenase; Region: PLN02278 221109006873 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 221109006874 tetramerization interface [polypeptide binding]; other site 221109006875 NAD(P) binding site [chemical binding]; other site 221109006876 catalytic residues [active] 221109006877 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 221109006878 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 221109006879 dimer interface [polypeptide binding]; other site 221109006880 active site 221109006881 hypothetical protein; Validated; Region: PRK07708 221109006882 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 221109006883 RNA/DNA hybrid binding site [nucleotide binding]; other site 221109006884 active site 221109006885 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 221109006886 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 221109006887 Walker A/P-loop; other site 221109006888 ATP binding site [chemical binding]; other site 221109006889 Q-loop/lid; other site 221109006890 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 221109006891 ABC transporter signature motif; other site 221109006892 Walker B; other site 221109006893 D-loop; other site 221109006894 H-loop/switch region; other site 221109006895 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 221109006896 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 221109006897 active site 221109006898 metal binding site [ion binding]; metal-binding site 221109006899 DNA binding site [nucleotide binding] 221109006900 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 221109006901 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 221109006902 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 221109006903 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 221109006904 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 221109006905 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 221109006906 D-pathway; other site 221109006907 Putative ubiquinol binding site [chemical binding]; other site 221109006908 Low-spin heme (heme b) binding site [chemical binding]; other site 221109006909 Putative water exit pathway; other site 221109006910 Binuclear center (heme o3/CuB) [ion binding]; other site 221109006911 K-pathway; other site 221109006912 Putative proton exit pathway; other site 221109006913 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 221109006914 Subunit I/III interface [polypeptide binding]; other site 221109006915 Subunit III/IV interface [polypeptide binding]; other site 221109006916 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 221109006917 Flagellin N-methylase; Region: FliB; cl00497 221109006918 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 221109006919 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 221109006920 dimer interface [polypeptide binding]; other site 221109006921 conserved gate region; other site 221109006922 putative PBP binding loops; other site 221109006923 ABC-ATPase subunit interface; other site 221109006924 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 221109006925 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 221109006926 dimer interface [polypeptide binding]; other site 221109006927 conserved gate region; other site 221109006928 putative PBP binding loops; other site 221109006929 ABC-ATPase subunit interface; other site 221109006930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221109006931 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 221109006932 peptide binding site [polypeptide binding]; other site 221109006933 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 221109006934 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109006935 Walker A/P-loop; other site 221109006936 ATP binding site [chemical binding]; other site 221109006937 Q-loop/lid; other site 221109006938 ABC transporter signature motif; other site 221109006939 Walker B; other site 221109006940 D-loop; other site 221109006941 H-loop/switch region; other site 221109006942 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109006943 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 221109006944 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109006945 Walker A/P-loop; other site 221109006946 ATP binding site [chemical binding]; other site 221109006947 Q-loop/lid; other site 221109006948 ABC transporter signature motif; other site 221109006949 Walker B; other site 221109006950 D-loop; other site 221109006951 H-loop/switch region; other site 221109006952 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 221109006953 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 221109006954 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 221109006955 YolD-like protein; Region: YolD; pfam08863 221109006956 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 221109006957 tetramer interface [polypeptide binding]; other site 221109006958 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 221109006959 active site 221109006960 Mg2+/Mn2+ binding site [ion binding]; other site 221109006961 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 221109006962 2-methylcitrate dehydratase; Region: prpD; TIGR02330 221109006963 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1; cd06118 221109006964 dimer interface [polypeptide binding]; other site 221109006965 Citrate synthase; Region: Citrate_synt; pfam00285 221109006966 active site 221109006967 coenzyme A binding site [chemical binding]; other site 221109006968 citrylCoA binding site [chemical binding]; other site 221109006969 oxalacetate/citrate binding site [chemical binding]; other site 221109006970 catalytic triad [active] 221109006971 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221109006972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 221109006973 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 221109006974 dimerization interface [polypeptide binding]; other site 221109006975 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 221109006976 putative active site [active] 221109006977 YdjC motif; other site 221109006978 Mg binding site [ion binding]; other site 221109006979 putative homodimer interface [polypeptide binding]; other site 221109006980 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 221109006981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109006982 DNA-binding site [nucleotide binding]; DNA binding site 221109006983 UTRA domain; Region: UTRA; pfam07702 221109006984 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 221109006985 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 221109006986 NAD binding site [chemical binding]; other site 221109006987 sugar binding site [chemical binding]; other site 221109006988 divalent metal binding site [ion binding]; other site 221109006989 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109006990 dimer interface [polypeptide binding]; other site 221109006991 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 221109006992 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 221109006993 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 221109006994 methionine cluster; other site 221109006995 active site 221109006996 phosphorylation site [posttranslational modification] 221109006997 metal binding site [ion binding]; metal-binding site 221109006998 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 221109006999 active site 221109007000 P-loop; other site 221109007001 phosphorylation site [posttranslational modification] 221109007002 DinB superfamily; Region: DinB_2; pfam12867 221109007003 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 221109007004 Carbon starvation protein CstA; Region: CstA; pfam02554 221109007005 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 221109007006 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 221109007007 Carbon starvation protein CstA; Region: CstA; pfam02554 221109007008 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 221109007009 thiamine pyrophosphate protein; Validated; Region: PRK08199 221109007010 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 221109007011 PYR/PP interface [polypeptide binding]; other site 221109007012 dimer interface [polypeptide binding]; other site 221109007013 TPP binding site [chemical binding]; other site 221109007014 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 221109007015 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 221109007016 TPP-binding site [chemical binding]; other site 221109007017 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 221109007018 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 221109007019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109007020 homodimer interface [polypeptide binding]; other site 221109007021 catalytic residue [active] 221109007022 Domain of unknown function (DUF378); Region: DUF378; pfam04070 221109007023 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 221109007024 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 221109007025 FeS/SAM binding site; other site 221109007026 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 221109007027 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 221109007028 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 221109007029 NAD binding site [chemical binding]; other site 221109007030 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 221109007031 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 221109007032 inhibitor-cofactor binding pocket; inhibition site 221109007033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109007034 catalytic residue [active] 221109007035 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 221109007036 putative ADP-ribose binding site [chemical binding]; other site 221109007037 putative active site [active] 221109007038 SWIM zinc finger; Region: SWIM; pfam04434 221109007039 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 221109007040 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 221109007041 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 221109007042 ATP binding site [chemical binding]; other site 221109007043 putative Mg++ binding site [ion binding]; other site 221109007044 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 221109007045 nucleotide binding region [chemical binding]; other site 221109007046 ATP-binding site [chemical binding]; other site 221109007047 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 221109007048 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 221109007049 G1 box; other site 221109007050 putative GEF interaction site [polypeptide binding]; other site 221109007051 GTP/Mg2+ binding site [chemical binding]; other site 221109007052 Switch I region; other site 221109007053 G2 box; other site 221109007054 G3 box; other site 221109007055 Switch II region; other site 221109007056 G4 box; other site 221109007057 G5 box; other site 221109007058 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 221109007059 YjzC-like protein; Region: YjzC; pfam14168 221109007060 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 221109007061 Part of AAA domain; Region: AAA_19; pfam13245 221109007062 Family description; Region: UvrD_C_2; pfam13538 221109007063 uracil transporter; Provisional; Region: PRK10720 221109007064 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 221109007065 S-adenosylmethionine binding site [chemical binding]; other site 221109007066 YtzH-like protein; Region: YtzH; pfam14165 221109007067 Phosphotransferase enzyme family; Region: APH; pfam01636 221109007068 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 221109007069 active site 221109007070 substrate binding site [chemical binding]; other site 221109007071 ATP binding site [chemical binding]; other site 221109007072 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 221109007073 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 221109007074 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 221109007075 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 221109007076 RNA binding surface [nucleotide binding]; other site 221109007077 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 221109007078 active site 221109007079 uracil binding [chemical binding]; other site 221109007080 stage V sporulation protein B; Region: spore_V_B; TIGR02900 221109007081 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 221109007082 HI0933-like protein; Region: HI0933_like; pfam03486 221109007083 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109007084 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 221109007085 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 221109007086 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 221109007087 active site residue [active] 221109007088 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 221109007089 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 221109007090 HIGH motif; other site 221109007091 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 221109007092 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 221109007093 active site 221109007094 KMSKS motif; other site 221109007095 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 221109007096 tRNA binding surface [nucleotide binding]; other site 221109007097 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 221109007098 Methyltransferase domain; Region: Methyltransf_31; pfam13847 221109007099 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 221109007100 S-adenosylmethionine binding site [chemical binding]; other site 221109007101 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 221109007102 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 221109007103 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 221109007104 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 221109007105 trimer interface [polypeptide binding]; other site 221109007106 putative metal binding site [ion binding]; other site 221109007107 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 221109007108 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109007109 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 221109007110 DNA binding residues [nucleotide binding] 221109007111 S-adenosylmethionine synthetase; Validated; Region: PRK05250 221109007112 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 221109007113 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 221109007114 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 221109007115 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 221109007116 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 221109007117 active site 221109007118 substrate-binding site [chemical binding]; other site 221109007119 metal-binding site [ion binding] 221109007120 ATP binding site [chemical binding]; other site 221109007121 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 221109007122 NMT1-like family; Region: NMT1_2; pfam13379 221109007123 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 221109007124 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 221109007125 Walker A/P-loop; other site 221109007126 ATP binding site [chemical binding]; other site 221109007127 Q-loop/lid; other site 221109007128 ABC transporter signature motif; other site 221109007129 Walker B; other site 221109007130 D-loop; other site 221109007131 H-loop/switch region; other site 221109007132 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 221109007133 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 221109007134 dimer interface [polypeptide binding]; other site 221109007135 conserved gate region; other site 221109007136 putative PBP binding loops; other site 221109007137 ABC-ATPase subunit interface; other site 221109007138 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 221109007139 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_8; cd04665 221109007140 nudix motif; other site 221109007141 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 221109007142 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 221109007143 acyl-activating enzyme (AAE) consensus motif; other site 221109007144 putative AMP binding site [chemical binding]; other site 221109007145 putative active site [active] 221109007146 putative CoA binding site [chemical binding]; other site 221109007147 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 221109007148 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 221109007149 substrate binding site [chemical binding]; other site 221109007150 oxyanion hole (OAH) forming residues; other site 221109007151 trimer interface [polypeptide binding]; other site 221109007152 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 221109007153 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 221109007154 catalytic site [active] 221109007155 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 221109007156 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 221109007157 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 221109007158 dimer interface [polypeptide binding]; other site 221109007159 tetramer interface [polypeptide binding]; other site 221109007160 PYR/PP interface [polypeptide binding]; other site 221109007161 TPP binding site [chemical binding]; other site 221109007162 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 221109007163 TPP-binding site; other site 221109007164 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 221109007165 chorismate binding enzyme; Region: Chorismate_bind; cl10555 221109007166 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 221109007167 UbiA prenyltransferase family; Region: UbiA; pfam01040 221109007168 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 221109007169 Predicted membrane protein [Function unknown]; Region: COG3601 221109007170 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 221109007171 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 221109007172 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 221109007173 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 221109007174 active site 221109007175 catalytic residues [active] 221109007176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 221109007177 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 221109007178 Cna protein B-type domain; Region: Cna_B_2; pfam13715 221109007179 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 221109007180 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 221109007181 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 221109007182 oligomer interface [polypeptide binding]; other site 221109007183 active site 221109007184 metal binding site [ion binding]; metal-binding site 221109007185 Ion channel; Region: Ion_trans_2; pfam07885 221109007186 TrkA-N domain; Region: TrkA_N; pfam02254 221109007187 general stress protein 13; Validated; Region: PRK08059 221109007188 S1_RPS1_repeat_hs4: 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_hs4; cd05692 221109007189 RNA binding site [nucleotide binding]; other site 221109007190 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 221109007191 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 221109007192 active site 221109007193 dimer interface [polypeptide binding]; other site 221109007194 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 221109007195 dimer interface [polypeptide binding]; other site 221109007196 active site 221109007197 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 221109007198 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109007199 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 221109007200 DNA binding residues [nucleotide binding] 221109007201 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 221109007202 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 221109007203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109007204 homodimer interface [polypeptide binding]; other site 221109007205 catalytic residue [active] 221109007206 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 221109007207 E-class dimer interface [polypeptide binding]; other site 221109007208 P-class dimer interface [polypeptide binding]; other site 221109007209 active site 221109007210 Cu2+ binding site [ion binding]; other site 221109007211 Zn2+ binding site [ion binding]; other site 221109007212 Kinase associated protein B; Region: KapB; pfam08810 221109007213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109007214 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109007215 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 221109007216 dimerization domain swap beta strand [polypeptide binding]; other site 221109007217 regulatory protein interface [polypeptide binding]; other site 221109007218 active site 221109007219 regulatory phosphorylation site [posttranslational modification]; other site 221109007220 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 221109007221 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 221109007222 BioY family; Region: BioY; pfam02632 221109007223 Divergent PAP2 family; Region: DUF212; pfam02681 221109007224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 221109007225 Putative membrane protein; Region: YuiB; pfam14068 221109007226 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 221109007227 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109007228 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 221109007229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109007230 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109007231 similar to chitooligosaccharide deacetylase 221109007232 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 221109007233 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 221109007234 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 221109007235 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 221109007236 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 221109007237 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 221109007238 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 221109007239 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 221109007240 dimerization interface [polypeptide binding]; other site 221109007241 ligand binding site [chemical binding]; other site 221109007242 NADP binding site [chemical binding]; other site 221109007243 catalytic site [active] 221109007244 spore coat protein YutH; Region: spore_yutH; TIGR02905 221109007245 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 221109007246 tetramer interfaces [polypeptide binding]; other site 221109007247 binuclear metal-binding site [ion binding]; other site 221109007248 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 221109007249 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 221109007250 active site 221109007251 motif I; other site 221109007252 motif II; other site 221109007253 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 221109007254 Predicted transcriptional regulator [Transcription]; Region: COG2345 221109007255 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 221109007256 Uncharacterized conserved protein [Function unknown]; Region: COG2445 221109007257 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 221109007258 Amidase; Region: Amidase; cl11426 221109007259 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 221109007260 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 221109007261 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 221109007262 Peptidase family M23; Region: Peptidase_M23; pfam01551 221109007263 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 221109007264 Na2 binding site [ion binding]; other site 221109007265 putative substrate binding site 1 [chemical binding]; other site 221109007266 Na binding site 1 [ion binding]; other site 221109007267 putative substrate binding site 2 [chemical binding]; other site 221109007268 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 221109007269 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 221109007270 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 221109007271 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109007272 Zn2+ binding site [ion binding]; other site 221109007273 Mg2+ binding site [ion binding]; other site 221109007274 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 221109007275 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 221109007276 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 221109007277 active site 221109007278 metal binding site [ion binding]; metal-binding site 221109007279 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 221109007280 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 221109007281 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 221109007282 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 221109007283 active site 221109007284 catalytic triad [active] 221109007285 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 221109007286 FeS assembly protein SufB; Region: sufB; TIGR01980 221109007287 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 221109007288 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 221109007289 trimerization site [polypeptide binding]; other site 221109007290 active site 221109007291 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 221109007292 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 221109007293 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221109007294 catalytic residue [active] 221109007295 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 221109007296 FeS assembly protein SufD; Region: sufD; TIGR01981 221109007297 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 221109007298 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 221109007299 Walker A/P-loop; other site 221109007300 ATP binding site [chemical binding]; other site 221109007301 Q-loop/lid; other site 221109007302 ABC transporter signature motif; other site 221109007303 Walker B; other site 221109007304 D-loop; other site 221109007305 H-loop/switch region; other site 221109007306 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 221109007307 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 221109007308 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 221109007309 ABC-ATPase subunit interface; other site 221109007310 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 221109007311 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 221109007312 Walker A/P-loop; other site 221109007313 ATP binding site [chemical binding]; other site 221109007314 Q-loop/lid; other site 221109007315 ABC transporter signature motif; other site 221109007316 Walker B; other site 221109007317 D-loop; other site 221109007318 H-loop/switch region; other site 221109007319 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 221109007320 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 221109007321 catalytic residues [active] 221109007322 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 221109007323 active site 221109007324 metal binding site [ion binding]; metal-binding site 221109007325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109007326 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109007327 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 221109007328 lipoyl attachment site [posttranslational modification]; other site 221109007329 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 221109007330 ArsC family; Region: ArsC; pfam03960 221109007331 putative ArsC-like catalytic residues; other site 221109007332 putative TRX-like catalytic residues [active] 221109007333 DinB family; Region: DinB; cl17821 221109007334 DinB superfamily; Region: DinB_2; pfam12867 221109007335 Ion transport protein; Region: Ion_trans; pfam00520 221109007336 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 221109007337 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109007338 active site 221109007339 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 221109007340 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 221109007341 dimer interface [polypeptide binding]; other site 221109007342 active site 221109007343 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 221109007344 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 221109007345 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 221109007346 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 221109007347 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 221109007348 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 221109007349 substrate binding site [chemical binding]; other site 221109007350 oxyanion hole (OAH) forming residues; other site 221109007351 trimer interface [polypeptide binding]; other site 221109007352 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 221109007353 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 221109007354 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 221109007355 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 221109007356 ABC-ATPase subunit interface; other site 221109007357 dimer interface [polypeptide binding]; other site 221109007358 putative PBP binding regions; other site 221109007359 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 221109007360 metal binding site 2 [ion binding]; metal-binding site 221109007361 putative DNA binding helix; other site 221109007362 metal binding site 1 [ion binding]; metal-binding site 221109007363 dimer interface [polypeptide binding]; other site 221109007364 structural Zn2+ binding site [ion binding]; other site 221109007365 Bacterial SH3 domain; Region: SH3_3; pfam08239 221109007366 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 221109007367 Domain of unknown function DUF21; Region: DUF21; pfam01595 221109007368 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 221109007369 Transporter associated domain; Region: CorC_HlyC; smart01091 221109007370 BCCT family transporter; Region: BCCT; pfam02028 221109007371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 221109007372 Modifier of rudimentary (Mod(r)) protein; Region: Mod_r; pfam07200 221109007373 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 221109007374 NlpC/P60 family; Region: NLPC_P60; pfam00877 221109007375 isocitrate lyase; Provisional; Region: PRK15063 221109007376 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 221109007377 tetramer interface [polypeptide binding]; other site 221109007378 active site 221109007379 Mg2+/Mn2+ binding site [ion binding]; other site 221109007380 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 221109007381 malate synthase A; Region: malate_syn_A; TIGR01344 221109007382 active site 221109007383 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 221109007384 Predicted membrane protein [Function unknown]; Region: COG4129 221109007385 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 221109007386 Predicted membrane protein [Function unknown]; Region: COG1238 221109007387 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 221109007388 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 221109007389 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 221109007390 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 221109007391 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 221109007392 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 221109007393 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 221109007394 putative oligomer interface [polypeptide binding]; other site 221109007395 putative active site [active] 221109007396 metal binding site [ion binding]; metal-binding site 221109007397 CopC domain; Region: CopC; pfam04234 221109007398 Copper resistance protein D; Region: CopD; cl00563 221109007399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 221109007400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 221109007401 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 221109007402 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 221109007403 inhibitor-cofactor binding pocket; inhibition site 221109007404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109007405 catalytic residue [active] 221109007406 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 221109007407 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 221109007408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109007409 Coenzyme A binding pocket [chemical binding]; other site 221109007410 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 221109007411 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 221109007412 Ligand binding site; other site 221109007413 Putative Catalytic site; other site 221109007414 DXD motif; other site 221109007415 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 221109007416 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 221109007417 NAD binding site [chemical binding]; other site 221109007418 substrate binding site [chemical binding]; other site 221109007419 homodimer interface [polypeptide binding]; other site 221109007420 active site 221109007421 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 221109007422 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 221109007423 substrate binding site; other site 221109007424 tetramer interface; other site 221109007425 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 221109007426 Low molecular weight phosphatase family; Region: LMWPc; cd00115 221109007427 active site 221109007428 arsenical pump membrane protein; Provisional; Region: PRK15445 221109007429 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 221109007430 transmembrane helices; other site 221109007431 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 221109007432 dimerization interface [polypeptide binding]; other site 221109007433 putative DNA binding site [nucleotide binding]; other site 221109007434 putative Zn2+ binding site [ion binding]; other site 221109007435 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 221109007436 SmpB-tmRNA interface; other site 221109007437 zinc transporter ZupT; Provisional; Region: PRK04201 221109007438 ZIP Zinc transporter; Region: Zip; pfam02535 221109007439 ribonuclease R; Region: RNase_R; TIGR02063 221109007440 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 221109007441 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 221109007442 RNB domain; Region: RNB; pfam00773 221109007443 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 221109007444 RNA binding site [nucleotide binding]; other site 221109007445 Esterase/lipase [General function prediction only]; Region: COG1647 221109007446 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 221109007447 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 221109007448 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 221109007449 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 221109007450 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 221109007451 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 221109007452 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 221109007453 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 221109007454 active site 221109007455 enolase; Provisional; Region: eno; PRK00077 221109007456 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 221109007457 dimer interface [polypeptide binding]; other site 221109007458 metal binding site [ion binding]; metal-binding site 221109007459 substrate binding pocket [chemical binding]; other site 221109007460 phosphoglyceromutase; Provisional; Region: PRK05434 221109007461 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 221109007462 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 221109007463 triosephosphate isomerase; Provisional; Region: PRK14565 221109007464 substrate binding site [chemical binding]; other site 221109007465 dimer interface [polypeptide binding]; other site 221109007466 catalytic triad [active] 221109007467 Phosphoglycerate kinase; Region: PGK; pfam00162 221109007468 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 221109007469 substrate binding site [chemical binding]; other site 221109007470 hinge regions; other site 221109007471 ADP binding site [chemical binding]; other site 221109007472 catalytic site [active] 221109007473 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 221109007474 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 221109007475 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 221109007476 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 221109007477 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 221109007478 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 221109007479 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 221109007480 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 221109007481 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 221109007482 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 221109007483 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 221109007484 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 221109007485 Na binding site [ion binding]; other site 221109007486 Protein of unknown function, DUF485; Region: DUF485; pfam04341 221109007487 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 221109007488 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 221109007489 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 221109007490 DctM-like transporters; Region: DctM; pfam06808 221109007491 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 221109007492 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 221109007493 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 221109007494 substrate binding pocket [chemical binding]; other site 221109007495 membrane-bound complex binding site; other site 221109007496 YtkA-like; Region: YtkA; pfam13115 221109007497 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 221109007498 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 221109007499 dimer interface [polypeptide binding]; other site 221109007500 conserved gate region; other site 221109007501 putative PBP binding loops; other site 221109007502 ABC-ATPase subunit interface; other site 221109007503 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 221109007504 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 221109007505 dimer interface [polypeptide binding]; other site 221109007506 conserved gate region; other site 221109007507 putative PBP binding loops; other site 221109007508 ABC-ATPase subunit interface; other site 221109007509 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221109007510 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 221109007511 peptide binding site [polypeptide binding]; other site 221109007512 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 221109007513 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109007514 Walker A/P-loop; other site 221109007515 ATP binding site [chemical binding]; other site 221109007516 Q-loop/lid; other site 221109007517 ABC transporter signature motif; other site 221109007518 Walker B; other site 221109007519 D-loop; other site 221109007520 H-loop/switch region; other site 221109007521 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109007522 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 221109007523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109007524 Walker A/P-loop; other site 221109007525 ATP binding site [chemical binding]; other site 221109007526 Q-loop/lid; other site 221109007527 ABC transporter signature motif; other site 221109007528 Walker B; other site 221109007529 D-loop; other site 221109007530 H-loop/switch region; other site 221109007531 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109007532 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 221109007533 RNA/DNA hybrid binding site [nucleotide binding]; other site 221109007534 active site 221109007535 shikimate kinase; Reviewed; Region: aroK; PRK00131 221109007536 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 221109007537 ADP binding site [chemical binding]; other site 221109007538 magnesium binding site [ion binding]; other site 221109007539 putative shikimate binding site; other site 221109007540 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 221109007541 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 221109007542 oligomer interface [polypeptide binding]; other site 221109007543 active site residues [active] 221109007544 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 221109007545 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 221109007546 active site 221109007547 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 221109007548 phytoene desaturase; Region: crtI_fam; TIGR02734 221109007549 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 221109007550 active site lid residues [active] 221109007551 substrate binding pocket [chemical binding]; other site 221109007552 catalytic residues [active] 221109007553 substrate-Mg2+ binding site; other site 221109007554 aspartate-rich region 1; other site 221109007555 aspartate-rich region 2; other site 221109007556 phytoene desaturase; Region: crtI_fam; TIGR02734 221109007557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 221109007558 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 221109007559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109007560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109007561 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 221109007562 dimerization domain swap beta strand [polypeptide binding]; other site 221109007563 regulatory protein interface [polypeptide binding]; other site 221109007564 active site 221109007565 regulatory phosphorylation site [posttranslational modification]; other site 221109007566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 221109007567 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 221109007568 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 221109007569 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 221109007570 phosphate binding site [ion binding]; other site 221109007571 putative substrate binding pocket [chemical binding]; other site 221109007572 dimer interface [polypeptide binding]; other site 221109007573 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 221109007574 AAA domain; Region: AAA_18; pfam13238 221109007575 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 221109007576 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109007577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109007578 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 221109007579 binding surface 221109007580 TPR motif; other site 221109007581 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 221109007582 TPR motif; other site 221109007583 binding surface 221109007584 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 221109007585 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 221109007586 active pocket/dimerization site; other site 221109007587 active site 221109007588 phosphorylation site [posttranslational modification] 221109007589 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 221109007590 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 221109007591 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 221109007592 glycerol kinase; Provisional; Region: glpK; PRK00047 221109007593 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 221109007594 N- and C-terminal domain interface [polypeptide binding]; other site 221109007595 active site 221109007596 MgATP binding site [chemical binding]; other site 221109007597 catalytic site [active] 221109007598 metal binding site [ion binding]; metal-binding site 221109007599 glycerol binding site [chemical binding]; other site 221109007600 homotetramer interface [polypeptide binding]; other site 221109007601 homodimer interface [polypeptide binding]; other site 221109007602 FBP binding site [chemical binding]; other site 221109007603 protein IIAGlc interface [polypeptide binding]; other site 221109007604 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 221109007605 amphipathic channel; other site 221109007606 Asn-Pro-Ala signature motifs; other site 221109007607 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 221109007608 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 221109007609 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 221109007610 trimer interface [polypeptide binding]; other site 221109007611 active site 221109007612 substrate binding site [chemical binding]; other site 221109007613 CoA binding site [chemical binding]; other site 221109007614 pyrophosphatase PpaX; Provisional; Region: PRK13288 221109007615 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 221109007616 active site 221109007617 motif I; other site 221109007618 motif II; other site 221109007619 Nucleoside recognition; Region: Gate; pfam07670 221109007620 Nucleoside recognition; Region: Gate; pfam07670 221109007621 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 221109007622 HPr kinase/phosphorylase; Provisional; Region: PRK05428 221109007623 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 221109007624 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 221109007625 Hpr binding site; other site 221109007626 active site 221109007627 homohexamer subunit interaction site [polypeptide binding]; other site 221109007628 Membrane protein of unknown function; Region: DUF360; cl00850 221109007629 PspC domain; Region: PspC; pfam04024 221109007630 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 221109007631 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 221109007632 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 221109007633 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 221109007634 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 221109007635 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 221109007636 excinuclease ABC subunit B; Provisional; Region: PRK05298 221109007637 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 221109007638 ATP binding site [chemical binding]; other site 221109007639 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 221109007640 nucleotide binding region [chemical binding]; other site 221109007641 ATP-binding site [chemical binding]; other site 221109007642 Ultra-violet resistance protein B; Region: UvrB; pfam12344 221109007643 UvrB/uvrC motif; Region: UVR; pfam02151 221109007644 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 221109007645 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 221109007646 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 221109007647 C-terminal peptidase (prc); Region: prc; TIGR00225 221109007648 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 221109007649 protein binding site [polypeptide binding]; other site 221109007650 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 221109007651 Catalytic dyad [active] 221109007652 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109007653 Prefoldin subunit; Region: Prefoldin_2; pfam01920 221109007654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 221109007655 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 221109007656 Peptidase family M23; Region: Peptidase_M23; pfam01551 221109007657 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 221109007658 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 221109007659 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 221109007660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109007661 Walker A/P-loop; other site 221109007662 ATP binding site [chemical binding]; other site 221109007663 Q-loop/lid; other site 221109007664 ABC transporter signature motif; other site 221109007665 Walker B; other site 221109007666 D-loop; other site 221109007667 H-loop/switch region; other site 221109007668 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 221109007669 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 221109007670 peptide chain release factor 2; Provisional; Region: PRK06746 221109007671 This domain is found in peptide chain release factors; Region: PCRF; smart00937 221109007672 RF-1 domain; Region: RF-1; pfam00472 221109007673 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 221109007674 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; cl17251 221109007675 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 221109007676 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 221109007677 nucleotide binding region [chemical binding]; other site 221109007678 ATP-binding site [chemical binding]; other site 221109007679 SEC-C motif; Region: SEC-C; pfam02810 221109007680 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 221109007681 30S subunit binding site; other site 221109007682 flagellar protein FliS; Validated; Region: fliS; PRK05685 221109007683 flagellar capping protein; Validated; Region: fliD; PRK07737 221109007684 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 221109007685 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 221109007686 flagellar protein FlaG; Provisional; Region: PRK07738 221109007687 carbon storage regulator; Provisional; Region: PRK01712 221109007688 flagellar assembly protein FliW; Provisional; Region: PRK13285 221109007689 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 221109007690 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 221109007691 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 221109007692 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 221109007693 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 221109007694 FlgN protein; Region: FlgN; pfam05130 221109007695 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 221109007696 flagellar operon protein TIGR03826; Region: YvyF 221109007697 CotH protein; Region: CotH; pfam08757 221109007698 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 221109007699 putative metal binding residues [ion binding]; other site 221109007700 signature motif; other site 221109007701 dimer interface [polypeptide binding]; other site 221109007702 active site 221109007703 polyP binding site; other site 221109007704 substrate binding site [chemical binding]; other site 221109007705 acceptor-phosphate pocket; other site 221109007706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 221109007707 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 221109007708 dimerization interface [polypeptide binding]; other site 221109007709 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 221109007710 dimer interface [polypeptide binding]; other site 221109007711 phosphorylation site [posttranslational modification] 221109007712 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 221109007713 ATP binding site [chemical binding]; other site 221109007714 Mg2+ binding site [ion binding]; other site 221109007715 G-X-G motif; other site 221109007716 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109007717 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 221109007718 active site 221109007719 phosphorylation site [posttranslational modification] 221109007720 intermolecular recognition site; other site 221109007721 dimerization interface [polypeptide binding]; other site 221109007722 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 221109007723 DNA binding site [nucleotide binding] 221109007724 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 221109007725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109007726 active site 221109007727 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 221109007728 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 221109007729 ATP binding site [chemical binding]; other site 221109007730 putative Mg++ binding site [ion binding]; other site 221109007731 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 221109007732 nucleotide binding region [chemical binding]; other site 221109007733 ATP-binding site [chemical binding]; other site 221109007734 EDD domain protein, DegV family; Region: DegV; TIGR00762 221109007735 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 221109007736 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109007737 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 221109007738 active site 221109007739 phosphorylation site [posttranslational modification] 221109007740 intermolecular recognition site; other site 221109007741 dimerization interface [polypeptide binding]; other site 221109007742 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 221109007743 DNA binding residues [nucleotide binding] 221109007744 dimerization interface [polypeptide binding]; other site 221109007745 Sensor protein DegS; Region: DegS; pfam05384 221109007746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 221109007747 Histidine kinase; Region: HisKA_3; pfam07730 221109007748 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 221109007749 ATP binding site [chemical binding]; other site 221109007750 Mg2+ binding site [ion binding]; other site 221109007751 G-X-G motif; other site 221109007752 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 221109007753 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 221109007754 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 221109007755 Predicted integral membrane protein [Function unknown]; Region: COG5652 221109007756 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 221109007757 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 221109007758 non-specific DNA binding site [nucleotide binding]; other site 221109007759 salt bridge; other site 221109007760 sequence-specific DNA binding site [nucleotide binding]; other site 221109007761 Anti-repressor SinI; Region: SinI; pfam08671 221109007762 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 221109007763 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 221109007764 Catalytic site [active] 221109007765 YqxM protein; Region: YqxM_for_SipW; TIGR04087 221109007766 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 221109007767 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 221109007768 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 221109007769 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 221109007770 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 221109007771 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 221109007772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 221109007773 A short protein domain of unknown function; Region: IDEAL; smart00914 221109007774 Protein of unknown function (DUF779); Region: DUF779; pfam05610 221109007775 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 221109007776 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109007777 NAD(P) binding site [chemical binding]; other site 221109007778 catalytic residues [active] 221109007779 Cold-inducible protein YdjO; Region: YdjO; pfam14169 221109007780 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 221109007781 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221109007782 active site 221109007783 motif I; other site 221109007784 motif II; other site 221109007785 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 221109007786 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 221109007787 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 221109007788 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 221109007789 putative substrate binding pocket [chemical binding]; other site 221109007790 AC domain interface; other site 221109007791 catalytic triad [active] 221109007792 AB domain interface; other site 221109007793 interchain disulfide; other site 221109007794 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 221109007795 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 221109007796 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 221109007797 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109007798 putative substrate translocation pore; other site 221109007799 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 221109007800 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 221109007801 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 221109007802 putative binding surface; other site 221109007803 active site 221109007804 P2 response regulator binding domain; Region: P2; pfam07194 221109007805 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 221109007806 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 221109007807 ATP binding site [chemical binding]; other site 221109007808 Mg2+ binding site [ion binding]; other site 221109007809 G-X-G motif; other site 221109007810 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 221109007811 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 221109007812 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 221109007813 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 221109007814 ligand binding site [chemical binding]; other site 221109007815 flagellar motor protein MotA; Validated; Region: PRK08124 221109007816 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 221109007817 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 221109007818 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 221109007819 DNA binding residues [nucleotide binding] 221109007820 YvrJ protein family; Region: YvrJ; pfam12841 221109007821 hypothetical protein; Provisional; Region: PRK14082 221109007822 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 221109007823 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 221109007824 agmatinase; Region: agmatinase; TIGR01230 221109007825 Agmatinase-like family; Region: Agmatinase-like; cd09990 221109007826 active site 221109007827 oligomer interface [polypeptide binding]; other site 221109007828 Mn binding site [ion binding]; other site 221109007829 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109007830 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 221109007831 dimer interface [polypeptide binding]; other site 221109007832 conserved gate region; other site 221109007833 putative PBP binding loops; other site 221109007834 ABC-ATPase subunit interface; other site 221109007835 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 221109007836 dimer interface [polypeptide binding]; other site 221109007837 conserved gate region; other site 221109007838 putative PBP binding loops; other site 221109007839 ABC-ATPase subunit interface; other site 221109007840 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 221109007841 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221109007842 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109007843 nucleotide binding site [chemical binding]; other site 221109007844 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 221109007845 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 221109007846 Ca binding site [ion binding]; other site 221109007847 active site 221109007848 catalytic site [active] 221109007849 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109007850 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109007851 DNA binding site [nucleotide binding] 221109007852 domain linker motif; other site 221109007853 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 221109007854 putative dimerization interface [polypeptide binding]; other site 221109007855 putative ligand binding site [chemical binding]; other site 221109007856 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109007857 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 221109007858 dimer interface [polypeptide binding]; other site 221109007859 conserved gate region; other site 221109007860 putative PBP binding loops; other site 221109007861 ABC-ATPase subunit interface; other site 221109007862 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 221109007863 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 221109007864 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 221109007865 dimer interface [polypeptide binding]; other site 221109007866 conserved gate region; other site 221109007867 putative PBP binding loops; other site 221109007868 ABC-ATPase subunit interface; other site 221109007869 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 221109007870 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109007871 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 221109007872 homodimer interface [polypeptide binding]; other site 221109007873 maltodextrin glucosidase; Provisional; Region: PRK10785 221109007874 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 221109007875 active site 221109007876 homodimer interface [polypeptide binding]; other site 221109007877 catalytic site [active] 221109007878 Protein of unknown function, DUF624; Region: DUF624; cl02369 221109007879 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 221109007880 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 221109007881 DNA interaction; other site 221109007882 Metal-binding active site; metal-binding site 221109007883 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 221109007884 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109007885 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109007886 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109007887 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109007888 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109007889 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 221109007890 conserved cys residue [active] 221109007891 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109007892 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109007893 DNA binding site [nucleotide binding] 221109007894 domain linker motif; other site 221109007895 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 221109007896 putative dimerization interface [polypeptide binding]; other site 221109007897 putative ligand binding site [chemical binding]; other site 221109007898 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109007899 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 221109007900 dimer interface [polypeptide binding]; other site 221109007901 conserved gate region; other site 221109007902 putative PBP binding loops; other site 221109007903 ABC-ATPase subunit interface; other site 221109007904 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 221109007905 dimer interface [polypeptide binding]; other site 221109007906 conserved gate region; other site 221109007907 putative PBP binding loops; other site 221109007908 ABC-ATPase subunit interface; other site 221109007909 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 221109007910 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109007911 Transposase IS200 like; Region: Y1_Tnp; pfam01797 221109007912 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 221109007913 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 221109007914 ligand binding site [chemical binding]; other site 221109007915 dimerization interface [polypeptide binding]; other site 221109007916 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 221109007917 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 221109007918 TM-ABC transporter signature motif; other site 221109007919 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 221109007920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109007921 Walker A/P-loop; other site 221109007922 ATP binding site [chemical binding]; other site 221109007923 Q-loop/lid; other site 221109007924 ABC transporter signature motif; other site 221109007925 Walker B; other site 221109007926 D-loop; other site 221109007927 H-loop/switch region; other site 221109007928 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 221109007929 D-ribose pyranase; Provisional; Region: PRK11797 221109007930 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221109007931 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 221109007932 substrate binding site [chemical binding]; other site 221109007933 dimer interface [polypeptide binding]; other site 221109007934 ATP binding site [chemical binding]; other site 221109007935 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109007936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109007937 DNA binding site [nucleotide binding] 221109007938 domain linker motif; other site 221109007939 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 221109007940 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 221109007941 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 221109007942 catalytic residues [active] 221109007943 4Fe-4S binding domain; Region: Fer4; cl02805 221109007944 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 221109007945 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109007946 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 221109007947 putative metal binding site [ion binding]; other site 221109007948 dimer interface [polypeptide binding]; other site 221109007949 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109007950 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 221109007951 metal binding site [ion binding]; metal-binding site 221109007952 dimer interface [polypeptide binding]; other site 221109007953 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 221109007954 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 221109007955 TPR motif; other site 221109007956 binding surface 221109007957 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 221109007958 active site 221109007959 DNA topoisomerase III; Provisional; Region: PRK07726 221109007960 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 221109007961 active site 221109007962 putative interdomain interaction site [polypeptide binding]; other site 221109007963 putative metal-binding site [ion binding]; other site 221109007964 putative nucleotide binding site [chemical binding]; other site 221109007965 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 221109007966 domain I; other site 221109007967 DNA binding groove [nucleotide binding] 221109007968 phosphate binding site [ion binding]; other site 221109007969 domain II; other site 221109007970 domain III; other site 221109007971 nucleotide binding site [chemical binding]; other site 221109007972 catalytic site [active] 221109007973 domain IV; other site 221109007974 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 221109007975 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 221109007976 Domain of unknown function DUF; Region: DUF204; pfam02659 221109007977 Predicted permeases [General function prediction only]; Region: COG0679 221109007978 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 221109007979 S1 domain; Region: S1_2; pfam13509 221109007980 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 221109007981 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 221109007982 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 221109007983 active site 221109007984 Zn binding site [ion binding]; other site 221109007985 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 221109007986 non-specific DNA binding site [nucleotide binding]; other site 221109007987 salt bridge; other site 221109007988 sequence-specific DNA binding site [nucleotide binding]; other site 221109007989 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 221109007990 TPR motif; other site 221109007991 TPR repeat; Region: TPR_11; pfam13414 221109007992 binding surface 221109007993 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 221109007994 active site 221109007995 catalytic triad [active] 221109007996 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 221109007997 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 221109007998 active site 221109007999 motif I; other site 221109008000 motif II; other site 221109008001 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 221109008002 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 221109008003 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 221109008004 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 221109008005 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 221109008006 active site 221109008007 phosphorylation site [posttranslational modification] 221109008008 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 221109008009 HTH domain; Region: HTH_11; pfam08279 221109008010 PRD domain; Region: PRD; pfam00874 221109008011 PRD domain; Region: PRD; pfam00874 221109008012 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 221109008013 active site 221109008014 P-loop; other site 221109008015 phosphorylation site [posttranslational modification] 221109008016 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 221109008017 active site 221109008018 phosphorylation site [posttranslational modification] 221109008019 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 221109008020 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 221109008021 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 221109008022 active site 221109008023 P-loop; other site 221109008024 phosphorylation site [posttranslational modification] 221109008025 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 221109008026 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 221109008027 Transcriptional regulators [Transcription]; Region: FadR; COG2186 221109008028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109008029 DNA-binding site [nucleotide binding]; DNA binding site 221109008030 FCD domain; Region: FCD; pfam07729 221109008031 YCII-related domain; Region: YCII; cl00999 221109008032 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 221109008033 active site 221109008034 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 221109008035 dimer interface [polypeptide binding]; other site 221109008036 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 221109008037 Ligand Binding Site [chemical binding]; other site 221109008038 Molecular Tunnel; other site 221109008039 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 221109008040 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109008041 active site 221109008042 dimer interface [polypeptide binding]; other site 221109008043 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109008044 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 221109008045 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 221109008046 peptide binding site [polypeptide binding]; other site 221109008047 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 221109008048 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 221109008049 dimer interface [polypeptide binding]; other site 221109008050 conserved gate region; other site 221109008051 ABC-ATPase subunit interface; other site 221109008052 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 221109008053 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 221109008054 dimer interface [polypeptide binding]; other site 221109008055 conserved gate region; other site 221109008056 putative PBP binding loops; other site 221109008057 ABC-ATPase subunit interface; other site 221109008058 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 221109008059 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109008060 Walker A/P-loop; other site 221109008061 ATP binding site [chemical binding]; other site 221109008062 Q-loop/lid; other site 221109008063 ABC transporter signature motif; other site 221109008064 Walker B; other site 221109008065 D-loop; other site 221109008066 H-loop/switch region; other site 221109008067 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 221109008068 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 221109008069 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109008070 Walker A/P-loop; other site 221109008071 ATP binding site [chemical binding]; other site 221109008072 Q-loop/lid; other site 221109008073 ABC transporter signature motif; other site 221109008074 Walker B; other site 221109008075 D-loop; other site 221109008076 H-loop/switch region; other site 221109008077 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 221109008078 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 221109008079 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 221109008080 tetramer interface [polypeptide binding]; other site 221109008081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109008082 catalytic residue [active] 221109008083 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 221109008084 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 221109008085 substrate binding site [chemical binding]; other site 221109008086 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 221109008087 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 221109008088 substrate binding site [chemical binding]; other site 221109008089 ligand binding site [chemical binding]; other site 221109008090 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 221109008091 tartrate dehydrogenase; Region: TTC; TIGR02089 221109008092 2-isopropylmalate synthase; Validated; Region: PRK00915 221109008093 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 221109008094 active site 221109008095 catalytic residues [active] 221109008096 metal binding site [ion binding]; metal-binding site 221109008097 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 221109008098 ketol-acid reductoisomerase; Provisional; Region: PRK05479 221109008099 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 221109008100 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 221109008101 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 221109008102 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 221109008103 putative valine binding site [chemical binding]; other site 221109008104 dimer interface [polypeptide binding]; other site 221109008105 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 221109008106 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 221109008107 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 221109008108 PYR/PP interface [polypeptide binding]; other site 221109008109 dimer interface [polypeptide binding]; other site 221109008110 TPP binding site [chemical binding]; other site 221109008111 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 221109008112 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 221109008113 TPP-binding site [chemical binding]; other site 221109008114 dimer interface [polypeptide binding]; other site 221109008115 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 221109008116 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 221109008117 homodimer interface [polypeptide binding]; other site 221109008118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109008119 catalytic residue [active] 221109008120 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 221109008121 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 221109008122 ligand binding site [chemical binding]; other site 221109008123 NAD binding site [chemical binding]; other site 221109008124 dimerization interface [polypeptide binding]; other site 221109008125 catalytic site [active] 221109008126 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 221109008127 putative L-serine binding site [chemical binding]; other site 221109008128 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 221109008129 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 221109008130 motif II; other site 221109008131 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 221109008132 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 221109008133 homodimer interface [polypeptide binding]; other site 221109008134 substrate-cofactor binding pocket; other site 221109008135 catalytic residue [active] 221109008136 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 221109008137 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 221109008138 Walker A motif; other site 221109008139 ATP binding site [chemical binding]; other site 221109008140 Walker B motif; other site 221109008141 arginine finger; other site 221109008142 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 221109008143 Citrate transporter; Region: CitMHS; pfam03600 221109008144 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 221109008145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109008146 NAD(P) binding site [chemical binding]; other site 221109008147 active site 221109008148 putative acyltransferase; Provisional; Region: PRK05790 221109008149 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 221109008150 dimer interface [polypeptide binding]; other site 221109008151 active site 221109008152 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 221109008153 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 221109008154 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 221109008155 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109008156 active site 221109008157 catalytic tetrad [active] 221109008158 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 221109008159 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 221109008160 hydrophobic ligand binding site; other site 221109008161 Uncharacterized conserved protein [Function unknown]; Region: COG1284 221109008162 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109008163 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109008164 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 221109008165 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 221109008166 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 221109008167 homodimer interface [polypeptide binding]; other site 221109008168 substrate-cofactor binding pocket; other site 221109008169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109008170 catalytic residue [active] 221109008171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221109008172 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221109008173 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 221109008174 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 221109008175 active site 221109008176 dimer interface [polypeptide binding]; other site 221109008177 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 221109008178 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 221109008179 active site 221109008180 acyl-activating enzyme (AAE) consensus motif; other site 221109008181 putative CoA binding site [chemical binding]; other site 221109008182 AMP binding site [chemical binding]; other site 221109008183 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 221109008184 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 221109008185 G1 box; other site 221109008186 GTP/Mg2+ binding site [chemical binding]; other site 221109008187 G2 box; other site 221109008188 Switch I region; other site 221109008189 G3 box; other site 221109008190 Switch II region; other site 221109008191 G4 box; other site 221109008192 G5 box; other site 221109008193 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 221109008194 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 221109008195 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109008196 Coenzyme A binding pocket [chemical binding]; other site 221109008197 SpoVR like protein; Region: SpoVR; pfam04293 221109008198 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 221109008199 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 221109008200 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 221109008201 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 221109008202 CPxP motif; other site 221109008203 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 221109008204 active site residue [active] 221109008205 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109008206 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 221109008207 CPxP motif; other site 221109008208 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 221109008209 active site residue [active] 221109008210 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 221109008211 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 221109008212 putative homodimer interface [polypeptide binding]; other site 221109008213 putative homotetramer interface [polypeptide binding]; other site 221109008214 putative metal binding site [ion binding]; other site 221109008215 putative homodimer-homodimer interface [polypeptide binding]; other site 221109008216 putative allosteric switch controlling residues; other site 221109008217 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 221109008218 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 221109008219 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 221109008220 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 221109008221 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109008222 putative substrate translocation pore; other site 221109008223 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 221109008224 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221109008225 active site 221109008226 motif I; other site 221109008227 motif II; other site 221109008228 hydroperoxidase II; Provisional; Region: katE; PRK11249 221109008229 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 221109008230 heme binding pocket [chemical binding]; other site 221109008231 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 221109008232 domain interactions; other site 221109008233 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 221109008234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109008235 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 221109008236 DNA binding residues [nucleotide binding] 221109008237 putative anti-sigmaE protein; Provisional; Region: PRK13920 221109008238 Anti-sigma-K factor rskA; Region: RskA; pfam10099 221109008239 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 221109008240 active site 221109008241 putative catalytic site [active] 221109008242 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 221109008243 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221109008244 active site 221109008245 catalytic tetrad [active] 221109008246 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109008247 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 221109008248 acyl-CoA synthetase; Validated; Region: PRK08162 221109008249 acyl-activating enzyme (AAE) consensus motif; other site 221109008250 putative active site [active] 221109008251 AMP binding site [chemical binding]; other site 221109008252 putative CoA binding site [chemical binding]; other site 221109008253 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 221109008254 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109008255 active site 221109008256 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 221109008257 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 221109008258 substrate binding site [chemical binding]; other site 221109008259 oxyanion hole (OAH) forming residues; other site 221109008260 trimer interface [polypeptide binding]; other site 221109008261 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 221109008262 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 221109008263 FMN binding site [chemical binding]; other site 221109008264 substrate binding site [chemical binding]; other site 221109008265 putative catalytic residue [active] 221109008266 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 221109008267 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 221109008268 dimer interface [polypeptide binding]; other site 221109008269 acyl-activating enzyme (AAE) consensus motif; other site 221109008270 putative active site [active] 221109008271 AMP binding site [chemical binding]; other site 221109008272 putative CoA binding site [chemical binding]; other site 221109008273 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 221109008274 CoA-transferase family III; Region: CoA_transf_3; pfam02515 221109008275 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 221109008276 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 221109008277 dimer interface [polypeptide binding]; other site 221109008278 active site 221109008279 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 221109008280 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 221109008281 NAD binding site [chemical binding]; other site 221109008282 homodimer interface [polypeptide binding]; other site 221109008283 homotetramer interface [polypeptide binding]; other site 221109008284 active site 221109008285 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109008286 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109008287 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 221109008288 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 221109008289 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 221109008290 putative active site [active] 221109008291 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 221109008292 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 221109008293 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 221109008294 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 221109008295 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 221109008296 pantothenate kinase; Provisional; Region: PRK13317 221109008297 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 221109008298 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 221109008299 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109008300 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 221109008301 CsbD-like; Region: CsbD; cl17424 221109008302 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 221109008303 Glutamine amidotransferase class-I; Region: GATase; pfam00117 221109008304 predicted active site [active] 221109008305 catalytic triad [active] 221109008306 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 221109008307 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 221109008308 active site 221109008309 multimer interface [polypeptide binding]; other site 221109008310 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 221109008311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109008312 DNA-binding site [nucleotide binding]; DNA binding site 221109008313 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 221109008314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109008315 homodimer interface [polypeptide binding]; other site 221109008316 catalytic residue [active] 221109008317 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 221109008318 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 221109008319 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 221109008320 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 221109008321 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 221109008322 active site 221109008323 dimer interface [polypeptide binding]; other site 221109008324 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 221109008325 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 221109008326 active site 221109008327 dimer interface [polypeptide binding]; other site 221109008328 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 221109008329 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 221109008330 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 221109008331 putative active site [active] 221109008332 putative substrate binding site [chemical binding]; other site 221109008333 putative cosubstrate binding site; other site 221109008334 catalytic site [active] 221109008335 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 221109008336 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 221109008337 putative dimer interface [polypeptide binding]; other site 221109008338 YppG-like protein; Region: YppG; pfam14179 221109008339 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109008340 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109008341 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 221109008342 phosphate binding site [ion binding]; other site 221109008343 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221109008344 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 221109008345 substrate binding site [chemical binding]; other site 221109008346 ATP binding site [chemical binding]; other site 221109008347 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 221109008348 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109008349 active site 221109008350 dimer interface [polypeptide binding]; other site 221109008351 DctM-like transporters; Region: DctM; pfam06808 221109008352 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 221109008353 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 221109008354 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221109008355 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221109008356 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 221109008357 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 221109008358 active site 221109008359 intersubunit interface [polypeptide binding]; other site 221109008360 catalytic residue [active] 221109008361 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 221109008362 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 221109008363 tetramer interface [polypeptide binding]; other site 221109008364 active site 221109008365 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109008366 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109008367 DNA binding site [nucleotide binding] 221109008368 domain linker motif; other site 221109008369 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 221109008370 putative dimerization interface [polypeptide binding]; other site 221109008371 putative ligand binding site [chemical binding]; other site 221109008372 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 221109008373 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109008374 NAD(P) binding site [chemical binding]; other site 221109008375 catalytic residues [active] 221109008376 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 221109008377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109008378 dimer interface [polypeptide binding]; other site 221109008379 putative CheW interface [polypeptide binding]; other site 221109008380 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 221109008381 amidohydrolase; Region: amidohydrolases; TIGR01891 221109008382 metal binding site [ion binding]; metal-binding site 221109008383 putative dimer interface [polypeptide binding]; other site 221109008384 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 221109008385 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 221109008386 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 221109008387 putative active site [active] 221109008388 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 221109008389 Predicted membrane protein [Function unknown]; Region: COG1288 221109008390 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 221109008391 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 221109008392 active site 221109008393 octamer interface [polypeptide binding]; other site 221109008394 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 221109008395 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 221109008396 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 221109008397 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 221109008398 putative active site [active] 221109008399 putative NTP binding site [chemical binding]; other site 221109008400 putative nucleic acid binding site [nucleotide binding]; other site 221109008401 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 221109008402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109008403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109008404 NAD(P) binding site [chemical binding]; other site 221109008405 active site 221109008406 CrcB-like protein; Region: CRCB; cl09114 221109008407 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 221109008408 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 221109008409 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 221109008410 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 221109008411 active site 221109008412 motif I; other site 221109008413 motif II; other site 221109008414 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 221109008415 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 221109008416 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 221109008417 dimer interface [polypeptide binding]; other site 221109008418 conserved gate region; other site 221109008419 putative PBP binding loops; other site 221109008420 ABC-ATPase subunit interface; other site 221109008421 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 221109008422 dimer interface [polypeptide binding]; other site 221109008423 conserved gate region; other site 221109008424 putative PBP binding loops; other site 221109008425 ABC-ATPase subunit interface; other site 221109008426 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 221109008427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109008428 Walker A/P-loop; other site 221109008429 ATP binding site [chemical binding]; other site 221109008430 Q-loop/lid; other site 221109008431 ABC transporter signature motif; other site 221109008432 Walker B; other site 221109008433 D-loop; other site 221109008434 H-loop/switch region; other site 221109008435 TOBE domain; Region: TOBE_2; pfam08402 221109008436 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 221109008437 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 221109008438 Putative motility protein; Region: YjfB_motility; pfam14070 221109008439 flagellin; Provisional; Region: PRK12804 221109008440 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 221109008441 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 221109008442 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 221109008443 Cache domain; Region: Cache_1; pfam02743 221109008444 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 221109008445 dimerization interface [polypeptide binding]; other site 221109008446 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109008447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109008448 dimer interface [polypeptide binding]; other site 221109008449 putative CheW interface [polypeptide binding]; other site 221109008450 Uncharacterized conserved protein [Function unknown]; Region: COG1284 221109008451 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 221109008452 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 221109008453 Predicted membrane protein [Function unknown]; Region: COG2261 221109008454 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 221109008455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 221109008456 substrate binding pocket [chemical binding]; other site 221109008457 membrane-bound complex binding site; other site 221109008458 hinge residues; other site 221109008459 Predicted membrane protein [Function unknown]; Region: COG1511 221109008460 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 221109008461 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 221109008462 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 221109008463 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 221109008464 tetrameric interface [polypeptide binding]; other site 221109008465 NAD binding site [chemical binding]; other site 221109008466 catalytic residues [active] 221109008467 Citrate transporter; Region: CitMHS; pfam03600 221109008468 fructuronate transporter; Provisional; Region: PRK10034; cl15264 221109008469 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 221109008470 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 221109008471 putative active site [active] 221109008472 metal binding site [ion binding]; metal-binding site 221109008473 FOG: CBS domain [General function prediction only]; Region: COG0517 221109008474 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; cd02205 221109008475 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 221109008476 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 221109008477 putative active site [active] 221109008478 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 221109008479 Walker A motif; other site 221109008480 ATP binding site [chemical binding]; other site 221109008481 Walker B motif; other site 221109008482 arginine finger; other site 221109008483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 221109008484 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 221109008485 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 221109008486 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 221109008487 PGAP1-like protein; Region: PGAP1; pfam07819 221109008488 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221109008489 V-type ATP synthase subunit I; Validated; Region: PRK05771 221109008490 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 221109008491 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221109008492 active site 221109008493 motif I; other site 221109008494 motif II; other site 221109008495 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 221109008496 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 221109008497 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 221109008498 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221109008499 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 221109008500 putative NAD(P) binding site [chemical binding]; other site 221109008501 catalytic Zn binding site [ion binding]; other site 221109008502 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 221109008503 intersubunit interface [polypeptide binding]; other site 221109008504 active site 221109008505 catalytic residue [active] 221109008506 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221109008507 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 221109008508 putative NAD(P) binding site [chemical binding]; other site 221109008509 catalytic Zn binding site [ion binding]; other site 221109008510 structural Zn binding site [ion binding]; other site 221109008511 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 221109008512 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 221109008513 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 221109008514 active site 221109008515 P-loop; other site 221109008516 phosphorylation site [posttranslational modification] 221109008517 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 221109008518 active site 221109008519 phosphorylation site [posttranslational modification] 221109008520 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 221109008521 PRD domain; Region: PRD; pfam00874 221109008522 PRD domain; Region: PRD; pfam00874 221109008523 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 221109008524 active site 221109008525 P-loop; other site 221109008526 phosphorylation site [posttranslational modification] 221109008527 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 221109008528 active site 221109008529 phosphorylation site [posttranslational modification] 221109008530 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221109008531 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109008532 nucleotide binding site [chemical binding]; other site 221109008533 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 221109008534 HPr interaction site; other site 221109008535 glycerol kinase (GK) interaction site [polypeptide binding]; other site 221109008536 active site 221109008537 phosphorylation site [posttranslational modification] 221109008538 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 221109008539 histidinol-phosphatase; Provisional; Region: PRK05588 221109008540 active site 221109008541 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 221109008542 active site 221109008543 P-loop; other site 221109008544 phosphorylation site [posttranslational modification] 221109008545 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 221109008546 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 221109008547 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 221109008548 methionine cluster; other site 221109008549 active site 221109008550 phosphorylation site [posttranslational modification] 221109008551 metal binding site [ion binding]; metal-binding site 221109008552 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 221109008553 beta-galactosidase; Region: BGL; TIGR03356 221109008554 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 221109008555 HTH domain; Region: HTH_11; pfam08279 221109008556 Mga helix-turn-helix domain; Region: Mga; pfam05043 221109008557 PRD domain; Region: PRD; pfam00874 221109008558 PRD domain; Region: PRD; pfam00874 221109008559 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 221109008560 active site 221109008561 P-loop; other site 221109008562 phosphorylation site [posttranslational modification] 221109008563 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 221109008564 active site 221109008565 phosphorylation site [posttranslational modification] 221109008566 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 221109008567 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 221109008568 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 221109008569 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 221109008570 Spore germination protein; Region: Spore_permease; cl17796 221109008571 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 221109008572 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 221109008573 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 221109008574 putative substrate translocation pore; other site 221109008575 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 221109008576 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109008577 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109008578 LXG domain of WXG superfamily; Region: LXG; pfam04740 221109008579 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 221109008580 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109008581 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; cl17257 221109008582 DNA binding residues [nucleotide binding] 221109008583 BCCT family transporter; Region: BCCT; pfam02028 221109008584 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221109008585 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 221109008586 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 221109008587 Na binding site [ion binding]; other site 221109008588 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 221109008589 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 221109008590 active site 221109008591 non-prolyl cis peptide bond; other site 221109008592 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221109008593 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221109008594 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 221109008595 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 221109008596 tetramer interface [polypeptide binding]; other site 221109008597 heme binding pocket [chemical binding]; other site 221109008598 Syndecan domain; Region: Syndecan; pfam01034 221109008599 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 221109008600 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 221109008601 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 221109008602 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 221109008603 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 221109008604 fructuronate transporter; Provisional; Region: PRK10034; cl15264 221109008605 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 221109008606 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 221109008607 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 221109008608 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 221109008609 amidohydrolase; Region: amidohydrolases; TIGR01891 221109008610 metal binding site [ion binding]; metal-binding site 221109008611 AbgT putative transporter family; Region: ABG_transport; cl17431 221109008612 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 221109008613 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 221109008614 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109008615 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 221109008616 putative NAD(P) binding site [chemical binding]; other site 221109008617 putative active site [active] 221109008618 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 221109008619 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109008620 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 221109008621 metal binding site [ion binding]; metal-binding site 221109008622 dimer interface [polypeptide binding]; other site 221109008623 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 221109008624 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 221109008625 putative active site cavity [active] 221109008626 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 221109008627 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 221109008628 putative substrate translocation pore; other site 221109008629 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 221109008630 L-arabinose isomerase; Provisional; Region: PRK02929 221109008631 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 221109008632 hexamer (dimer of trimers) interface [polypeptide binding]; other site 221109008633 trimer interface [polypeptide binding]; other site 221109008634 substrate binding site [chemical binding]; other site 221109008635 Mn binding site [ion binding]; other site 221109008636 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 221109008637 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 221109008638 intersubunit interface [polypeptide binding]; other site 221109008639 active site 221109008640 Zn2+ binding site [ion binding]; other site 221109008641 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 221109008642 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 221109008643 putative N- and C-terminal domain interface [polypeptide binding]; other site 221109008644 putative active site [active] 221109008645 MgATP binding site [chemical binding]; other site 221109008646 catalytic site [active] 221109008647 metal binding site [ion binding]; metal-binding site 221109008648 putative carbohydrate binding site [chemical binding]; other site 221109008649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109008650 DNA-binding site [nucleotide binding]; DNA binding site 221109008651 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109008652 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 221109008653 putative dimerization interface [polypeptide binding]; other site 221109008654 putative ligand binding site [chemical binding]; other site 221109008655 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 221109008656 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 221109008657 NAD binding site [chemical binding]; other site 221109008658 catalytic Zn binding site [ion binding]; other site 221109008659 substrate binding site [chemical binding]; other site 221109008660 structural Zn binding site [ion binding]; other site 221109008661 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 221109008662 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 221109008663 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 221109008664 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 221109008665 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 221109008666 active site 221109008667 Predicted transcriptional regulators [Transcription]; Region: COG1733 221109008668 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 221109008669 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 221109008670 active site 221109008671 dimer interface [polypeptide binding]; other site 221109008672 magnesium binding site [ion binding]; other site 221109008673 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 221109008674 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 221109008675 tetramer interface [polypeptide binding]; other site 221109008676 active site 221109008677 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 221109008678 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 221109008679 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 221109008680 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 221109008681 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221109008682 active site 221109008683 motif I; other site 221109008684 motif II; other site 221109008685 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 221109008686 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 221109008687 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 221109008688 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 221109008689 NADP binding site [chemical binding]; other site 221109008690 homodimer interface [polypeptide binding]; other site 221109008691 active site 221109008692 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221109008693 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 221109008694 NAD(P) binding site [chemical binding]; other site 221109008695 DctM-like transporters; Region: DctM; pfam06808 221109008696 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 221109008697 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 221109008698 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221109008699 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 221109008700 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 221109008701 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 221109008702 ligand binding site [chemical binding]; other site 221109008703 NAD binding site [chemical binding]; other site 221109008704 catalytic site [active] 221109008705 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 221109008706 Transcriptional regulator [Transcription]; Region: IclR; COG1414 221109008707 Bacterial transcriptional regulator; Region: IclR; pfam01614 221109008708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109008709 NAD(P) binding site [chemical binding]; other site 221109008710 active site 221109008711 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109008712 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 221109008713 active site 221109008714 phosphorylation site [posttranslational modification] 221109008715 intermolecular recognition site; other site 221109008716 dimerization interface [polypeptide binding]; other site 221109008717 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 221109008718 DNA binding residues [nucleotide binding] 221109008719 dimerization interface [polypeptide binding]; other site 221109008720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 221109008721 Histidine kinase; Region: HisKA_3; pfam07730 221109008722 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 221109008723 ATP binding site [chemical binding]; other site 221109008724 Mg2+ binding site [ion binding]; other site 221109008725 G-X-G motif; other site 221109008726 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 221109008727 Predicted membrane protein [Function unknown]; Region: COG4758 221109008728 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 221109008729 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 221109008730 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 221109008731 Na binding site [ion binding]; other site 221109008732 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 221109008733 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 221109008734 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 221109008735 active site 221109008736 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 221109008737 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 221109008738 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 221109008739 FAD binding domain; Region: FAD_binding_4; pfam01565 221109008740 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 221109008741 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 221109008742 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 221109008743 Cysteine-rich domain; Region: CCG; pfam02754 221109008744 Cysteine-rich domain; Region: CCG; pfam02754 221109008745 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 221109008746 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 221109008747 active site 221109008748 catalytic site [active] 221109008749 BCCT family transporter; Region: BCCT; pfam02028 221109008750 hypothetical protein; Provisional; Region: PRK06851 221109008751 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 221109008752 G1 box; other site 221109008753 GTP/Mg2+ binding site [chemical binding]; other site 221109008754 G2 box; other site 221109008755 Switch I region; other site 221109008756 G3 box; other site 221109008757 Switch II region; other site 221109008758 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 221109008759 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 221109008760 active site 221109008761 tetramer interface [polypeptide binding]; other site 221109008762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 221109008763 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 221109008764 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 221109008765 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 221109008766 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109008767 NAD(P) binding site [chemical binding]; other site 221109008768 catalytic residues [active] 221109008769 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 221109008770 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 221109008771 putative active site [active] 221109008772 catalytic residue [active] 221109008773 Transcriptional regulators [Transcription]; Region: FadR; COG2186 221109008774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109008775 DNA-binding site [nucleotide binding]; DNA binding site 221109008776 FCD domain; Region: FCD; pfam07729 221109008777 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 221109008778 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 221109008779 metal binding site [ion binding]; metal-binding site 221109008780 substrate binding pocket [chemical binding]; other site 221109008781 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 221109008782 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 221109008783 ligand binding site [chemical binding]; other site 221109008784 NAD binding site [chemical binding]; other site 221109008785 dimerization interface [polypeptide binding]; other site 221109008786 catalytic site [active] 221109008787 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 221109008788 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 221109008789 inhibitor site; inhibition site 221109008790 active site 221109008791 dimer interface [polypeptide binding]; other site 221109008792 catalytic residue [active] 221109008793 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 221109008794 Transcriptional regulators [Transcription]; Region: GntR; COG1802 221109008795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109008796 DNA-binding site [nucleotide binding]; DNA binding site 221109008797 FCD domain; Region: FCD; pfam07729 221109008798 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 221109008799 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 221109008800 dimerization interface [polypeptide binding]; other site 221109008801 ligand binding site [chemical binding]; other site 221109008802 NADP binding site [chemical binding]; other site 221109008803 catalytic site [active] 221109008804 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 221109008805 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 221109008806 active site 221109008807 catalytic triad [active] 221109008808 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109008809 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 221109008810 active site 221109008811 phosphorylation site [posttranslational modification] 221109008812 intermolecular recognition site; other site 221109008813 dimerization interface [polypeptide binding]; other site 221109008814 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 221109008815 DNA binding residues [nucleotide binding] 221109008816 dimerization interface [polypeptide binding]; other site 221109008817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 221109008818 hypothetical protein; Provisional; Region: PRK09609 221109008819 Histidine kinase; Region: HisKA_3; pfam07730 221109008820 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 221109008821 Mg2+ binding site [ion binding]; other site 221109008822 G-X-G motif; other site 221109008823 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 221109008824 Fatty acid desaturase; Region: FA_desaturase; pfam00487 221109008825 putative di-iron ligands [ion binding]; other site 221109008826 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 221109008827 NADH(P)-binding; Region: NAD_binding_10; pfam13460 221109008828 NADP binding site [chemical binding]; other site 221109008829 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 221109008830 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 221109008831 sequence-specific DNA binding site [nucleotide binding]; other site 221109008832 salt bridge; other site 221109008833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109008834 Coenzyme A binding pocket [chemical binding]; other site 221109008835 Endonuclease I; Region: Endonuclease_1; pfam04231 221109008836 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 221109008837 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 221109008838 DctM-like transporters; Region: DctM; pfam06808 221109008839 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 221109008840 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221109008841 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221109008842 succinic semialdehyde dehydrogenase; Region: PLN02278 221109008843 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 221109008844 tetramerization interface [polypeptide binding]; other site 221109008845 NAD(P) binding site [chemical binding]; other site 221109008846 catalytic residues [active] 221109008847 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 221109008848 putative substrate binding pocket [chemical binding]; other site 221109008849 trimer interface [polypeptide binding]; other site 221109008850 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 221109008851 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 221109008852 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 221109008853 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 221109008854 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 221109008855 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 221109008856 dimer interface [polypeptide binding]; other site 221109008857 active site 221109008858 catalytic residue [active] 221109008859 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 221109008860 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 221109008861 tetramer interface [polypeptide binding]; other site 221109008862 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 221109008863 tetramer interface [polypeptide binding]; other site 221109008864 active site 221109008865 metal binding site [ion binding]; metal-binding site 221109008866 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 221109008867 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 221109008868 NAD binding site [chemical binding]; other site 221109008869 catalytic residues [active] 221109008870 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 221109008871 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 221109008872 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 221109008873 active site 221109008874 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 221109008875 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 221109008876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221109008877 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 221109008878 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 221109008879 dimerization interface [polypeptide binding]; other site 221109008880 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 221109008881 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 221109008882 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 221109008883 E3 interaction surface; other site 221109008884 lipoyl attachment site [posttranslational modification]; other site 221109008885 e3 binding domain; Region: E3_binding; pfam02817 221109008886 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 221109008887 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 221109008888 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 221109008889 alpha subunit interface [polypeptide binding]; other site 221109008890 TPP binding site [chemical binding]; other site 221109008891 heterodimer interface [polypeptide binding]; other site 221109008892 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 221109008893 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 221109008894 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 221109008895 TPP-binding site [chemical binding]; other site 221109008896 tetramer interface [polypeptide binding]; other site 221109008897 heterodimer interface [polypeptide binding]; other site 221109008898 phosphorylation loop region [posttranslational modification] 221109008899 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 221109008900 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 221109008901 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 221109008902 NAD binding site [chemical binding]; other site 221109008903 Phe binding site; other site 221109008904 Predicted thioesterase [General function prediction only]; Region: COG5496 221109008905 Transcriptional regulators [Transcription]; Region: GntR; COG1802 221109008906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109008907 DNA-binding site [nucleotide binding]; DNA binding site 221109008908 FCD domain; Region: FCD; pfam07729 221109008909 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 221109008910 putative active site [active] 221109008911 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 221109008912 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 221109008913 putative NAD(P) binding site [chemical binding]; other site 221109008914 active site 221109008915 putative substrate binding site [chemical binding]; other site 221109008916 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 221109008917 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 221109008918 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 221109008919 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 221109008920 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 221109008921 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 221109008922 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 221109008923 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 221109008924 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 221109008925 trimer interface [polypeptide binding]; other site 221109008926 active site 221109008927 substrate binding site [chemical binding]; other site 221109008928 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 221109008929 CoA binding site [chemical binding]; other site 221109008930 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 221109008931 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 221109008932 active site 221109008933 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 221109008934 putative ADP-binding pocket [chemical binding]; other site 221109008935 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 221109008936 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 221109008937 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 221109008938 putative trimer interface [polypeptide binding]; other site 221109008939 putative CoA binding site [chemical binding]; other site 221109008940 Bacterial sugar transferase; Region: Bac_transf; pfam02397 221109008941 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 221109008942 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 221109008943 inhibitor-cofactor binding pocket; inhibition site 221109008944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109008945 catalytic residue [active] 221109008946 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 221109008947 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 221109008948 active site 221109008949 tetramer interface; other site 221109008950 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 221109008951 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 221109008952 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 221109008953 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 221109008954 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 221109008955 NAD(P) binding site [chemical binding]; other site 221109008956 homodimer interface [polypeptide binding]; other site 221109008957 substrate binding site [chemical binding]; other site 221109008958 active site 221109008959 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109008960 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 221109008961 DNA binding residues [nucleotide binding] 221109008962 dimerization interface [polypeptide binding]; other site 221109008963 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 221109008964 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 221109008965 DNA binding residues [nucleotide binding] 221109008966 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 221109008967 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 221109008968 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 221109008969 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 221109008970 Chain length determinant protein; Region: Wzz; cl15801 221109008971 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109008972 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109008973 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 221109008974 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 221109008975 NlpC/P60 family; Region: NLPC_P60; pfam00877 221109008976 Nuclease-related domain; Region: NERD; pfam08378 221109008977 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 221109008978 Cupin; Region: Cupin_1; smart00835 221109008979 YfhD-like protein; Region: YfhD; pfam14151 221109008980 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 221109008981 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 221109008982 active site 221109008983 dimer interface [polypeptide binding]; other site 221109008984 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221109008985 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 221109008986 active site 221109008987 nucleotide binding site [chemical binding]; other site 221109008988 HIGH motif; other site 221109008989 KMSKS motif; other site 221109008990 Transcriptional regulator [Transcription]; Region: LytR; COG1316 221109008991 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 221109008992 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 221109008993 Mg++ binding site [ion binding]; other site 221109008994 putative catalytic motif [active] 221109008995 substrate binding site [chemical binding]; other site 221109008996 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109008997 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109008998 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109008999 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009000 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009001 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009002 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009003 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009004 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009005 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009006 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009007 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009008 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009009 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009010 Bacterial SH3 domain; Region: SH3_3; cl17532 221109009011 Bacterial SH3 domain; Region: SH3_3; pfam08239 221109009012 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 221109009013 Lysozyme subfamily 2; Region: LYZ2; smart00047 221109009014 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009015 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009016 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009017 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009018 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009019 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009020 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009021 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009022 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009023 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009024 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009025 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 221109009026 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009027 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 221109009028 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 221109009029 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 221109009030 active site 221109009031 metal binding site [ion binding]; metal-binding site 221109009032 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 221109009033 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 221109009034 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 221109009035 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009036 Acylphosphatase; Region: Acylphosphatase; pfam00708 221109009037 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 221109009038 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009039 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009040 Acylphosphatase; Region: Acylphosphatase; cl00551 221109009041 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 221109009042 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 221109009043 putative active site [active] 221109009044 putative metal binding site [ion binding]; other site 221109009045 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 221109009046 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009047 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009048 Acylphosphatase; Region: Acylphosphatase; pfam00708 221109009049 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 221109009050 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009051 Acylphosphatase; Region: Acylphosphatase; pfam00708 221109009052 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 221109009053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 221109009054 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 221109009055 active site 221109009056 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 221109009057 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 221109009058 active site 221109009059 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 221109009060 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 221109009061 Walker A/P-loop; other site 221109009062 ATP binding site [chemical binding]; other site 221109009063 Q-loop/lid; other site 221109009064 ABC transporter signature motif; other site 221109009065 Walker B; other site 221109009066 D-loop; other site 221109009067 H-loop/switch region; other site 221109009068 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 221109009069 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 221109009070 Walker A/P-loop; other site 221109009071 ATP binding site [chemical binding]; other site 221109009072 Q-loop/lid; other site 221109009073 ABC transporter signature motif; other site 221109009074 Walker B; other site 221109009075 D-loop; other site 221109009076 H-loop/switch region; other site 221109009077 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 221109009078 ABC-2 type transporter; Region: ABC2_membrane; cl17235 221109009079 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 221109009080 active site 221109009081 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 221109009082 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 221109009083 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 221109009084 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 221109009085 putative ADP-binding pocket [chemical binding]; other site 221109009086 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 221109009087 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 221109009088 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 221109009089 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 221109009090 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 221109009091 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 221109009092 active site 221109009093 tetramer interface; other site 221109009094 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 221109009095 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 221109009096 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 221109009097 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 221109009098 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 221109009099 putative active site [active] 221109009100 catalytic triad [active] 221109009101 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 221109009102 PA/protease domain interface [polypeptide binding]; other site 221109009103 putative integrin binding motif; other site 221109009104 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 221109009105 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 221109009106 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 221109009107 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 221109009108 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 221109009109 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 221109009110 Mg++ binding site [ion binding]; other site 221109009111 putative catalytic motif [active] 221109009112 substrate binding site [chemical binding]; other site 221109009113 Uncharacterized conserved protein [Function unknown]; Region: COG2966 221109009114 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 221109009115 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 221109009116 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 221109009117 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 221109009118 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 221109009119 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 221109009120 Protein export membrane protein; Region: SecD_SecF; cl14618 221109009121 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 221109009122 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 221109009123 E3 interaction surface; other site 221109009124 lipoyl attachment site [posttranslational modification]; other site 221109009125 HlyD family secretion protein; Region: HlyD_3; pfam13437 221109009126 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 221109009127 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221109009128 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 221109009129 dimer interface [polypeptide binding]; other site 221109009130 conserved gate region; other site 221109009131 putative PBP binding loops; other site 221109009132 ABC-ATPase subunit interface; other site 221109009133 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 221109009134 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 221109009135 Walker A/P-loop; other site 221109009136 ATP binding site [chemical binding]; other site 221109009137 Q-loop/lid; other site 221109009138 ABC transporter signature motif; other site 221109009139 Walker B; other site 221109009140 D-loop; other site 221109009141 H-loop/switch region; other site 221109009142 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 221109009143 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 221109009144 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 221109009145 Prostaglandin dehydrogenases; Region: PGDH; cd05288 221109009146 NAD(P) binding site [chemical binding]; other site 221109009147 substrate binding site [chemical binding]; other site 221109009148 dimer interface [polypeptide binding]; other site 221109009149 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 221109009150 amidohydrolase; Region: amidohydrolases; TIGR01891 221109009151 metal binding site [ion binding]; metal-binding site 221109009152 dimer interface [polypeptide binding]; other site 221109009153 cystathionine gamma-synthase; Provisional; Region: PRK08249 221109009154 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 221109009155 homodimer interface [polypeptide binding]; other site 221109009156 substrate-cofactor binding pocket; other site 221109009157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109009158 catalytic residue [active] 221109009159 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 221109009160 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 221109009161 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 221109009162 active site 221109009163 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 221109009164 SpoOM protein; Region: Spo0M; pfam07070 221109009165 PGAP1-like protein; Region: PGAP1; pfam07819 221109009166 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 221109009167 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 221109009168 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 221109009169 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 221109009170 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 221109009171 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 221109009172 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 221109009173 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 221109009174 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 221109009175 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 221109009176 rod shape-determining protein Mbl; Provisional; Region: PRK13928 221109009177 MreB and similar proteins; Region: MreB_like; cd10225 221109009178 nucleotide binding site [chemical binding]; other site 221109009179 Mg binding site [ion binding]; other site 221109009180 putative protofilament interaction site [polypeptide binding]; other site 221109009181 RodZ interaction site [polypeptide binding]; other site 221109009182 Stage III sporulation protein D; Region: SpoIIID; pfam12116 221109009183 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 221109009184 Peptidase family M23; Region: Peptidase_M23; pfam01551 221109009185 stage II sporulation protein D; Region: spore_II_D; TIGR02870 221109009186 Stage II sporulation protein; Region: SpoIID; pfam08486 221109009187 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 221109009188 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109009189 Walker A/P-loop; other site 221109009190 ATP binding site [chemical binding]; other site 221109009191 Q-loop/lid; other site 221109009192 ABC transporter signature motif; other site 221109009193 Walker B; other site 221109009194 D-loop; other site 221109009195 H-loop/switch region; other site 221109009196 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109009197 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 221109009198 NlpC/P60 family; Region: NLPC_P60; pfam00877 221109009199 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 221109009200 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 221109009201 active site 221109009202 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 221109009203 dimer interface [polypeptide binding]; other site 221109009204 catalytic triad [active] 221109009205 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 221109009206 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 221109009207 peptide binding site [polypeptide binding]; other site 221109009208 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 221109009209 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109009210 Walker A/P-loop; other site 221109009211 ATP binding site [chemical binding]; other site 221109009212 Q-loop/lid; other site 221109009213 ABC transporter signature motif; other site 221109009214 Walker B; other site 221109009215 D-loop; other site 221109009216 H-loop/switch region; other site 221109009217 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109009218 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 221109009219 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 221109009220 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 221109009221 dimer interface [polypeptide binding]; other site 221109009222 conserved gate region; other site 221109009223 putative PBP binding loops; other site 221109009224 ABC-ATPase subunit interface; other site 221109009225 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 221109009226 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 221109009227 dimer interface [polypeptide binding]; other site 221109009228 conserved gate region; other site 221109009229 putative PBP binding loops; other site 221109009230 ABC-ATPase subunit interface; other site 221109009231 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 221109009232 SxDxEG motif; other site 221109009233 active site 221109009234 metal binding site [ion binding]; metal-binding site 221109009235 homopentamer interface [polypeptide binding]; other site 221109009236 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 221109009237 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 221109009238 hinge; other site 221109009239 active site 221109009240 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 221109009241 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 221109009242 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 221109009243 gamma subunit interface [polypeptide binding]; other site 221109009244 epsilon subunit interface [polypeptide binding]; other site 221109009245 LBP interface [polypeptide binding]; other site 221109009246 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 221109009247 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 221109009248 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 221109009249 alpha subunit interaction interface [polypeptide binding]; other site 221109009250 Walker A motif; other site 221109009251 ATP binding site [chemical binding]; other site 221109009252 Walker B motif; other site 221109009253 inhibitor binding site; inhibition site 221109009254 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 221109009255 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 221109009256 core domain interface [polypeptide binding]; other site 221109009257 delta subunit interface [polypeptide binding]; other site 221109009258 epsilon subunit interface [polypeptide binding]; other site 221109009259 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 221109009260 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 221109009261 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 221109009262 beta subunit interaction interface [polypeptide binding]; other site 221109009263 Walker A motif; other site 221109009264 ATP binding site [chemical binding]; other site 221109009265 Walker B motif; other site 221109009266 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 221109009267 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 221109009268 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 221109009269 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 221109009270 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 221109009271 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 221109009272 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 221109009273 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 221109009274 ATP synthase I chain; Region: ATP_synt_I; pfam03899 221109009275 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 221109009276 putative active site [active] 221109009277 catalytic triad [active] 221109009278 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 221109009279 putative integrin binding motif; other site 221109009280 PA/protease domain interface [polypeptide binding]; other site 221109009281 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 221109009282 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 221109009283 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221109009284 active site 221109009285 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 221109009286 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 221109009287 dimer interface [polypeptide binding]; other site 221109009288 active site 221109009289 glycine-pyridoxal phosphate binding site [chemical binding]; other site 221109009290 folate binding site [chemical binding]; other site 221109009291 hypothetical protein; Provisional; Region: PRK13690 221109009292 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 221109009293 dimerization interface [polypeptide binding]; other site 221109009294 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 221109009295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 221109009296 dimer interface [polypeptide binding]; other site 221109009297 putative CheW interface [polypeptide binding]; other site 221109009298 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 221109009299 Low molecular weight phosphatase family; Region: LMWPc; cd00115 221109009300 active site 221109009301 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 221109009302 Domain of unknown function DUF; Region: DUF204; pfam02659 221109009303 Domain of unknown function DUF; Region: DUF204; pfam02659 221109009304 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 221109009305 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 221109009306 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 221109009307 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 221109009308 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 221109009309 S-adenosylmethionine binding site [chemical binding]; other site 221109009310 peptide chain release factor 1; Validated; Region: prfA; PRK00591 221109009311 This domain is found in peptide chain release factors; Region: PCRF; smart00937 221109009312 RF-1 domain; Region: RF-1; pfam00472 221109009313 thymidine kinase; Provisional; Region: PRK04296 221109009314 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 221109009315 transcription termination factor Rho; Provisional; Region: rho; PRK09376 221109009316 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 221109009317 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 221109009318 RNA binding site [nucleotide binding]; other site 221109009319 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 221109009320 multimer interface [polypeptide binding]; other site 221109009321 Walker A motif; other site 221109009322 ATP binding site [chemical binding]; other site 221109009323 Walker B motif; other site 221109009324 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 221109009325 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 221109009326 putative active site [active] 221109009327 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 221109009328 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 221109009329 hinge; other site 221109009330 active site 221109009331 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 221109009332 active site 221109009333 intersubunit interactions; other site 221109009334 catalytic residue [active] 221109009335 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 221109009336 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 221109009337 intersubunit interface [polypeptide binding]; other site 221109009338 active site 221109009339 zinc binding site [ion binding]; other site 221109009340 Na+ binding site [ion binding]; other site 221109009341 Response regulator receiver domain; Region: Response_reg; pfam00072 221109009342 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 221109009343 active site 221109009344 phosphorylation site [posttranslational modification] 221109009345 intermolecular recognition site; other site 221109009346 dimerization interface [polypeptide binding]; other site 221109009347 CTP synthetase; Validated; Region: pyrG; PRK05380 221109009348 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 221109009349 Catalytic site [active] 221109009350 active site 221109009351 UTP binding site [chemical binding]; other site 221109009352 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 221109009353 active site 221109009354 putative oxyanion hole; other site 221109009355 catalytic triad [active] 221109009356 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 221109009357 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109009358 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109009359 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109009360 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 221109009361 FAD binding site [chemical binding]; other site 221109009362 homotetramer interface [polypeptide binding]; other site 221109009363 substrate binding pocket [chemical binding]; other site 221109009364 catalytic base [active] 221109009365 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 221109009366 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 221109009367 FAD binding site [chemical binding]; other site 221109009368 homotetramer interface [polypeptide binding]; other site 221109009369 substrate binding pocket [chemical binding]; other site 221109009370 catalytic base [active] 221109009371 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 221109009372 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 221109009373 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 221109009374 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 221109009375 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 221109009376 dimer interface [polypeptide binding]; other site 221109009377 active site 221109009378 Protein of unknown function (DUF996); Region: DUF996; pfam06195 221109009379 4Fe-4S binding domain; Region: Fer4_2; pfam12797 221109009380 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 221109009381 Cysteine-rich domain; Region: CCG; pfam02754 221109009382 Cysteine-rich domain; Region: CCG; pfam02754 221109009383 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 221109009384 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 221109009385 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 221109009386 active site 221109009387 HIGH motif; other site 221109009388 KMSK motif region; other site 221109009389 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 221109009390 tRNA binding surface [nucleotide binding]; other site 221109009391 anticodon binding site; other site 221109009392 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 221109009393 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 221109009394 Transglycosylase; Region: Transgly; pfam00912 221109009395 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 221109009396 YwhD family; Region: YwhD; pfam08741 221109009397 Uncharacterized conserved protein [Function unknown]; Region: COG3465 221109009398 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 221109009399 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221109009400 Zn2+ binding site [ion binding]; other site 221109009401 Mg2+ binding site [ion binding]; other site 221109009402 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 221109009403 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 221109009404 putative heme peroxidase; Provisional; Region: PRK12276 221109009405 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 221109009406 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 221109009407 spore coat protein GerQ; Region: spore_gerQ; TIGR02728 221109009408 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 221109009409 Uncharacterized conserved protein [Function unknown]; Region: COG3937 221109009410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 221109009411 Nucleoside recognition; Region: Gate; pfam07670 221109009412 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 221109009413 Acyltransferase family; Region: Acyl_transf_3; pfam01757 221109009414 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 221109009415 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 221109009416 putative DNA binding site [nucleotide binding]; other site 221109009417 putative homodimer interface [polypeptide binding]; other site 221109009418 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK09633 221109009419 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 221109009420 active site 221109009421 DNA binding site [nucleotide binding] 221109009422 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_3; cd04866 221109009423 nucleotide binding site [chemical binding]; other site 221109009424 peroxiredoxin, SACOL1771 subfamily; Region: perox_SACOL1771; TIGR03563 221109009425 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 221109009426 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 221109009427 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 221109009428 active site 221109009429 substrate binding site [chemical binding]; other site 221109009430 metal binding site [ion binding]; metal-binding site 221109009431 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 221109009432 Domain of unknown function DUF20; Region: UPF0118; pfam01594 221109009433 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 221109009434 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 221109009435 TrkA-N domain; Region: TrkA_N; pfam02254 221109009436 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 221109009437 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 221109009438 ATP binding site [chemical binding]; other site 221109009439 putative Mg++ binding site [ion binding]; other site 221109009440 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 221109009441 nucleotide binding region [chemical binding]; other site 221109009442 ATP-binding site [chemical binding]; other site 221109009443 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 221109009444 HRDC domain; Region: HRDC; pfam00570 221109009445 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 221109009446 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 221109009447 Predicted transcriptional regulators [Transcription]; Region: COG1733 221109009448 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 221109009449 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 221109009450 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 221109009451 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 221109009452 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 221109009453 putative active site [active] 221109009454 catalytic site [active] 221109009455 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 221109009456 putative active site [active] 221109009457 catalytic site [active] 221109009458 methionine gamma-lyase; Provisional; Region: PRK06767 221109009459 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 221109009460 homodimer interface [polypeptide binding]; other site 221109009461 substrate-cofactor binding pocket; other site 221109009462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109009463 catalytic residue [active] 221109009464 Predicted permeases [General function prediction only]; Region: RarD; COG2962 221109009465 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 221109009466 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 221109009467 homodimer interface [polypeptide binding]; other site 221109009468 substrate-cofactor binding pocket; other site 221109009469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109009470 catalytic residue [active] 221109009471 Members of the SGNH-hydrolase superfamily, 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 hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 221109009472 active site 221109009473 catalytic triad [active] 221109009474 oxyanion hole [active] 221109009475 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 221109009476 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 221109009477 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 221109009478 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 221109009479 Walker A/P-loop; other site 221109009480 ATP binding site [chemical binding]; other site 221109009481 Q-loop/lid; other site 221109009482 ABC transporter signature motif; other site 221109009483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109009484 Walker B; other site 221109009485 D-loop; other site 221109009486 H-loop/switch region; other site 221109009487 ABC transporter; Region: ABC_tran_2; pfam12848 221109009488 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 221109009489 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 221109009490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109009491 NAD(P) binding site [chemical binding]; other site 221109009492 active site 221109009493 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 221109009494 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 221109009495 substrate-cofactor binding pocket; other site 221109009496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221109009497 catalytic residue [active] 221109009498 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109009499 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 221109009500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 221109009501 Predicted secreted protein [Function unknown]; Region: COG4086 221109009502 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 221109009503 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 221109009504 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221109009505 putative substrate translocation pore; other site 221109009506 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 221109009507 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 221109009508 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 221109009509 dimer interface [polypeptide binding]; other site 221109009510 active site 221109009511 metal binding site [ion binding]; metal-binding site 221109009512 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 221109009513 homotrimer interaction site [polypeptide binding]; other site 221109009514 putative active site [active] 221109009515 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 221109009516 N-acetyl-D-glucosamine binding site [chemical binding]; other site 221109009517 catalytic residue [active] 221109009518 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 221109009519 putative efflux protein, MATE family; Region: matE; TIGR00797 221109009520 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 221109009521 DctM-like transporters; Region: DctM; pfam06808 221109009522 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 221109009523 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 221109009524 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 221109009525 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 221109009526 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 221109009527 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 221109009528 dimer interface [polypeptide binding]; other site 221109009529 conserved gate region; other site 221109009530 putative PBP binding loops; other site 221109009531 ABC-ATPase subunit interface; other site 221109009532 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 221109009533 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 221109009534 dimer interface [polypeptide binding]; other site 221109009535 conserved gate region; other site 221109009536 putative PBP binding loops; other site 221109009537 ABC-ATPase subunit interface; other site 221109009538 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 221109009539 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109009540 Walker A/P-loop; other site 221109009541 ATP binding site [chemical binding]; other site 221109009542 Q-loop/lid; other site 221109009543 ABC transporter signature motif; other site 221109009544 Walker B; other site 221109009545 D-loop; other site 221109009546 H-loop/switch region; other site 221109009547 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109009548 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 221109009549 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 221109009550 Walker A/P-loop; other site 221109009551 ATP binding site [chemical binding]; other site 221109009552 Q-loop/lid; other site 221109009553 ABC transporter signature motif; other site 221109009554 Walker B; other site 221109009555 D-loop; other site 221109009556 H-loop/switch region; other site 221109009557 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 221109009558 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 221109009559 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221109009560 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 221109009561 SWIM zinc finger; Region: SWIM; pfam04434 221109009562 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 221109009563 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 221109009564 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 221109009565 ATP binding site [chemical binding]; other site 221109009566 putative Mg++ binding site [ion binding]; other site 221109009567 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 221109009568 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 221109009569 nucleotide binding region [chemical binding]; other site 221109009570 ATP-binding site [chemical binding]; other site 221109009571 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 221109009572 putative transporter; Provisional; Region: PRK12382 221109009573 putative substrate translocation pore; other site 221109009574 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 221109009575 ATP-grasp domain; Region: ATP-grasp_4; cl17255 221109009576 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 221109009577 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 221109009578 active site 221109009579 dimer interface [polypeptide binding]; other site 221109009580 non-prolyl cis peptide bond; other site 221109009581 insertion regions; other site 221109009582 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 221109009583 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109009584 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 221109009585 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 221109009586 E-class dimer interface [polypeptide binding]; other site 221109009587 P-class dimer interface [polypeptide binding]; other site 221109009588 active site 221109009589 Cu2+ binding site [ion binding]; other site 221109009590 Zn2+ binding site [ion binding]; other site 221109009591 Predicted membrane protein [Function unknown]; Region: COG2259 221109009592 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 221109009593 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 221109009594 Walker A/P-loop; other site 221109009595 ATP binding site [chemical binding]; other site 221109009596 Q-loop/lid; other site 221109009597 ABC transporter signature motif; other site 221109009598 Walker B; other site 221109009599 D-loop; other site 221109009600 H-loop/switch region; other site 221109009601 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 221109009602 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 221109009603 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 221109009604 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 221109009605 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109009606 Bacterial SH3 domain; Region: SH3_3; pfam08239 221109009607 Bacterial SH3 domain homologues; Region: SH3b; smart00287 221109009608 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 221109009609 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 221109009610 active site 221109009611 metal binding site [ion binding]; metal-binding site 221109009612 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 221109009613 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 221109009614 dimer interface [polypeptide binding]; other site 221109009615 putative radical transfer pathway; other site 221109009616 diiron center [ion binding]; other site 221109009617 tyrosyl radical; other site 221109009618 ribonucleotide reductase-associated flavodoxin, putative; Region: flav_RNR; TIGR01754 221109009619 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 221109009620 Class I ribonucleotide reductase; Region: RNR_I; cd01679 221109009621 active site 221109009622 dimer interface [polypeptide binding]; other site 221109009623 catalytic residues [active] 221109009624 effector binding site; other site 221109009625 R2 peptide binding site; other site 221109009626 Predicted membrane protein [Function unknown]; Region: COG2323 221109009627 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 221109009628 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109009629 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 221109009630 DNA binding residues [nucleotide binding] 221109009631 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 221109009632 Mg binding site [ion binding]; other site 221109009633 nucleotide binding site [chemical binding]; other site 221109009634 putative protofilament interface [polypeptide binding]; other site 221109009635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 221109009636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 221109009637 metal binding site [ion binding]; metal-binding site 221109009638 active site 221109009639 I-site; other site 221109009640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109009641 Coenzyme A binding pocket [chemical binding]; other site 221109009642 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 221109009643 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 221109009644 FeS/SAM binding site; other site 221109009645 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 221109009646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 221109009647 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 221109009648 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 221109009649 active site 221109009650 dimer interface [polypeptide binding]; other site 221109009651 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 221109009652 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 221109009653 active site 221109009654 FMN binding site [chemical binding]; other site 221109009655 substrate binding site [chemical binding]; other site 221109009656 3Fe-4S cluster binding site [ion binding]; other site 221109009657 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 221109009658 domain interface; other site 221109009659 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 221109009660 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 221109009661 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 221109009662 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 221109009663 Cytochrome P450; Region: p450; cl12078 221109009664 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 221109009665 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109009666 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12586 221109009667 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 221109009668 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 221109009669 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 221109009670 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 221109009671 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 221109009672 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 221109009673 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 221109009674 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 221109009675 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 221109009676 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 221109009677 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 221109009678 Ligand Binding Site [chemical binding]; other site 221109009679 Predicted amidohydrolase [General function prediction only]; Region: COG0388 221109009680 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 221109009681 putative active site [active] 221109009682 catalytic triad [active] 221109009683 putative dimer interface [polypeptide binding]; other site 221109009684 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 221109009685 putative active site [active] 221109009686 putative CoA binding site [chemical binding]; other site 221109009687 nudix motif; other site 221109009688 metal binding site [ion binding]; metal-binding site 221109009689 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 221109009690 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 221109009691 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 221109009692 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 221109009693 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 221109009694 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 221109009695 LytTr DNA-binding domain; Region: LytTR; pfam04397 221109009696 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 221109009697 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 221109009698 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109009699 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 221109009700 N- and C-terminal domain interface [polypeptide binding]; other site 221109009701 D-xylulose kinase; Region: XylB; TIGR01312 221109009702 active site 221109009703 MgATP binding site [chemical binding]; other site 221109009704 catalytic site [active] 221109009705 metal binding site [ion binding]; metal-binding site 221109009706 xylulose binding site [chemical binding]; other site 221109009707 homodimer interface [polypeptide binding]; other site 221109009708 xylose isomerase; Provisional; Region: PRK05474 221109009709 xylose isomerase; Region: xylose_isom_A; TIGR02630 221109009710 Protein of unknown function, DUF624; Region: DUF624; cl02369 221109009711 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109009712 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 221109009713 dimer interface [polypeptide binding]; other site 221109009714 conserved gate region; other site 221109009715 putative PBP binding loops; other site 221109009716 ABC-ATPase subunit interface; other site 221109009717 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 221109009718 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 221109009719 dimer interface [polypeptide binding]; other site 221109009720 putative PBP binding loops; other site 221109009721 ABC-ATPase subunit interface; other site 221109009722 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 221109009723 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109009724 Transcriptional regulators [Transcription]; Region: MarR; COG1846 221109009725 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 221109009726 non-specific DNA interactions [nucleotide binding]; other site 221109009727 DNA binding site [nucleotide binding] 221109009728 sequence specific DNA binding site [nucleotide binding]; other site 221109009729 putative cAMP binding site [chemical binding]; other site 221109009730 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221109009731 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 221109009732 nucleotide binding site [chemical binding]; other site 221109009733 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 221109009734 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 221109009735 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 221109009736 inhibitor binding site; inhibition site 221109009737 active site 221109009738 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 221109009739 dimer interface [polypeptide binding]; other site 221109009740 FMN binding site [chemical binding]; other site 221109009741 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 221109009742 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221109009743 active site 221109009744 motif I; other site 221109009745 motif II; other site 221109009746 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 221109009747 argininosuccinate lyase; Provisional; Region: PRK00855 221109009748 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 221109009749 active sites [active] 221109009750 tetramer interface [polypeptide binding]; other site 221109009751 argininosuccinate synthase; Provisional; Region: PRK13820 221109009752 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 221109009753 ANP binding site [chemical binding]; other site 221109009754 Substrate Binding Site II [chemical binding]; other site 221109009755 Substrate Binding Site I [chemical binding]; other site 221109009756 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 221109009757 NADH(P)-binding; Region: NAD_binding_10; pfam13460 221109009758 NAD(P) binding site [chemical binding]; other site 221109009759 putative active site [active] 221109009760 LrgB-like family; Region: LrgB; pfam04172 221109009761 LrgA family; Region: LrgA; pfam03788 221109009762 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 221109009763 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 221109009764 Walker A/P-loop; other site 221109009765 ATP binding site [chemical binding]; other site 221109009766 Q-loop/lid; other site 221109009767 ABC transporter signature motif; other site 221109009768 Walker B; other site 221109009769 D-loop; other site 221109009770 H-loop/switch region; other site 221109009771 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 221109009772 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 221109009773 dimer interface [polypeptide binding]; other site 221109009774 conserved gate region; other site 221109009775 putative PBP binding loops; other site 221109009776 ABC-ATPase subunit interface; other site 221109009777 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 221109009778 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 221109009779 dimer interface [polypeptide binding]; other site 221109009780 conserved gate region; other site 221109009781 putative PBP binding loops; other site 221109009782 ABC-ATPase subunit interface; other site 221109009783 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 221109009784 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 221109009785 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 221109009786 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 221109009787 Walker A/P-loop; other site 221109009788 ATP binding site [chemical binding]; other site 221109009789 Q-loop/lid; other site 221109009790 ABC transporter signature motif; other site 221109009791 Walker B; other site 221109009792 D-loop; other site 221109009793 H-loop/switch region; other site 221109009794 DevC protein; Region: devC; TIGR01185 221109009795 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 221109009796 FtsX-like permease family; Region: FtsX; pfam02687 221109009797 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 221109009798 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 221109009799 non-specific DNA binding site [nucleotide binding]; other site 221109009800 salt bridge; other site 221109009801 sequence-specific DNA binding site [nucleotide binding]; other site 221109009802 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 221109009803 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 221109009804 active site 221109009805 metal binding site [ion binding]; metal-binding site 221109009806 Sporulation related domain; Region: SPOR; pfam05036 221109009807 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 221109009808 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 221109009809 YhhN-like protein; Region: YhhN; pfam07947 221109009810 Sulphur transport; Region: Sulf_transp; pfam04143 221109009811 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 221109009812 Predicted flavoprotein [General function prediction only]; Region: COG0431 221109009813 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109009814 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 221109009815 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 221109009816 DNA binding site [nucleotide binding] 221109009817 active site 221109009818 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 221109009819 alanine racemase; Reviewed; Region: alr; PRK00053 221109009820 active site 221109009821 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221109009822 dimer interface [polypeptide binding]; other site 221109009823 substrate binding site [chemical binding]; other site 221109009824 catalytic residues [active] 221109009825 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 221109009826 ArsC family; Region: ArsC; pfam03960 221109009827 putative catalytic residues [active] 221109009828 thiol/disulfide switch; other site 221109009829 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109009830 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109009831 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 221109009832 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 221109009833 Walker A/P-loop; other site 221109009834 ATP binding site [chemical binding]; other site 221109009835 Q-loop/lid; other site 221109009836 ABC transporter signature motif; other site 221109009837 Walker B; other site 221109009838 D-loop; other site 221109009839 H-loop/switch region; other site 221109009840 TOBE domain; Region: TOBE_2; pfam08402 221109009841 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 221109009842 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 221109009843 dimer interface [polypeptide binding]; other site 221109009844 conserved gate region; other site 221109009845 putative PBP binding loops; other site 221109009846 ABC-ATPase subunit interface; other site 221109009847 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 221109009848 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 221109009849 dimer interface [polypeptide binding]; other site 221109009850 putative PBP binding loops; other site 221109009851 ABC-ATPase subunit interface; other site 221109009852 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 221109009853 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 221109009854 heat shock protein 90; Provisional; Region: PRK05218 221109009855 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 221109009856 ATP binding site [chemical binding]; other site 221109009857 Mg2+ binding site [ion binding]; other site 221109009858 G-X-G motif; other site 221109009859 NAD-dependent deacetylase; Provisional; Region: PRK00481 221109009860 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 221109009861 NAD+ binding site [chemical binding]; other site 221109009862 substrate binding site [chemical binding]; other site 221109009863 Zn binding site [ion binding]; other site 221109009864 YpjP-like protein; Region: YpjP; pfam14005 221109009865 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 221109009866 putative dimer interface [polypeptide binding]; other site 221109009867 catalytic triad [active] 221109009868 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 221109009869 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 221109009870 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 221109009871 Walker A/P-loop; other site 221109009872 ATP binding site [chemical binding]; other site 221109009873 Q-loop/lid; other site 221109009874 ABC transporter signature motif; other site 221109009875 Walker B; other site 221109009876 D-loop; other site 221109009877 H-loop/switch region; other site 221109009878 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 221109009879 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 221109009880 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 221109009881 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 221109009882 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109009883 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 221109009884 metal binding site [ion binding]; metal-binding site 221109009885 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 221109009886 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 221109009887 H+ Antiporter protein; Region: 2A0121; TIGR00900 221109009888 putative substrate translocation pore; other site 221109009889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109009890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109009891 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 221109009892 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 221109009893 reactive center loop; other site 221109009894 serpin-like protein; Provisional; Region: PHA02660 221109009895 SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational...; Region: bacterial_SERPIN; cd02049 221109009896 reactive center loop; other site 221109009897 Predicted membrane protein [Function unknown]; Region: COG4270 221109009898 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 221109009899 dimer interface [polypeptide binding]; other site 221109009900 putative tRNA-binding site [nucleotide binding]; other site 221109009901 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 221109009902 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 221109009903 Walker A/P-loop; other site 221109009904 ATP binding site [chemical binding]; other site 221109009905 Q-loop/lid; other site 221109009906 ABC transporter signature motif; other site 221109009907 Walker B; other site 221109009908 D-loop; other site 221109009909 H-loop/switch region; other site 221109009910 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 221109009911 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 221109009912 active site 221109009913 NTP binding site [chemical binding]; other site 221109009914 metal binding triad [ion binding]; metal-binding site 221109009915 antibiotic binding site [chemical binding]; other site 221109009916 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 221109009917 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' 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; Region: MPH2' cd05152 221109009918 Phosphotransferase enzyme family; Region: APH; pfam01636 221109009919 putative active site [active] 221109009920 putative substrate binding site [chemical binding]; other site 221109009921 ATP binding site [chemical binding]; other site 221109009922 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221109009923 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 221109009924 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 221109009925 dimerization interface [polypeptide binding]; other site 221109009926 hypothetical protein; Provisional; Region: PRK09739 221109009927 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109009928 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109009929 classical (c) SDRs; Region: SDR_c; cd05233 221109009930 NAD(P) binding site [chemical binding]; other site 221109009931 active site 221109009932 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 221109009933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109009934 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 221109009935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221109009936 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221109009937 Coenzyme A binding pocket [chemical binding]; other site 221109009938 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 221109009939 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 221109009940 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 221109009941 fructuronate transporter; Provisional; Region: PRK10034; cl15264 221109009942 GntP family permease; Region: GntP_permease; pfam02447 221109009943 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 221109009944 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 221109009945 N- and C-terminal domain interface [polypeptide binding]; other site 221109009946 active site 221109009947 catalytic site [active] 221109009948 metal binding site [ion binding]; metal-binding site 221109009949 carbohydrate binding site [chemical binding]; other site 221109009950 ATP binding site [chemical binding]; other site 221109009951 Transcriptional regulators [Transcription]; Region: GntR; COG1802 221109009952 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109009953 DNA-binding site [nucleotide binding]; DNA binding site 221109009954 FCD domain; Region: FCD; pfam07729 221109009955 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 221109009956 active site 221109009957 catalytic site [active] 221109009958 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 221109009959 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 221109009960 active site residue [active] 221109009961 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 221109009962 active site residue [active] 221109009963 LysE type translocator; Region: LysE; pfam01810 221109009964 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 221109009965 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 221109009966 Spore germination protein; Region: Spore_permease; cl17796 221109009967 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 221109009968 Amidinotransferase; Region: Amidinotransf; cl12043 221109009969 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 221109009970 Uncharacterized conserved protein [Function unknown]; Region: COG3402 221109009971 Predicted membrane protein [Function unknown]; Region: COG3428 221109009972 Bacterial PH domain; Region: DUF304; pfam03703 221109009973 Bacterial PH domain; Region: DUF304; pfam03703 221109009974 Bacterial PH domain; Region: DUF304; pfam03703 221109009975 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 221109009976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109009977 DNA-binding site [nucleotide binding]; DNA binding site 221109009978 UTRA domain; Region: UTRA; pfam07702 221109009979 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221109009980 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 221109009981 substrate binding site [chemical binding]; other site 221109009982 ATP binding site [chemical binding]; other site 221109009983 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 221109009984 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 221109009985 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221109009986 catalytic residue [active] 221109009987 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 221109009988 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 221109009989 active site 221109009990 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 221109009991 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 221109009992 Predicted integral membrane protein [Function unknown]; Region: COG5578 221109009993 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109009994 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 221109009995 dimer interface [polypeptide binding]; other site 221109009996 conserved gate region; other site 221109009997 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 221109009998 ABC-ATPase subunit interface; other site 221109009999 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 221109010000 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 221109010001 ABC-ATPase subunit interface; other site 221109010002 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 221109010003 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109010004 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 221109010005 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 221109010006 Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine...; Region: GH20_GcnA-like; cd06565 221109010007 putative active site [active] 221109010008 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 221109010009 homopentamer interface [polypeptide binding]; other site 221109010010 active site 221109010011 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 221109010012 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 221109010013 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 221109010014 Lumazine binding domain; Region: Lum_binding; pfam00677 221109010015 Lumazine binding domain; Region: Lum_binding; pfam00677 221109010016 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 221109010017 pentamer interface [polypeptide binding]; other site 221109010018 dodecaamer interface [polypeptide binding]; other site 221109010019 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 221109010020 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 221109010021 Malic enzyme, N-terminal domain; Region: malic; pfam00390 221109010022 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 221109010023 putative NAD(P) binding site [chemical binding]; other site 221109010024 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 221109010025 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 221109010026 active site 221109010027 phosphorylation site [posttranslational modification] 221109010028 intermolecular recognition site; other site 221109010029 dimerization interface [polypeptide binding]; other site 221109010030 HTH domain; Region: HTH_11; cl17392 221109010031 sensory histidine kinase DcuS; Provisional; Region: PRK11086 221109010032 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 221109010033 ATP binding site [chemical binding]; other site 221109010034 Mg2+ binding site [ion binding]; other site 221109010035 G-X-G motif; other site 221109010036 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 221109010037 Z1 domain; Region: Z1; pfam10593 221109010038 Uncharacterized membrane protein [Function unknown]; Region: COG3949 221109010039 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 221109010040 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 221109010041 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 221109010042 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 221109010043 hexamer interface [polypeptide binding]; other site 221109010044 ligand binding site [chemical binding]; other site 221109010045 putative active site [active] 221109010046 NAD(P) binding site [chemical binding]; other site 221109010047 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 221109010048 alanine racemase; Reviewed; Region: alr; PRK00053 221109010049 active site 221109010050 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221109010051 dimer interface [polypeptide binding]; other site 221109010052 substrate binding site [chemical binding]; other site 221109010053 catalytic residues [active] 221109010054 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 221109010055 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 221109010056 Predicted transcriptional regulators [Transcription]; Region: COG1695 221109010057 Transcriptional regulator PadR-like family; Region: PadR; cl17335 221109010058 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 221109010059 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 221109010060 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 221109010061 active site 221109010062 catalytic residues [active] 221109010063 metal binding site [ion binding]; metal-binding site 221109010064 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 221109010065 CoA-transferase family III; Region: CoA_transf_3; pfam02515 221109010066 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 221109010067 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 221109010068 Transcriptional regulator [Transcription]; Region: IclR; COG1414 221109010069 non-specific DNA interactions [nucleotide binding]; other site 221109010070 DNA binding site [nucleotide binding] 221109010071 sequence specific DNA binding site [nucleotide binding]; other site 221109010072 putative cAMP binding site [chemical binding]; other site 221109010073 Bacterial transcriptional regulator; Region: IclR; pfam01614 221109010074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 221109010075 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 221109010076 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 221109010077 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 221109010078 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 221109010079 PYR/PP interface [polypeptide binding]; other site 221109010080 dimer interface [polypeptide binding]; other site 221109010081 TPP binding site [chemical binding]; other site 221109010082 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 221109010083 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 221109010084 TPP-binding site [chemical binding]; other site 221109010085 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 221109010086 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221109010087 NAD(P) binding site [chemical binding]; other site 221109010088 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221109010089 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 221109010090 NAD(P) binding site [chemical binding]; other site 221109010091 catalytic residues [active] 221109010092 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010093 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010094 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010095 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109010096 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109010097 DNA binding site [nucleotide binding] 221109010098 domain linker motif; other site 221109010099 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 221109010100 putative ligand binding site [chemical binding]; other site 221109010101 putative dimerization interface [polypeptide binding]; other site 221109010102 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 221109010103 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 221109010104 active site 221109010105 catalytic residue [active] 221109010106 dimer interface [polypeptide binding]; other site 221109010107 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 221109010108 RDD family; Region: RDD; pfam06271 221109010109 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 221109010110 putative active site [active] 221109010111 catalytic residue [active] 221109010112 Protein of unknown function (DUF1307); Region: DUF1307; pfam06998 221109010113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 221109010114 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 221109010115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 221109010116 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 221109010117 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 221109010118 active site 221109010119 phosphorylation site [posttranslational modification] 221109010120 intermolecular recognition site; other site 221109010121 dimerization interface [polypeptide binding]; other site 221109010122 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 221109010123 DNA-binding interface [nucleotide binding]; DNA binding site 221109010124 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 221109010125 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 221109010126 putative active site [active] 221109010127 heme pocket [chemical binding]; other site 221109010128 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 221109010129 ATP binding site [chemical binding]; other site 221109010130 Mg2+ binding site [ion binding]; other site 221109010131 G-X-G motif; other site 221109010132 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 221109010133 Acylphosphatase; Region: Acylphosphatase; pfam00708 221109010134 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 221109010135 intersubunit interface [polypeptide binding]; other site 221109010136 active site 221109010137 Zn2+ binding site [ion binding]; other site 221109010138 DctM-like transporters; Region: DctM; pfam06808 221109010139 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 221109010140 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 221109010141 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221109010142 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 221109010143 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221109010144 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 221109010145 NAD(P) binding site [chemical binding]; other site 221109010146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221109010147 DNA-binding site [nucleotide binding]; DNA binding site 221109010148 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 221109010149 FCD domain; Region: FCD; pfam07729 221109010150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 221109010151 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010152 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010153 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010154 hydroperoxidase II; Provisional; Region: katE; PRK11249 221109010155 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 221109010156 tetramer interface [polypeptide binding]; other site 221109010157 heme binding pocket [chemical binding]; other site 221109010158 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 221109010159 domain interactions; other site 221109010160 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 221109010161 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 221109010162 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 221109010163 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 221109010164 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 221109010165 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 221109010166 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 221109010167 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 221109010168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 221109010169 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 221109010170 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 221109010171 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 221109010172 putative DNA binding site [nucleotide binding]; other site 221109010173 putative Zn2+ binding site [ion binding]; other site 221109010174 AsnC family; Region: AsnC_trans_reg; pfam01037 221109010175 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 221109010176 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 221109010177 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 221109010178 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 221109010179 oligomerization interface [polypeptide binding]; other site 221109010180 active site 221109010181 metal binding site [ion binding]; metal-binding site 221109010182 pantoate--beta-alanine ligase; Region: panC; TIGR00018 221109010183 Pantoate-beta-alanine ligase; Region: PanC; cd00560 221109010184 active site 221109010185 ATP-binding site [chemical binding]; other site 221109010186 pantoate-binding site; other site 221109010187 HXXH motif; other site 221109010188 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 221109010189 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 221109010190 Chromate transporter; Region: Chromate_transp; pfam02417 221109010191 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 221109010192 Predicted transcriptional regulators [Transcription]; Region: COG1695 221109010193 Ion channel; Region: Ion_trans_2; pfam07885 221109010194 TrkA-N domain; Region: TrkA_N; pfam02254 221109010195 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 221109010196 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 221109010197 dimer interface [polypeptide binding]; other site 221109010198 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109010199 NAD binding site [chemical binding]; other site 221109010200 substrate binding site [chemical binding]; other site 221109010201 oxidoreductase; Provisional; Region: PRK07985 221109010202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109010203 NAD(P) binding site [chemical binding]; other site 221109010204 active site 221109010205 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 221109010206 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 221109010207 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109010208 YtkA-like; Region: YtkA; pfam13115 221109010209 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221109010210 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 221109010211 putative metal binding site [ion binding]; other site 221109010212 dimer interface [polypeptide binding]; other site 221109010213 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 221109010214 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 221109010215 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 221109010216 amidohydrolase; Region: amidohydrolases; TIGR01891 221109010217 putative metal binding site [ion binding]; other site 221109010218 allantoate amidohydrolase; Reviewed; Region: PRK12893 221109010219 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 221109010220 active site 221109010221 metal binding site [ion binding]; metal-binding site 221109010222 dimer interface [polypeptide binding]; other site 221109010223 LXG domain of WXG superfamily; Region: LXG; pfam04740 221109010224 tandem five-transmembrane protein; Region: Gpos_tandem_5TM; TIGR01218 221109010225 Protein of unknown function (DUF443); Region: DUF443; pfam04276 221109010226 Protein of unknown function (DUF443); Region: DUF443; cl04467 221109010227 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 221109010228 hydrophobic ligand binding site; other site 221109010229 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 221109010230 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 221109010231 Nuclease-related domain; Region: NERD; pfam08378 221109010232 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 221109010233 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 221109010234 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 221109010235 active site 221109010236 Penicillin amidase; Region: Penicil_amidase; pfam01804 221109010237 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 221109010238 active site 221109010239 conserved hypothetical protein; Region: TIGR02246 221109010240 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 221109010241 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 221109010242 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109010243 classical (c) SDRs; Region: SDR_c; cd05233 221109010244 NAD(P) binding site [chemical binding]; other site 221109010245 active site 221109010246 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 221109010247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221109010248 NAD(P) binding site [chemical binding]; other site 221109010249 active site 221109010250 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109010251 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109010252 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 221109010253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221109010254 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 221109010255 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 221109010256 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 221109010257 classical (c) SDRs; Region: SDR_c; cd05233 221109010258 NAD(P) binding site [chemical binding]; other site 221109010259 active site 221109010260 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 221109010261 Old yellow enzyme (OYE)-related FMN binding domain, group 4. 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_4_FMN; cd04735 221109010262 putative active site [active] 221109010263 putative FMN binding site [chemical binding]; other site 221109010264 putative substrate binding site [chemical binding]; other site 221109010265 putative catalytic residue [active] 221109010266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 221109010267 CAAX protease self-immunity; Region: Abi; pfam02517 221109010268 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 221109010269 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 221109010270 DNA binding residues [nucleotide binding] 221109010271 dimer interface [polypeptide binding]; other site 221109010272 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 221109010273 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 221109010274 putative hydrophobic ligand binding site [chemical binding]; other site 221109010275 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 221109010276 DNA binding domain, excisionase family; Region: excise; TIGR01764 221109010277 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 221109010278 ABC-ATPase subunit interface; other site 221109010279 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 221109010280 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 221109010281 Walker A/P-loop; other site 221109010282 ATP binding site [chemical binding]; other site 221109010283 Q-loop/lid; other site 221109010284 ABC transporter signature motif; other site 221109010285 Walker B; other site 221109010286 D-loop; other site 221109010287 H-loop/switch region; other site 221109010288 NIL domain; Region: NIL; pfam09383 221109010289 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 221109010290 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 221109010291 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 221109010292 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 221109010293 putative active site [active] 221109010294 metal binding site [ion binding]; metal-binding site 221109010295 AIPR protein; Region: AIPR; pfam10592 221109010296 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 221109010297 non-specific DNA binding site [nucleotide binding]; other site 221109010298 salt bridge; other site 221109010299 sequence-specific DNA binding site [nucleotide binding]; other site 221109010300 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 221109010301 non-specific DNA binding site [nucleotide binding]; other site 221109010302 salt bridge; other site 221109010303 sequence-specific DNA binding site [nucleotide binding]; other site 221109010304 ComK protein; Region: ComK; cl11560 221109010305 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 221109010306 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 221109010307 cofactor binding site; other site 221109010308 DNA binding site [nucleotide binding] 221109010309 substrate interaction site [chemical binding]; other site 221109010310 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 221109010311 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 221109010312 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 221109010313 cofactor binding site; other site 221109010314 DNA binding site [nucleotide binding] 221109010315 substrate interaction site [chemical binding]; other site 221109010316 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 221109010317 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 221109010318 Z1 domain; Region: Z1; pfam10593 221109010319 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 221109010320 additional DNA contacts [nucleotide binding]; other site 221109010321 mismatch recognition site; other site 221109010322 active site 221109010323 zinc binding site [ion binding]; other site 221109010324 DNA intercalation site [nucleotide binding]; other site 221109010325 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 221109010326 Protein of unknown function (DUF867); Region: DUF867; pfam05908 221109010327 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 221109010328 Protein of unknown function (DUF454); Region: DUF454; pfam04304 221109010329 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 221109010330 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 221109010331 DNA binding residues [nucleotide binding] 221109010332 putative dimer interface [polypeptide binding]; other site 221109010333 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 221109010334 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 221109010335 potential catalytic triad [active] 221109010336 conserved cys residue [active] 221109010337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109010338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109010339 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 221109010340 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221109010341 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 221109010342 putative NAD(P) binding site [chemical binding]; other site 221109010343 catalytic Zn binding site [ion binding]; other site 221109010344 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 221109010345 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 221109010346 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 221109010347 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221109010348 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 221109010349 DNA binding residues [nucleotide binding] 221109010350 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 221109010351 Beta-lactamase; Region: Beta-lactamase; pfam00144 221109010352 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 221109010353 LXG domain of WXG superfamily; Region: LXG; pfam04740 221109010354 Predicted membrane protein [Function unknown]; Region: COG2311 221109010355 Protein of unknown function (DUF418); Region: DUF418; pfam04235 221109010356 putative oxidoreductase; Provisional; Region: PRK10206 221109010357 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010358 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010359 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 221109010360 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 221109010361 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 221109010362 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 221109010363 active pocket/dimerization site; other site 221109010364 active site 221109010365 phosphorylation site [posttranslational modification] 221109010366 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cd00001 221109010367 active site 221109010368 phosphorylation site [posttranslational modification] 221109010369 Domain of unknown function (DUF956); Region: DUF956; pfam06115 221109010370 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 221109010371 Putative esterase; Region: Esterase; pfam00756 221109010372 AAA ATPase domain; Region: AAA_16; pfam13191 221109010373 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 221109010374 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221109010375 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 221109010376 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 221109010377 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 221109010378 putative NAD(P) binding site [chemical binding]; other site 221109010379 putative active site [active] 221109010380 hypothetical protein; Provisional; Region: PRK05463 221109010381 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 221109010382 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 221109010383 TM-ABC transporter signature motif; other site 221109010384 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 221109010385 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 221109010386 TM-ABC transporter signature motif; other site 221109010387 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 221109010388 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 221109010389 Walker A/P-loop; other site 221109010390 ATP binding site [chemical binding]; other site 221109010391 Q-loop/lid; other site 221109010392 ABC transporter signature motif; other site 221109010393 Walker B; other site 221109010394 D-loop; other site 221109010395 H-loop/switch region; other site 221109010396 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 221109010397 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 221109010398 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 221109010399 ligand binding site [chemical binding]; other site 221109010400 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 221109010401 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 221109010402 intersubunit interface [polypeptide binding]; other site 221109010403 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 221109010404 aspartate racemase; Region: asp_race; TIGR00035 221109010405 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 221109010406 active site 221109010407 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 221109010408 Helix-turn-helix domain; Region: HTH_18; pfam12833 221109010409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221109010410 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010411 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010412 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010413 Protein of unknown function (DUF993); Region: DUF993; pfam06187 221109010414 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 221109010415 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 221109010416 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010417 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010418 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010419 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010420 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221109010421 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 221109010422 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 221109010423 DctM-like transporters; Region: DctM; pfam06808 221109010424 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 221109010425 Predicted membrane protein [Function unknown]; Region: COG2855 221109010426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221109010427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 221109010428 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 221109010429 putative dimerization interface [polypeptide binding]; other site 221109010430 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 221109010431 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 221109010432 active site 221109010433 FMN binding site [chemical binding]; other site 221109010434 substrate binding site [chemical binding]; other site 221109010435 3Fe-4S cluster binding site [ion binding]; other site 221109010436 pyruvate oxidase; Provisional; Region: PRK08611 221109010437 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 221109010438 PYR/PP interface [polypeptide binding]; other site 221109010439 dimer interface [polypeptide binding]; other site 221109010440 tetramer interface [polypeptide binding]; other site 221109010441 TPP binding site [chemical binding]; other site 221109010442 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 221109010443 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 221109010444 TPP-binding site [chemical binding]; other site 221109010445 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109010446 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109010447 DNA binding site [nucleotide binding] 221109010448 domain linker motif; other site 221109010449 Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_hexuronate_repressor_like; cd06272 221109010450 putative dimerization interface [polypeptide binding]; other site 221109010451 putative ligand binding site [chemical binding]; other site 221109010452 mannonate dehydratase; Provisional; Region: PRK03906 221109010453 mannonate dehydratase; Region: uxuA; TIGR00695 221109010454 D-mannonate oxidoreductase; Provisional; Region: PRK08277 221109010455 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 221109010456 putative NAD(P) binding site [chemical binding]; other site 221109010457 active site 221109010458 hypothetical protein; Provisional; Region: PRK02947 221109010459 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 221109010460 putative active site [active] 221109010461 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 221109010462 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 221109010463 active site 221109010464 P-loop; other site 221109010465 phosphorylation site [posttranslational modification] 221109010466 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 221109010467 active site 221109010468 phosphorylation site [posttranslational modification] 221109010469 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 221109010470 HTH domain; Region: HTH_11; pfam08279 221109010471 Mga helix-turn-helix domain; Region: Mga; pfam05043 221109010472 PRD domain; Region: PRD; pfam00874 221109010473 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 221109010474 active site 221109010475 P-loop; other site 221109010476 phosphorylation site [posttranslational modification] 221109010477 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 221109010478 active site 221109010479 phosphorylation site [posttranslational modification] 221109010480 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 221109010481 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 221109010482 Metal-binding active site; metal-binding site 221109010483 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010484 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010485 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010486 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010487 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010488 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010489 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109010490 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 221109010491 dimer interface [polypeptide binding]; other site 221109010492 conserved gate region; other site 221109010493 putative PBP binding loops; other site 221109010494 ABC-ATPase subunit interface; other site 221109010495 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 221109010496 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 221109010497 dimer interface [polypeptide binding]; other site 221109010498 conserved gate region; other site 221109010499 putative PBP binding loops; other site 221109010500 ABC-ATPase subunit interface; other site 221109010501 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 221109010502 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109010503 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 221109010504 dimerization interface [polypeptide binding]; other site 221109010505 putative DNA binding site [nucleotide binding]; other site 221109010506 putative Zn2+ binding site [ion binding]; other site 221109010507 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221109010508 ROK family; Region: ROK; pfam00480 221109010509 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 221109010510 binding surface 221109010511 TPR motif; other site 221109010512 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 221109010513 TPR motif; other site 221109010514 TPR repeat; Region: TPR_11; pfam13414 221109010515 binding surface 221109010516 HPr kinase/phosphorylase; Provisional; Region: PRK05428 221109010517 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 221109010518 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 221109010519 Hpr binding site; other site 221109010520 active site 221109010521 homohexamer subunit interaction site [polypeptide binding]; other site 221109010522 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 221109010523 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 221109010524 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 221109010525 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 221109010526 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 221109010527 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 221109010528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 221109010529 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 221109010530 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 221109010531 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 221109010532 P-loop, Walker A motif; other site 221109010533 Base recognition motif; other site 221109010534 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 221109010535 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 221109010536 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 221109010537 Domain of unknown function DUF21; Region: DUF21; pfam01595 221109010538 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 221109010539 Transporter associated domain; Region: CorC_HlyC; smart01091 221109010540 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 221109010541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 221109010542 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 221109010543 Protein of unknown function (DUF3889); Region: DUF3889; pfam13028 221109010544 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221109010545 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 221109010546 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 221109010547 Walker A/P-loop; other site 221109010548 ATP binding site [chemical binding]; other site 221109010549 Q-loop/lid; other site 221109010550 ABC transporter signature motif; other site 221109010551 Walker B; other site 221109010552 D-loop; other site 221109010553 H-loop/switch region; other site 221109010554 allantoate amidohydrolase; Reviewed; Region: PRK09290 221109010555 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 221109010556 active site 221109010557 metal binding site [ion binding]; metal-binding site 221109010558 dimer interface [polypeptide binding]; other site 221109010559 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 221109010560 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 221109010561 protein binding site [polypeptide binding]; other site 221109010562 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 221109010563 YycH protein; Region: YycI; pfam09648 221109010564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 221109010565 YycH protein; Region: YycH; pfam07435 221109010566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 221109010567 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 221109010568 dimerization interface [polypeptide binding]; other site 221109010569 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 221109010570 putative active site [active] 221109010571 heme pocket [chemical binding]; other site 221109010572 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 221109010573 dimer interface [polypeptide binding]; other site 221109010574 phosphorylation site [posttranslational modification] 221109010575 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 221109010576 ATP binding site [chemical binding]; other site 221109010577 Mg2+ binding site [ion binding]; other site 221109010578 G-X-G motif; other site 221109010579 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 221109010580 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 221109010581 active site 221109010582 phosphorylation site [posttranslational modification] 221109010583 intermolecular recognition site; other site 221109010584 dimerization interface [polypeptide binding]; other site 221109010585 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 221109010586 DNA binding site [nucleotide binding] 221109010587 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 221109010588 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 221109010589 GDP-binding site [chemical binding]; other site 221109010590 ACT binding site; other site 221109010591 IMP binding site; other site 221109010592 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 221109010593 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221109010594 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 221109010595 dimer interface [polypeptide binding]; other site 221109010596 conserved gate region; other site 221109010597 putative PBP binding loops; other site 221109010598 ABC-ATPase subunit interface; other site 221109010599 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 221109010600 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 221109010601 Walker A/P-loop; other site 221109010602 ATP binding site [chemical binding]; other site 221109010603 Q-loop/lid; other site 221109010604 ABC transporter signature motif; other site 221109010605 Walker B; other site 221109010606 D-loop; other site 221109010607 H-loop/switch region; other site 221109010608 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 221109010609 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 221109010610 Transcriptional regulators [Transcription]; Region: MarR; COG1846 221109010611 MarR family; Region: MarR; pfam01047 221109010612 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 221109010613 replicative DNA helicase; Provisional; Region: PRK05748 221109010614 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 221109010615 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 221109010616 Walker A motif; other site 221109010617 ATP binding site [chemical binding]; other site 221109010618 Walker B motif; other site 221109010619 DNA binding loops [nucleotide binding] 221109010620 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 221109010621 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 221109010622 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 221109010623 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 221109010624 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 221109010625 DHH family; Region: DHH; pfam01368 221109010626 DHHA1 domain; Region: DHHA1; pfam02272 221109010627 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 221109010628 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 221109010629 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 221109010630 putative active site [active] 221109010631 nucleotide binding site [chemical binding]; other site 221109010632 nudix motif; other site 221109010633 putative metal binding site [ion binding]; other site 221109010634 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221109010635 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 221109010636 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010637 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010638 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010639 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221109010640 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 221109010641 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 221109010642 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 221109010643 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 221109010644 dimer interface [polypeptide binding]; other site 221109010645 conserved gate region; other site 221109010646 putative PBP binding loops; other site 221109010647 ABC-ATPase subunit interface; other site 221109010648 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 221109010649 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 221109010650 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 221109010651 dimer interface [polypeptide binding]; other site 221109010652 conserved gate region; other site 221109010653 putative PBP binding loops; other site 221109010654 ABC-ATPase subunit interface; other site 221109010655 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 221109010656 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 221109010657 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 221109010658 classical (c) SDRs; Region: SDR_c; cd05233 221109010659 NAD(P) binding site [chemical binding]; other site 221109010660 active site 221109010661 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221109010662 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221109010663 DNA binding site [nucleotide binding] 221109010664 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 221109010665 ligand binding site [chemical binding]; other site 221109010666 dimerization interface [polypeptide binding]; other site 221109010667 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 221109010668 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 221109010669 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 221109010670 dimer interface [polypeptide binding]; other site 221109010671 ssDNA binding site [nucleotide binding]; other site 221109010672 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221109010673 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 221109010674 GTP-binding protein YchF; Reviewed; Region: PRK09601 221109010675 YchF GTPase; Region: YchF; cd01900 221109010676 G1 box; other site 221109010677 GTP/Mg2+ binding site [chemical binding]; other site 221109010678 Switch I region; other site 221109010679 G2 box; other site 221109010680 Switch II region; other site 221109010681 G3 box; other site 221109010682 G4 box; other site 221109010683 G5 box; other site 221109010684 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 221109010685 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 221109010686 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 221109010687 Mechanosensitive ion channel; Region: MS_channel; pfam00924 221109010688 Uncharacterized membrane protein [Function unknown]; Region: COG3949 221109010689 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 221109010690 Protein of unknown function (DUF554); Region: DUF554; pfam04474 221109010691 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 221109010692 ParB-like nuclease domain; Region: ParBc; pfam02195 221109010693 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 221109010694 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 221109010695 P-loop; other site 221109010696 Magnesium ion binding site [ion binding]; other site 221109010697 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 221109010698 Magnesium ion binding site [ion binding]; other site 221109010699 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 221109010700 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 221109010701 ParB-like nuclease domain; Region: ParBc; pfam02195 221109010702 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 221109010703 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 221109010704 S-adenosylmethionine binding site [chemical binding]; other site 221109010705 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 221109010706 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 221109010707 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 221109010708 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 221109010709 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 221109010710 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 221109010711 trmE is a tRNA modification GTPase; Region: trmE; cd04164 221109010712 G1 box; other site 221109010713 GTP/Mg2+ binding site [chemical binding]; other site 221109010714 Switch I region; other site 221109010715 G2 box; other site 221109010716 Switch II region; other site 221109010717 G3 box; other site 221109010718 G4 box; other site 221109010719 G5 box; other site 221109010720 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 221109010721 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 221109010722 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 221109010723 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 221109010724 G-X-X-G motif; other site 221109010725 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 221109010726 RxxxH motif; other site 221109010727 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 221109010728 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 221109010729 ribonuclease P; Reviewed; Region: rnpA; PRK00499 221109010730 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399