-- dump date 20140620_042016 -- class Genbank::misc_feature -- table misc_feature_note -- id note 657321000001 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 657321000002 putative ADP-ribose binding site [chemical binding]; other site 657321000003 putative active site [active] 657321000004 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 657321000005 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 657321000006 Predicted transcriptional regulators [Transcription]; Region: COG1695 657321000007 Transcriptional regulator PadR-like family; Region: PadR; cl17335 657321000008 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 657321000009 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657321000010 heat shock protein 90; Provisional; Region: PRK05218 657321000011 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 657321000012 ATP binding site [chemical binding]; other site 657321000013 Mg2+ binding site [ion binding]; other site 657321000014 G-X-G motif; other site 657321000015 Sulfatase; Region: Sulfatase; cl17466 657321000016 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 657321000017 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 657321000018 FAD binding pocket [chemical binding]; other site 657321000019 FAD binding motif [chemical binding]; other site 657321000020 phosphate binding motif [ion binding]; other site 657321000021 beta-alpha-beta structure motif; other site 657321000022 NAD binding pocket [chemical binding]; other site 657321000023 Iron coordination center [ion binding]; other site 657321000024 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 657321000025 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 657321000026 heterodimer interface [polypeptide binding]; other site 657321000027 active site 657321000028 FMN binding site [chemical binding]; other site 657321000029 homodimer interface [polypeptide binding]; other site 657321000030 substrate binding site [chemical binding]; other site 657321000031 Predicted membrane protein [Function unknown]; Region: COG2323 657321000032 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 657321000033 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657321000034 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 657321000035 trimer interface [polypeptide binding]; other site 657321000036 active site 657321000037 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 657321000038 catalytic site [active] 657321000039 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000040 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 657321000041 non-specific DNA binding site [nucleotide binding]; other site 657321000042 salt bridge; other site 657321000043 sequence-specific DNA binding site [nucleotide binding]; other site 657321000044 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 657321000045 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 657321000046 active site 657321000047 substrate binding site [chemical binding]; other site 657321000048 metal binding site [ion binding]; metal-binding site 657321000049 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 657321000050 SnoaL-like domain; Region: SnoaL_2; pfam12680 657321000051 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321000052 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 657321000053 catalytic residues [active] 657321000054 catalytic nucleophile [active] 657321000055 Recombinase; Region: Recombinase; pfam07508 657321000056 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321000057 PemK-like protein; Region: PemK; pfam02452 657321000058 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657321000059 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; cl17315 657321000060 DNA binding residues [nucleotide binding] 657321000061 Cysteine-rich KTR; Region: Cys_rich_KTR; pfam14205 657321000062 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321000063 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657321000064 Predicted transcriptional regulators [Transcription]; Region: COG1695 657321000065 Transcriptional regulator PadR-like family; Region: PadR; cl17335 657321000066 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 657321000067 active site 657321000068 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 657321000069 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657321000070 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657321000071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 657321000072 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000073 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 657321000074 non-specific DNA binding site [nucleotide binding]; other site 657321000075 salt bridge; other site 657321000076 sequence-specific DNA binding site [nucleotide binding]; other site 657321000077 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 657321000078 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 657321000079 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657321000080 catalytic residue [active] 657321000081 CHAP domain; Region: CHAP; cl17642 657321000082 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657321000083 active site 657321000084 catalytic site [active] 657321000085 AAA-like domain; Region: AAA_10; pfam12846 657321000086 Domain of unknown function DUF87; Region: DUF87; pfam01935 657321000087 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 657321000088 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 657321000089 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 657321000090 Walker A motif; other site 657321000091 ATP binding site [chemical binding]; other site 657321000092 Walker B motif; other site 657321000093 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657321000094 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657321000095 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 657321000096 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657321000097 Protein of unknown function (DUF3789); Region: DUF3789; pfam12664 657321000098 TIR domain; Region: TIR_2; pfam13676 657321000099 nucleotide binding region [chemical binding]; other site 657321000100 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657321000101 ATP-binding site [chemical binding]; other site 657321000102 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657321000103 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657321000104 AAA domain; Region: AAA_25; pfam13481 657321000105 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 657321000106 Walker A motif; other site 657321000107 ATP binding site [chemical binding]; other site 657321000108 Walker B motif; other site 657321000109 adenosine deaminase; Provisional; Region: PRK09358 657321000110 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 657321000111 active site 657321000112 Helix-turn-helix domain; Region: HTH_36; pfam13730 657321000113 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 657321000114 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 657321000115 Walker A motif; other site 657321000116 ATP binding site [chemical binding]; other site 657321000117 Walker B motif; other site 657321000118 Maff2 family; Region: Maff2; pfam12750 657321000119 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 657321000120 salt bridge; other site 657321000121 non-specific DNA binding site [nucleotide binding]; other site 657321000122 sequence-specific DNA binding site [nucleotide binding]; other site 657321000123 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000124 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 657321000125 non-specific DNA binding site [nucleotide binding]; other site 657321000126 salt bridge; other site 657321000127 sequence-specific DNA binding site [nucleotide binding]; other site 657321000128 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 657321000129 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657321000130 SdpI/YhfL protein family; Region: SdpI; pfam13630 657321000131 MobA/MobL family; Region: MobA_MobL; pfam03389 657321000132 Virulence-associated protein E; Region: VirE; pfam05272 657321000133 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321000134 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657321000135 putative catalytic residues [active] 657321000136 catalytic nucleophile [active] 657321000137 Recombinase; Region: Recombinase; pfam07508 657321000138 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321000139 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657321000140 MT-A70; Region: MT-A70; cl01947 657321000141 PrgI family protein; Region: PrgI; pfam12666 657321000142 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 657321000143 DNA methylase; Region: N6_N4_Mtase; cl17433 657321000144 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 657321000145 S-adenosylmethionine binding site [chemical binding]; other site 657321000146 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657321000147 hypothetical protein; Provisional; Region: PRK08557 657321000148 Ligand Binding Site [chemical binding]; other site 657321000149 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657321000150 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657321000151 DNA topoisomerase III; Provisional; Region: PRK07726 657321000152 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 657321000153 active site 657321000154 putative interdomain interaction site [polypeptide binding]; other site 657321000155 putative metal-binding site [ion binding]; other site 657321000156 putative nucleotide binding site [chemical binding]; other site 657321000157 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 657321000158 domain I; other site 657321000159 DNA binding groove [nucleotide binding] 657321000160 phosphate binding site [ion binding]; other site 657321000161 domain II; other site 657321000162 domain III; other site 657321000163 nucleotide binding site [chemical binding]; other site 657321000164 catalytic site [active] 657321000165 domain IV; other site 657321000166 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657321000167 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 657321000168 Antirestriction protein (ArdA); Region: ArdA; cl01953 657321000169 Domain of unknown function (DUF955); Region: DUF955; cl01076 657321000170 YodL-like; Region: YodL; pfam14191 657321000171 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 657321000172 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657321000173 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657321000174 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657321000175 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000176 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 657321000177 non-specific DNA binding site [nucleotide binding]; other site 657321000178 salt bridge; other site 657321000179 sequence-specific DNA binding site [nucleotide binding]; other site 657321000180 Cysteine-rich KTR; Region: Cys_rich_KTR; pfam14205 657321000181 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 657321000182 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 657321000183 FeS/SAM binding site; other site 657321000184 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657321000185 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657321000186 DNA binding residues [nucleotide binding] 657321000187 Helix-turn-helix domain; Region: HTH_16; pfam12645 657321000188 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657321000189 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321000190 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657321000191 putative catalytic residues [active] 657321000192 catalytic nucleophile [active] 657321000193 Recombinase; Region: Recombinase; pfam07508 657321000194 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321000195 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657321000196 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; cl02788 657321000197 catalytic nucleophile [active] 657321000198 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657321000199 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657321000200 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657321000201 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 657321000202 ATP binding site [chemical binding]; other site 657321000203 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657321000204 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657321000205 Cna protein B-type domain; Region: Cna_B; pfam05738 657321000206 Cna protein B-type domain; Region: Cna_B; pfam05738 657321000207 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657321000208 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 657321000209 P-loop; other site 657321000210 Magnesium ion binding site [ion binding]; other site 657321000211 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 657321000212 Magnesium ion binding site [ion binding]; other site 657321000213 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 657321000214 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 657321000215 S-adenosylmethionine binding site [chemical binding]; other site 657321000216 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 657321000217 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657321000218 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 657321000219 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 657321000220 active site 657321000221 dimer interface [polypeptide binding]; other site 657321000222 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 657321000223 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 657321000224 active site 657321000225 FMN binding site [chemical binding]; other site 657321000226 substrate binding site [chemical binding]; other site 657321000227 3Fe-4S cluster binding site [ion binding]; other site 657321000228 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 657321000229 domain interface; other site 657321000230 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 657321000231 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 657321000232 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657321000233 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 657321000234 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 657321000235 Nitrogen regulatory protein P-II; Region: P-II; smart00938 657321000236 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 657321000237 DNA-binding interface [nucleotide binding]; DNA binding site 657321000238 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 657321000239 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 657321000240 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 657321000241 catalytic site [active] 657321000242 subunit interface [polypeptide binding]; other site 657321000243 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 657321000244 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657321000245 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657321000246 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657321000247 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657321000248 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657321000249 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 657321000250 IMP binding site; other site 657321000251 dimer interface [polypeptide binding]; other site 657321000252 interdomain contacts; other site 657321000253 partial ornithine binding site; other site 657321000254 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 657321000255 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657321000256 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 657321000257 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 657321000258 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 657321000259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321000260 homodimer interface [polypeptide binding]; other site 657321000261 catalytic residue [active] 657321000262 glycyl-tRNA synthetase; Provisional; Region: PRK04173 657321000263 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 657321000264 motif 1; other site 657321000265 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 657321000266 active site 657321000267 motif 2; other site 657321000268 motif 3; other site 657321000269 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 657321000270 anticodon binding site; other site 657321000271 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 657321000272 Putative cyclase; Region: Cyclase; cl00814 657321000273 phosphoglycolate phosphatase; Provisional; Region: PRK13222 657321000274 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 657321000275 motif II; other site 657321000276 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 657321000277 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 657321000278 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657321000279 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657321000280 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 657321000281 dimerization domain swap beta strand [polypeptide binding]; other site 657321000282 regulatory protein interface [polypeptide binding]; other site 657321000283 active site 657321000284 regulatory phosphorylation site [posttranslational modification]; other site 657321000285 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 657321000286 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 657321000287 active site 657321000288 phosphorylation site [posttranslational modification] 657321000289 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 657321000290 active site 657321000291 P-loop; other site 657321000292 phosphorylation site [posttranslational modification] 657321000293 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 657321000294 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 657321000295 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 657321000296 putative substrate binding site [chemical binding]; other site 657321000297 putative ATP binding site [chemical binding]; other site 657321000298 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657321000299 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 657321000300 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657321000301 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657321000302 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 657321000303 ligand binding site [chemical binding]; other site 657321000304 flexible hinge region; other site 657321000305 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 657321000306 ATP cone domain; Region: ATP-cone; pfam03477 657321000307 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657321000308 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 657321000309 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 657321000310 FeS/SAM binding site; other site 657321000311 Double zinc ribbon; Region: DZR; pfam12773 657321000312 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657321000313 aspartate kinase; Reviewed; Region: PRK06635 657321000314 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 657321000315 putative nucleotide binding site [chemical binding]; other site 657321000316 putative catalytic residues [active] 657321000317 putative Mg ion binding site [ion binding]; other site 657321000318 putative aspartate binding site [chemical binding]; other site 657321000319 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 657321000320 putative allosteric regulatory site; other site 657321000321 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 657321000322 putative allosteric regulatory residue; other site 657321000323 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 657321000324 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657321000325 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 657321000326 Transglycosylase; Region: Transgly; pfam00912 657321000327 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 657321000328 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657321000329 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657321000330 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 657321000331 FMN binding site [chemical binding]; other site 657321000332 substrate binding site [chemical binding]; other site 657321000333 putative catalytic residue [active] 657321000334 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657321000335 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 657321000336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 657321000337 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 657321000338 NAD(P) binding site [chemical binding]; other site 657321000339 homotetramer interface [polypeptide binding]; other site 657321000340 homodimer interface [polypeptide binding]; other site 657321000341 active site 657321000342 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657321000343 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 657321000344 dimer interface [polypeptide binding]; other site 657321000345 active site 657321000346 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 657321000347 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 657321000348 carboxyltransferase (CT) interaction site; other site 657321000349 biotinylation site [posttranslational modification]; other site 657321000350 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 657321000351 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 657321000352 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657321000353 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657321000354 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 657321000355 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 657321000356 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 657321000357 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657321000358 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 657321000359 Uncharacterized conserved protein [Function unknown]; Region: COG1434 657321000360 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 657321000361 putative active site [active] 657321000362 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 657321000363 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 657321000364 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 657321000365 active site 657321000366 HIGH motif; other site 657321000367 KMSK motif region; other site 657321000368 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657321000369 tRNA binding surface [nucleotide binding]; other site 657321000370 anticodon binding site; other site 657321000371 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 657321000372 glutamate racemase; Provisional; Region: PRK00865 657321000373 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 657321000374 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 657321000375 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 657321000376 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 657321000377 putative homodimer interface [polypeptide binding]; other site 657321000378 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657321000379 heterodimer interface [polypeptide binding]; other site 657321000380 homodimer interface [polypeptide binding]; other site 657321000381 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 657321000382 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 657321000383 23S rRNA interface [nucleotide binding]; other site 657321000384 L7/L12 interface [polypeptide binding]; other site 657321000385 putative thiostrepton binding site; other site 657321000386 L25 interface [polypeptide binding]; other site 657321000387 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 657321000388 mRNA/rRNA interface [nucleotide binding]; other site 657321000389 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 657321000390 core dimer interface [polypeptide binding]; other site 657321000391 peripheral dimer interface [polypeptide binding]; other site 657321000392 L10 interface [polypeptide binding]; other site 657321000393 L11 interface [polypeptide binding]; other site 657321000394 putative EF-Tu interaction site [polypeptide binding]; other site 657321000395 putative EF-G interaction site [polypeptide binding]; other site 657321000396 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 657321000397 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 657321000398 active site 657321000399 substrate-binding site [chemical binding]; other site 657321000400 metal-binding site [ion binding] 657321000401 ATP binding site [chemical binding]; other site 657321000402 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657321000403 Putative esterase; Region: Esterase; pfam00756 657321000404 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 657321000405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321000406 Coenzyme A binding pocket [chemical binding]; other site 657321000407 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 657321000408 Propanediol utilisation protein PduL; Region: PduL; pfam06130 657321000409 Propanediol utilisation protein PduL; Region: PduL; pfam06130 657321000410 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 657321000411 Fe-S cluster binding site [ion binding]; other site 657321000412 active site 657321000413 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657321000414 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657321000415 Walker A/P-loop; other site 657321000416 ATP binding site [chemical binding]; other site 657321000417 Q-loop/lid; other site 657321000418 ABC transporter signature motif; other site 657321000419 Walker B; other site 657321000420 D-loop; other site 657321000421 H-loop/switch region; other site 657321000422 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657321000423 Fungal protein of unknown function (DUF1742); Region: DUF1742; pfam08432 657321000424 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 657321000425 Flagellar FliJ protein; Region: FliJ; pfam02050 657321000426 FtsX-like permease family; Region: FtsX; pfam02687 657321000427 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657321000428 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657321000429 FtsX-like permease family; Region: FtsX; pfam02687 657321000430 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 657321000431 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 657321000432 dimer interface [polypeptide binding]; other site 657321000433 anticodon binding site; other site 657321000434 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 657321000435 homodimer interface [polypeptide binding]; other site 657321000436 motif 1; other site 657321000437 active site 657321000438 motif 2; other site 657321000439 GAD domain; Region: GAD; pfam02938 657321000440 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 657321000441 active site 657321000442 motif 3; other site 657321000443 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 657321000444 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 657321000445 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 657321000446 PBP superfamily domain; Region: PBP_like_2; cl17296 657321000447 PBP superfamily domain; Region: PBP_like_2; cl17296 657321000448 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 657321000449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321000450 dimer interface [polypeptide binding]; other site 657321000451 conserved gate region; other site 657321000452 putative PBP binding loops; other site 657321000453 ABC-ATPase subunit interface; other site 657321000454 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 657321000455 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 657321000456 Walker A/P-loop; other site 657321000457 ATP binding site [chemical binding]; other site 657321000458 Q-loop/lid; other site 657321000459 ABC transporter signature motif; other site 657321000460 Walker B; other site 657321000461 D-loop; other site 657321000462 H-loop/switch region; other site 657321000463 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 657321000464 PhoU domain; Region: PhoU; pfam01895 657321000465 PhoU domain; Region: PhoU; pfam01895 657321000466 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321000467 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 657321000468 active site 657321000469 phosphorylation site [posttranslational modification] 657321000470 intermolecular recognition site; other site 657321000471 dimerization interface [polypeptide binding]; other site 657321000472 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 657321000473 DNA binding site [nucleotide binding] 657321000474 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 657321000475 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657321000476 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657321000477 PhoU domain; Region: PhoU; pfam01895 657321000478 PhoU domain; Region: PhoU; pfam01895 657321000479 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 657321000480 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657321000481 Walker A/P-loop; other site 657321000482 ATP binding site [chemical binding]; other site 657321000483 Q-loop/lid; other site 657321000484 ABC transporter signature motif; other site 657321000485 Walker B; other site 657321000486 D-loop; other site 657321000487 H-loop/switch region; other site 657321000488 hybrid cluster protein; Provisional; Region: PRK05290 657321000489 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 657321000490 ACS interaction site; other site 657321000491 CODH interaction site; other site 657321000492 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 657321000493 hybrid metal cluster; other site 657321000494 serine/threonine protein kinase; Provisional; Region: PRK14879 657321000495 FOG: CBS domain [General function prediction only]; Region: COG0517 657321000496 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 657321000497 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321000498 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 657321000499 active site 657321000500 phosphorylation site [posttranslational modification] 657321000501 intermolecular recognition site; other site 657321000502 dimerization interface [polypeptide binding]; other site 657321000503 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 657321000504 DNA binding site [nucleotide binding] 657321000505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657321000506 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 657321000507 dimer interface [polypeptide binding]; other site 657321000508 phosphorylation site [posttranslational modification] 657321000509 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 657321000510 ATP binding site [chemical binding]; other site 657321000511 Mg2+ binding site [ion binding]; other site 657321000512 G-X-G motif; other site 657321000513 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 657321000514 putative deacylase active site [active] 657321000515 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657321000516 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 657321000517 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657321000518 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657321000519 Walker A/P-loop; other site 657321000520 ATP binding site [chemical binding]; other site 657321000521 Q-loop/lid; other site 657321000522 ABC transporter signature motif; other site 657321000523 Walker B; other site 657321000524 D-loop; other site 657321000525 H-loop/switch region; other site 657321000526 Predicted transcriptional regulators [Transcription]; Region: COG1725 657321000527 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657321000528 DNA-binding site [nucleotide binding]; DNA binding site 657321000529 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657321000530 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 657321000531 S-adenosylmethionine binding site [chemical binding]; other site 657321000532 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 657321000533 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 657321000534 dimerization interface [polypeptide binding]; other site 657321000535 domain crossover interface; other site 657321000536 redox-dependent activation switch; other site 657321000537 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657321000538 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 657321000539 substrate binding site [chemical binding]; other site 657321000540 multimerization interface [polypeptide binding]; other site 657321000541 ATP binding site [chemical binding]; other site 657321000542 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 657321000543 thiamine phosphate binding site [chemical binding]; other site 657321000544 active site 657321000545 pyrophosphate binding site [ion binding]; other site 657321000546 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657321000547 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 657321000548 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 657321000549 motif II; other site 657321000550 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 657321000551 dimer interface [polypeptide binding]; other site 657321000552 substrate binding site [chemical binding]; other site 657321000553 ATP binding site [chemical binding]; other site 657321000554 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 657321000555 Na binding site [ion binding]; other site 657321000556 stage V sporulation protein T; Region: spore_V_T; TIGR02851 657321000557 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 657321000558 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 657321000559 GIY-YIG motif/motif A; other site 657321000560 putative active site [active] 657321000561 putative metal binding site [ion binding]; other site 657321000562 Isochorismatase family; Region: Isochorismatase; pfam00857 657321000563 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 657321000564 catalytic triad [active] 657321000565 conserved cis-peptide bond; other site 657321000566 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 657321000567 catalytic core [active] 657321000568 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657321000569 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657321000570 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657321000571 TrkA-N domain; Region: TrkA_N; pfam02254 657321000572 TrkA-C domain; Region: TrkA_C; pfam02080 657321000573 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 657321000574 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 657321000575 Ligand Binding Site [chemical binding]; other site 657321000576 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 657321000577 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 657321000578 dimer interface [polypeptide binding]; other site 657321000579 phosphorylation site [posttranslational modification] 657321000580 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 657321000581 ATP binding site [chemical binding]; other site 657321000582 Mg2+ binding site [ion binding]; other site 657321000583 G-X-G motif; other site 657321000584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321000585 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 657321000586 active site 657321000587 phosphorylation site [posttranslational modification] 657321000588 intermolecular recognition site; other site 657321000589 dimerization interface [polypeptide binding]; other site 657321000590 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 657321000591 DNA binding site [nucleotide binding] 657321000592 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657321000593 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 657321000594 active site 657321000595 DNA binding site [nucleotide binding] 657321000596 Int/Topo IB signature motif; other site 657321000597 Domain of unknown function (DUF955); Region: DUF955; cl01076 657321000598 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000599 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 657321000600 non-specific DNA binding site [nucleotide binding]; other site 657321000601 salt bridge; other site 657321000602 sequence-specific DNA binding site [nucleotide binding]; other site 657321000603 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 657321000604 sequence-specific DNA binding site [nucleotide binding]; other site 657321000605 salt bridge; other site 657321000606 Helix-turn-helix domain; Region: HTH_17; cl17695 657321000607 PcfJ-like protein; Region: PcfJ; pfam14284 657321000608 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 657321000609 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 657321000610 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 657321000611 Walker A motif; other site 657321000612 ATP binding site [chemical binding]; other site 657321000613 Walker B motif; other site 657321000614 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 657321000615 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 657321000616 ATP binding site [chemical binding]; other site 657321000617 putative Mg++ binding site [ion binding]; other site 657321000618 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 657321000619 nucleotide binding region [chemical binding]; other site 657321000620 ATP-binding site [chemical binding]; other site 657321000621 Protein of unknown function (DUF669); Region: DUF669; pfam05037 657321000622 Uncharacterized conserved protein [Function unknown]; Region: COG4983 657321000623 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 657321000624 nucleotide binding site [chemical binding]; other site 657321000625 Phage associated DNA primase [General function prediction only]; Region: COG3378 657321000626 D5 N terminal like; Region: D5_N; pfam08706 657321000627 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 657321000628 Methyltransferase domain; Region: Methyltransf_25; pfam13649 657321000629 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 657321000630 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 657321000631 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 657321000632 active site 657321000633 conformational flexibility of ligand binding pocket; other site 657321000634 ADP-ribosylating toxin turn-turn motif; other site 657321000635 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 657321000636 Arenavirus nucleocapsid protein; Region: Arena_nucleocap; pfam00843 657321000637 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 657321000638 Minor capsid protein; Region: Minor_capsid_2; pfam11114 657321000639 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 657321000640 Holin family; Region: Phage_holin_4; cl01989 657321000641 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 657321000642 substrate binding site [chemical binding]; other site 657321000643 amidase catalytic site [active] 657321000644 Zn binding residues [ion binding]; other site 657321000645 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657321000646 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657321000647 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 657321000648 classical (c) SDRs; Region: SDR_c; cd05233 657321000649 NAD(P) binding site [chemical binding]; other site 657321000650 active site 657321000651 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 657321000652 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657321000653 NAD binding site [chemical binding]; other site 657321000654 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321000655 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321000656 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000657 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 657321000658 non-specific DNA binding site [nucleotide binding]; other site 657321000659 salt bridge; other site 657321000660 sequence-specific DNA binding site [nucleotide binding]; other site 657321000661 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321000662 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657321000663 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 657321000664 homodimer interface [polypeptide binding]; other site 657321000665 substrate-cofactor binding pocket; other site 657321000666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321000667 catalytic residue [active] 657321000668 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657321000669 substrate binding site; other site 657321000670 dimer interface; other site 657321000671 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 657321000672 homotrimer interaction site [polypeptide binding]; other site 657321000673 zinc binding site [ion binding]; other site 657321000674 CDP-binding sites; other site 657321000675 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657321000676 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657321000677 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 657321000678 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 657321000679 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 657321000680 active site 657321000681 dimer interface [polypeptide binding]; other site 657321000682 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 657321000683 dimer interface [polypeptide binding]; other site 657321000684 active site 657321000685 2-isopropylmalate synthase; Validated; Region: PRK03739 657321000686 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 657321000687 active site 657321000688 catalytic residues [active] 657321000689 metal binding site [ion binding]; metal-binding site 657321000690 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 657321000691 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 657321000692 glutaminyl-tRNA synthetase; Provisional; Region: PTZ00437 657321000693 Predicted membrane protein [Function unknown]; Region: COG1511 657321000694 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 657321000695 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 657321000696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657321000697 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 657321000698 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 657321000699 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 657321000700 catalytic motif [active] 657321000701 Zn binding site [ion binding]; other site 657321000702 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 657321000703 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 657321000704 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 657321000705 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 657321000706 Low molecular weight phosphatase family; Region: LMWPc; cl00105 657321000707 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 657321000708 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657321000709 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 657321000710 dimerization interface [polypeptide binding]; other site 657321000711 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 657321000712 dimer interface [polypeptide binding]; other site 657321000713 phosphorylation site [posttranslational modification] 657321000714 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 657321000715 ATP binding site [chemical binding]; other site 657321000716 Mg2+ binding site [ion binding]; other site 657321000717 G-X-G motif; other site 657321000718 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321000719 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657321000720 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 657321000721 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 657321000722 dimer interface [polypeptide binding]; other site 657321000723 putative anticodon binding site; other site 657321000724 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 657321000725 motif 1; other site 657321000726 active site 657321000727 motif 2; other site 657321000728 motif 3; other site 657321000729 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 657321000730 putative tRNA-binding site [nucleotide binding]; other site 657321000731 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657321000732 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657321000733 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657321000734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 657321000735 Peptidase family M23; Region: Peptidase_M23; pfam01551 657321000736 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657321000737 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 657321000738 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657321000739 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 657321000740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321000741 Walker A/P-loop; other site 657321000742 ATP binding site [chemical binding]; other site 657321000743 Q-loop/lid; other site 657321000744 ABC transporter signature motif; other site 657321000745 Walker B; other site 657321000746 D-loop; other site 657321000747 H-loop/switch region; other site 657321000748 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 657321000749 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657321000750 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 657321000751 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 657321000752 Walker A/P-loop; other site 657321000753 ATP binding site [chemical binding]; other site 657321000754 Q-loop/lid; other site 657321000755 ABC transporter signature motif; other site 657321000756 Walker B; other site 657321000757 D-loop; other site 657321000758 H-loop/switch region; other site 657321000759 TOBE domain; Region: TOBE; pfam03459 657321000760 Predicted thioesterase [General function prediction only]; Region: COG5496 657321000761 GTP-binding protein YchF; Reviewed; Region: PRK09601 657321000762 YchF GTPase; Region: YchF; cd01900 657321000763 G1 box; other site 657321000764 GTP/Mg2+ binding site [chemical binding]; other site 657321000765 Switch I region; other site 657321000766 G2 box; other site 657321000767 Switch II region; other site 657321000768 G3 box; other site 657321000769 G4 box; other site 657321000770 G5 box; other site 657321000771 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 657321000772 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 657321000773 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 657321000774 PYR/PP interface [polypeptide binding]; other site 657321000775 dimer interface [polypeptide binding]; other site 657321000776 TPP binding site [chemical binding]; other site 657321000777 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657321000778 transketolase; Reviewed; Region: PRK05899 657321000779 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 657321000780 TPP-binding site [chemical binding]; other site 657321000781 dimer interface [polypeptide binding]; other site 657321000782 pantothenate kinase; Reviewed; Region: PRK13318 657321000783 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657321000784 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 657321000785 putative DNA binding site [nucleotide binding]; other site 657321000786 putative Zn2+ binding site [ion binding]; other site 657321000787 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 657321000788 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 657321000789 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 657321000790 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657321000791 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321000792 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 657321000793 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 657321000794 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 657321000795 dimerization interface [polypeptide binding]; other site 657321000796 ATP binding site [chemical binding]; other site 657321000797 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 657321000798 dimerization interface [polypeptide binding]; other site 657321000799 ATP binding site [chemical binding]; other site 657321000800 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 657321000801 putative active site [active] 657321000802 catalytic triad [active] 657321000803 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 657321000804 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 657321000805 motif II; other site 657321000806 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 657321000807 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 657321000808 putative ligand binding site [chemical binding]; other site 657321000809 putative NAD binding site [chemical binding]; other site 657321000810 catalytic site [active] 657321000811 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 657321000812 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657321000813 oligomer interface [polypeptide binding]; other site 657321000814 putative active site [active] 657321000815 metal binding site [ion binding]; metal-binding site 657321000816 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 657321000817 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 657321000818 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657321000819 catalytic residue [active] 657321000820 peptide chain release factor 1; Validated; Region: prfA; PRK00591 657321000821 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657321000822 RF-1 domain; Region: RF-1; pfam00472 657321000823 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 657321000824 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 657321000825 active site 657321000826 nucleophile elbow; other site 657321000827 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 657321000828 glycogen branching enzyme; Provisional; Region: PRK12313 657321000829 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657321000830 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657321000831 active site 657321000832 catalytic site [active] 657321000833 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657321000834 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657321000835 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657321000836 Asparaginase; Region: Asparaginase; pfam00710 657321000837 active site 657321000838 homodimer interface [polypeptide binding]; other site 657321000839 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 657321000840 Uncharacterized conserved protein [Function unknown]; Region: COG4198 657321000841 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 657321000842 Fic/DOC family; Region: Fic; pfam02661 657321000843 stage II sporulation protein E; Region: spore_II_E; TIGR02865 657321000844 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 657321000845 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 657321000846 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321000847 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 657321000848 non-specific DNA binding site [nucleotide binding]; other site 657321000849 salt bridge; other site 657321000850 sequence-specific DNA binding site [nucleotide binding]; other site 657321000851 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 657321000852 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 657321000853 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 657321000854 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 657321000855 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 657321000856 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 657321000857 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 657321000858 G-loop; other site 657321000859 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 657321000860 DNA binding site [nucleotide binding] 657321000861 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 657321000862 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 657321000863 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 657321000864 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 657321000865 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 657321000866 RPB1 interaction site [polypeptide binding]; other site 657321000867 RPB10 interaction site [polypeptide binding]; other site 657321000868 RPB11 interaction site [polypeptide binding]; other site 657321000869 RPB3 interaction site [polypeptide binding]; other site 657321000870 RPB12 interaction site [polypeptide binding]; other site 657321000871 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 657321000872 active site residue [active] 657321000873 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 657321000874 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 657321000875 Ligand Binding Site [chemical binding]; other site 657321000876 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 657321000877 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 657321000878 NlpC/P60 family; Region: NLPC_P60; cl17555 657321000879 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657321000880 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 657321000881 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657321000882 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 657321000883 Phosphotransferase enzyme family; Region: APH; pfam01636 657321000884 active site 657321000885 substrate binding site [chemical binding]; other site 657321000886 ATP binding site [chemical binding]; other site 657321000887 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 657321000888 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 657321000889 putative catalytic cysteine [active] 657321000890 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 657321000891 putative active site [active] 657321000892 metal binding site [ion binding]; metal-binding site 657321000893 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321000894 hypothetical protein; Provisional; Region: PRK13670 657321000895 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 657321000896 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 657321000897 propionate/acetate kinase; Provisional; Region: PRK12379 657321000898 Domain of unknown function (DUF378); Region: DUF378; pfam04070 657321000899 Predicted permeases [General function prediction only]; Region: COG0679 657321000900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321000901 Walker A/P-loop; other site 657321000902 ATP binding site [chemical binding]; other site 657321000903 Q-loop/lid; other site 657321000904 ABC transporter signature motif; other site 657321000905 Walker B; other site 657321000906 D-loop; other site 657321000907 H-loop/switch region; other site 657321000908 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 657321000909 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 657321000910 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 657321000911 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 657321000912 ATP binding site [chemical binding]; other site 657321000913 putative Mg++ binding site [ion binding]; other site 657321000914 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 657321000915 nucleotide binding region [chemical binding]; other site 657321000916 ATP-binding site [chemical binding]; other site 657321000917 TRCF domain; Region: TRCF; pfam03461 657321000918 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 657321000919 putative active site [active] 657321000920 catalytic residue [active] 657321000921 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 657321000922 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 657321000923 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321000924 active site 657321000925 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 657321000926 Substrate binding site; other site 657321000927 Mg++ binding site; other site 657321000928 pyruvate phosphate dikinase; Provisional; Region: PRK09279 657321000929 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657321000930 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657321000931 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657321000932 Archaeal ATPase; Region: Arch_ATPase; pfam01637 657321000933 AAA ATPase domain; Region: AAA_16; pfam13191 657321000934 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 657321000935 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657321000936 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657321000937 Walker A/P-loop; other site 657321000938 ATP binding site [chemical binding]; other site 657321000939 Q-loop/lid; other site 657321000940 ABC transporter signature motif; other site 657321000941 Walker B; other site 657321000942 D-loop; other site 657321000943 H-loop/switch region; other site 657321000944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657321000945 WHG domain; Region: WHG; pfam13305 657321000946 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 657321000947 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 657321000948 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657321000949 Phage capsid family; Region: Phage_capsid; pfam05065 657321000950 Phage terminase large subunit; Region: Terminase_3; cl12054 657321000951 Terminase-like family; Region: Terminase_6; pfam03237 657321000952 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 657321000953 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657321000954 catalytic residues [active] 657321000955 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 657321000956 Helix-turn-helix domain; Region: HTH_36; pfam13730 657321000957 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657321000958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321000959 Coenzyme A binding pocket [chemical binding]; other site 657321000960 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 657321000961 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657321000962 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657321000963 active site 657321000964 catalytic site [active] 657321000965 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657321000966 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 657321000967 recombination factor protein RarA; Reviewed; Region: PRK13342 657321000968 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 657321000969 Walker A motif; other site 657321000970 ATP binding site [chemical binding]; other site 657321000971 Walker B motif; other site 657321000972 arginine finger; other site 657321000973 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 657321000974 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 657321000975 active site 657321000976 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 657321000977 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657321000978 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657321000979 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 657321000980 TrkA-N domain; Region: TrkA_N; pfam02254 657321000981 TrkA-C domain; Region: TrkA_C; pfam02080 657321000982 TrkA-N domain; Region: TrkA_N; pfam02254 657321000983 TrkA-C domain; Region: TrkA_C; pfam02080 657321000984 putative oxidoreductase; Provisional; Region: PRK12831 657321000985 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 657321000986 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657321000987 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 657321000988 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 657321000989 FAD binding pocket [chemical binding]; other site 657321000990 FAD binding motif [chemical binding]; other site 657321000991 phosphate binding motif [ion binding]; other site 657321000992 beta-alpha-beta structure motif; other site 657321000993 NAD binding pocket [chemical binding]; other site 657321000994 Iron coordination center [ion binding]; other site 657321000995 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 657321000996 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 657321000997 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657321000998 NAD binding site [chemical binding]; other site 657321000999 dimer interface [polypeptide binding]; other site 657321001000 substrate binding site [chemical binding]; other site 657321001001 Predicted membrane protein [Function unknown]; Region: COG1971 657321001002 Domain of unknown function DUF; Region: DUF204; pfam02659 657321001003 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 657321001004 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 657321001005 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657321001006 minor groove reading motif; other site 657321001007 helix-hairpin-helix signature motif; other site 657321001008 active site 657321001009 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 657321001010 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 657321001011 intersubunit interface [polypeptide binding]; other site 657321001012 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657321001013 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 657321001014 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657321001015 Walker A motif; other site 657321001016 ATP binding site [chemical binding]; other site 657321001017 Walker B motif; other site 657321001018 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 657321001019 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 657321001020 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 657321001021 substrate binding site [chemical binding]; other site 657321001022 hexamer interface [polypeptide binding]; other site 657321001023 metal binding site [ion binding]; metal-binding site 657321001024 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657321001025 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 657321001026 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657321001027 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 657321001028 active site 657321001029 Ap4A binding cleft/pocket [chemical binding]; other site 657321001030 P4 phosphate binding site; other site 657321001031 nudix motif; other site 657321001032 putative P2/P3 phosphate binding site [ion binding]; other site 657321001033 DHHW protein; Region: DHHW; pfam14286 657321001034 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 657321001035 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 657321001036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321001037 homodimer interface [polypeptide binding]; other site 657321001038 catalytic residue [active] 657321001039 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 657321001040 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 657321001041 active site 657321001042 HIGH motif; other site 657321001043 dimer interface [polypeptide binding]; other site 657321001044 KMSKS motif; other site 657321001045 Predicted integral membrane protein [Function unknown]; Region: COG5542 657321001046 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657321001047 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321001048 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 657321001049 Bax inhibitor 1 like; Region: BaxI_1; cl17691 657321001050 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321001051 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657321001052 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 657321001053 putative ligand binding site [chemical binding]; other site 657321001054 putative NAD binding site [chemical binding]; other site 657321001055 putative catalytic site [active] 657321001056 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 657321001057 L-serine binding site [chemical binding]; other site 657321001058 ACT domain interface; other site 657321001059 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 657321001060 homodimer interface [polypeptide binding]; other site 657321001061 substrate-cofactor binding pocket; other site 657321001062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321001063 catalytic residue [active] 657321001064 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 657321001065 active site 657321001066 dimer interface [polypeptide binding]; other site 657321001067 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 657321001068 active site 657321001069 catalytic residues [active] 657321001070 metal binding site [ion binding]; metal-binding site 657321001071 dihydroorotase; Validated; Region: pyrC; PRK09357 657321001072 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 657321001073 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 657321001074 active site 657321001075 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 657321001076 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 657321001077 glutaminase active site [active] 657321001078 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 657321001079 dimer interface [polypeptide binding]; other site 657321001080 active site 657321001081 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 657321001082 dimer interface [polypeptide binding]; other site 657321001083 active site 657321001084 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 657321001085 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 657321001086 NAD(P) binding site [chemical binding]; other site 657321001087 homodimer interface [polypeptide binding]; other site 657321001088 substrate binding site [chemical binding]; other site 657321001089 active site 657321001090 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 657321001091 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657321001092 putative active site [active] 657321001093 putative metal binding site [ion binding]; other site 657321001094 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657321001095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657321001096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657321001097 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 657321001098 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 657321001099 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657321001100 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 657321001101 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 657321001102 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 657321001103 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 657321001104 active site 657321001105 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657321001106 dimer interface [polypeptide binding]; other site 657321001107 substrate binding site [chemical binding]; other site 657321001108 catalytic residues [active] 657321001109 Transglutaminase/protease-like homologues; Region: TGc; smart00460 657321001110 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 657321001111 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 657321001112 inhibitor-cofactor binding pocket; inhibition site 657321001113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321001114 catalytic residue [active] 657321001115 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 657321001116 Cupin domain; Region: Cupin_2; cl17218 657321001117 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657321001118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657321001119 Predicted transcriptional regulator [Transcription]; Region: COG2378 657321001120 WYL domain; Region: WYL; pfam13280 657321001121 Predicted permeases [General function prediction only]; Region: COG0679 657321001122 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_2; cd06113 657321001123 dimer interface [polypeptide binding]; other site 657321001124 Citrate synthase; Region: Citrate_synt; pfam00285 657321001125 active site 657321001126 citrylCoA binding site [chemical binding]; other site 657321001127 oxalacetate/citrate binding site [chemical binding]; other site 657321001128 coenzyme A binding site [chemical binding]; other site 657321001129 catalytic triad [active] 657321001130 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 657321001131 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657321001132 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 657321001133 active site 657321001134 catalytic site [active] 657321001135 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 657321001136 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657321001137 active site 657321001138 motif I; other site 657321001139 motif II; other site 657321001140 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 657321001141 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 657321001142 Catalytic site [active] 657321001143 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 657321001144 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 657321001145 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 657321001146 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 657321001147 Catalytic site [active] 657321001148 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 657321001149 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321001150 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 657321001151 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 657321001152 active site 657321001153 NTP binding site [chemical binding]; other site 657321001154 metal binding triad [ion binding]; metal-binding site 657321001155 antibiotic binding site [chemical binding]; other site 657321001156 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 657321001157 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657321001158 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657321001159 active site 657321001160 ATP binding site [chemical binding]; other site 657321001161 substrate binding site [chemical binding]; other site 657321001162 activation loop (A-loop); other site 657321001163 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 657321001164 active site 657321001165 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 657321001166 binding surface 657321001167 TPR motif; other site 657321001168 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 657321001169 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 657321001170 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 657321001171 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 657321001172 ATP binding site [chemical binding]; other site 657321001173 Walker A motif; other site 657321001174 hexamer interface [polypeptide binding]; other site 657321001175 Walker B motif; other site 657321001176 AAA domain; Region: AAA_31; pfam13614 657321001177 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 657321001178 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 657321001179 active site 657321001180 Riboflavin kinase; Region: Flavokinase; pfam01687 657321001181 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 657321001182 dimer interface [polypeptide binding]; other site 657321001183 ADP-ribose binding site [chemical binding]; other site 657321001184 active site 657321001185 nudix motif; other site 657321001186 metal binding site [ion binding]; metal-binding site 657321001187 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 657321001188 active site 657321001189 Zn binding site [ion binding]; other site 657321001190 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 657321001191 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 657321001192 active site 657321001193 dimer interface [polypeptide binding]; other site 657321001194 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 657321001195 Ligand Binding Site [chemical binding]; other site 657321001196 Molecular Tunnel; other site 657321001197 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 657321001198 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 657321001199 active site 657321001200 motif I; other site 657321001201 motif II; other site 657321001202 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657321001203 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 657321001204 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657321001205 minor groove reading motif; other site 657321001206 helix-hairpin-helix signature motif; other site 657321001207 substrate binding pocket [chemical binding]; other site 657321001208 active site 657321001209 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 657321001210 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 657321001211 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 657321001212 motif II; other site 657321001213 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657321001214 Double zinc ribbon; Region: DZR; pfam12773 657321001215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 657321001216 G5 domain; Region: G5; pfam07501 657321001217 3D domain; Region: 3D; cl01439 657321001218 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 657321001219 BRO family, N-terminal domain; Region: Bro-N; pfam02498 657321001220 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657321001221 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657321001222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657321001223 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657321001224 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 657321001225 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657321001226 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 657321001227 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 657321001228 ligand binding site [chemical binding]; other site 657321001229 flexible hinge region; other site 657321001230 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 657321001231 putative switch regulator; other site 657321001232 non-specific DNA interactions [nucleotide binding]; other site 657321001233 DNA binding site [nucleotide binding] 657321001234 sequence specific DNA binding site [nucleotide binding]; other site 657321001235 putative cAMP binding site [chemical binding]; other site 657321001236 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657321001237 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 657321001238 substrate binding site [chemical binding]; other site 657321001239 ligand binding site [chemical binding]; other site 657321001240 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 657321001241 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 657321001242 substrate binding site [chemical binding]; other site 657321001243 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 657321001244 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 657321001245 Interdomain contacts; other site 657321001246 Cytokine receptor motif; other site 657321001247 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 657321001248 Interdomain contacts; other site 657321001249 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 657321001250 homodimer interface [polypeptide binding]; other site 657321001251 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657321001252 active site pocket [active] 657321001253 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657321001254 Competence-damaged protein; Region: CinA; pfam02464 657321001255 RNA methyltransferase, RsmE family; Region: TIGR00046 657321001256 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 657321001257 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 657321001258 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 657321001259 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 657321001260 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657321001261 PYR/PP interface [polypeptide binding]; other site 657321001262 dimer interface [polypeptide binding]; other site 657321001263 TPP binding site [chemical binding]; other site 657321001264 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657321001265 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 657321001266 TPP-binding site [chemical binding]; other site 657321001267 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 657321001268 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 657321001269 non-specific DNA binding site [nucleotide binding]; other site 657321001270 salt bridge; other site 657321001271 sequence-specific DNA binding site [nucleotide binding]; other site 657321001272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321001273 active site 657321001274 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657321001275 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 657321001276 active site 657321001277 phosphorylation site [posttranslational modification] 657321001278 intermolecular recognition site; other site 657321001279 dimerization interface [polypeptide binding]; other site 657321001280 LytTr DNA-binding domain; Region: LytTR; pfam04397 657321001281 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 657321001282 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 657321001283 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 657321001284 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 657321001285 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657321001286 Walker A/P-loop; other site 657321001287 ATP binding site [chemical binding]; other site 657321001288 Q-loop/lid; other site 657321001289 ABC transporter signature motif; other site 657321001290 Walker B; other site 657321001291 D-loop; other site 657321001292 H-loop/switch region; other site 657321001293 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 657321001294 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657321001295 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657321001296 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657321001297 Ligand binding site; other site 657321001298 Putative Catalytic site; other site 657321001299 DXD motif; other site 657321001300 GtrA-like protein; Region: GtrA; pfam04138 657321001301 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 657321001302 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 657321001303 23S rRNA interface [nucleotide binding]; other site 657321001304 L3 interface [polypeptide binding]; other site 657321001305 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657321001306 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657321001307 nucleotide binding site [chemical binding]; other site 657321001308 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 657321001309 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 657321001310 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 657321001311 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 657321001312 active site 657321001313 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 657321001314 seryl-tRNA synthetase; Provisional; Region: PRK05431 657321001315 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 657321001316 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 657321001317 motif 1; other site 657321001318 dimer interface [polypeptide binding]; other site 657321001319 active site 657321001320 motif 2; other site 657321001321 motif 3; other site 657321001322 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 657321001323 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 657321001324 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 657321001325 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657321001326 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 657321001327 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 657321001328 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 657321001329 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 657321001330 trmE is a tRNA modification GTPase; Region: trmE; cd04164 657321001331 G1 box; other site 657321001332 GTP/Mg2+ binding site [chemical binding]; other site 657321001333 Switch I region; other site 657321001334 G2 box; other site 657321001335 Switch II region; other site 657321001336 G3 box; other site 657321001337 G4 box; other site 657321001338 G5 box; other site 657321001339 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 657321001340 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 657321001341 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 657321001342 Haemolytic domain; Region: Haemolytic; pfam01809 657321001343 Ribonuclease P; Region: Ribonuclease_P; cl00457 657321001344 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 657321001345 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 657321001346 DnaA N-terminal domain; Region: DnaA_N; pfam11638 657321001347 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 657321001348 Walker A motif; other site 657321001349 ATP binding site [chemical binding]; other site 657321001350 Walker B motif; other site 657321001351 arginine finger; other site 657321001352 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 657321001353 DnaA box-binding interface [nucleotide binding]; other site 657321001354 DNA polymerase III subunit beta; Validated; Region: PRK05643 657321001355 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 657321001356 putative DNA binding surface [nucleotide binding]; other site 657321001357 dimer interface [polypeptide binding]; other site 657321001358 beta-clamp/clamp loader binding surface; other site 657321001359 beta-clamp/translesion DNA polymerase binding surface; other site 657321001360 S4 domain; Region: S4_2; pfam13275 657321001361 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 657321001362 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 657321001363 active site 657321001364 DNA gyrase subunit A; Validated; Region: PRK05560 657321001365 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 657321001366 CAP-like domain; other site 657321001367 active site 657321001368 primary dimer interface [polypeptide binding]; other site 657321001369 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657321001370 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657321001371 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657321001372 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657321001373 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 657321001374 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 657321001375 active site 657321001376 homodimer interface [polypeptide binding]; other site 657321001377 catalytic site [active] 657321001378 Cell division protein ZapA; Region: ZapA; pfam05164 657321001379 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657321001380 Peptidase family U32; Region: Peptidase_U32; pfam01136 657321001381 Collagenase; Region: DUF3656; pfam12392 657321001382 Peptidase family U32; Region: Peptidase_U32; cl03113 657321001383 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 657321001384 trimer interface [polypeptide binding]; other site 657321001385 active site 657321001386 rod shape-determining protein MreB; Provisional; Region: PRK13927 657321001387 MreB and similar proteins; Region: MreB_like; cd10225 657321001388 nucleotide binding site [chemical binding]; other site 657321001389 Mg binding site [ion binding]; other site 657321001390 putative protofilament interaction site [polypeptide binding]; other site 657321001391 RodZ interaction site [polypeptide binding]; other site 657321001392 rod shape-determining protein MreC; Provisional; Region: PRK13922 657321001393 rod shape-determining protein MreC; Region: MreC; pfam04085 657321001394 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 657321001395 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657321001396 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657321001397 septum site-determining protein MinD; Region: minD_bact; TIGR01968 657321001398 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 657321001399 P-loop; other site 657321001400 ADP binding residues [chemical binding]; other site 657321001401 Switch I; other site 657321001402 Switch II; other site 657321001403 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 657321001404 active site 657321001405 dimer interfaces [polypeptide binding]; other site 657321001406 catalytic residues [active] 657321001407 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 657321001408 motif 1; other site 657321001409 dimer interface [polypeptide binding]; other site 657321001410 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 657321001411 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 657321001412 dimer interface [polypeptide binding]; other site 657321001413 anticodon binding site; other site 657321001414 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 657321001415 homodimer interface [polypeptide binding]; other site 657321001416 motif 1; other site 657321001417 active site 657321001418 motif 2; other site 657321001419 GAD domain; Region: GAD; pfam02938 657321001420 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 657321001421 active site 657321001422 motif 3; other site 657321001423 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657321001424 Double zinc ribbon; Region: DZR; pfam12773 657321001425 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 657321001426 Double zinc ribbon; Region: DZR; pfam12773 657321001427 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657321001428 Repair protein; Region: Repair_PSII; pfam04536 657321001429 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 657321001430 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 657321001431 FeS/SAM binding site; other site 657321001432 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 657321001433 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; cl15377 657321001434 FeS/SAM binding site; other site 657321001435 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 657321001436 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 657321001437 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 657321001438 G1 box; other site 657321001439 GTP/Mg2+ binding site [chemical binding]; other site 657321001440 Switch I region; other site 657321001441 G2 box; other site 657321001442 Switch II region; other site 657321001443 G3 box; other site 657321001444 G4 box; other site 657321001445 G5 box; other site 657321001446 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657321001447 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 657321001448 acyl-activating enzyme (AAE) consensus motif; other site 657321001449 AMP binding site [chemical binding]; other site 657321001450 active site 657321001451 CoA binding site [chemical binding]; other site 657321001452 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 657321001453 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657321001454 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657321001455 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 657321001456 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657321001457 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657321001458 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657321001459 anthranilate synthase component I; Provisional; Region: PRK13570 657321001460 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 657321001461 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 657321001462 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 657321001463 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 657321001464 glutamine binding [chemical binding]; other site 657321001465 catalytic triad [active] 657321001466 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 657321001467 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 657321001468 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 657321001469 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 657321001470 active site 657321001471 ribulose/triose binding site [chemical binding]; other site 657321001472 phosphate binding site [ion binding]; other site 657321001473 substrate (anthranilate) binding pocket [chemical binding]; other site 657321001474 product (indole) binding pocket [chemical binding]; other site 657321001475 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 657321001476 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 657321001477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321001478 catalytic residue [active] 657321001479 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 657321001480 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 657321001481 substrate binding site [chemical binding]; other site 657321001482 active site 657321001483 catalytic residues [active] 657321001484 heterodimer interface [polypeptide binding]; other site 657321001485 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 657321001486 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 657321001487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321001488 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 657321001489 active site 657321001490 phosphorylation site [posttranslational modification] 657321001491 intermolecular recognition site; other site 657321001492 dimerization interface [polypeptide binding]; other site 657321001493 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 657321001494 DNA binding site [nucleotide binding] 657321001495 fumarate hydratase; Provisional; Region: PRK06246 657321001496 KilA-N domain; Region: KilA-N; pfam04383 657321001497 LexA repressor; Validated; Region: PRK00215 657321001498 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 657321001499 putative Zn2+ binding site [ion binding]; other site 657321001500 putative DNA binding site [nucleotide binding]; other site 657321001501 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 657321001502 Catalytic site [active] 657321001503 Fic/DOC family; Region: Fic; cl00960 657321001504 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 657321001505 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 657321001506 GrpE; Region: GrpE; pfam01025 657321001507 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 657321001508 dimer interface [polypeptide binding]; other site 657321001509 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 657321001510 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657321001511 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 657321001512 nucleotide binding site [chemical binding]; other site 657321001513 NEF interaction site [polypeptide binding]; other site 657321001514 SBD interface [polypeptide binding]; other site 657321001515 chaperone protein DnaJ; Provisional; Region: PRK10767 657321001516 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 657321001517 HSP70 interaction site [polypeptide binding]; other site 657321001518 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 657321001519 substrate binding site [polypeptide binding]; other site 657321001520 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 657321001521 Zn binding sites [ion binding]; other site 657321001522 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657321001523 dimer interface [polypeptide binding]; other site 657321001524 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 657321001525 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 657321001526 S-adenosylmethionine binding site [chemical binding]; other site 657321001527 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 657321001528 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 657321001529 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321001530 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 657321001531 non-specific DNA binding site [nucleotide binding]; other site 657321001532 salt bridge; other site 657321001533 sequence-specific DNA binding site [nucleotide binding]; other site 657321001534 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 657321001535 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 657321001536 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 657321001537 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 657321001538 ornithine carbamoyltransferase; Provisional; Region: PRK00779 657321001539 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657321001540 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657321001541 putative acetyltransferase; Provisional; Region: PRK03624 657321001542 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321001543 Coenzyme A binding pocket [chemical binding]; other site 657321001544 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 657321001545 feedback inhibition sensing region; other site 657321001546 homohexameric interface [polypeptide binding]; other site 657321001547 nucleotide binding site [chemical binding]; other site 657321001548 N-acetyl-L-glutamate binding site [chemical binding]; other site 657321001549 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 657321001550 heterotetramer interface [polypeptide binding]; other site 657321001551 active site pocket [active] 657321001552 cleavage site 657321001553 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 657321001554 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657321001555 argininosuccinate lyase; Provisional; Region: PRK00855 657321001556 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 657321001557 active sites [active] 657321001558 tetramer interface [polypeptide binding]; other site 657321001559 argininosuccinate synthase; Provisional; Region: PRK13820 657321001560 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 657321001561 ANP binding site [chemical binding]; other site 657321001562 Substrate Binding Site II [chemical binding]; other site 657321001563 Substrate Binding Site I [chemical binding]; other site 657321001564 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 657321001565 HicB family; Region: HicB; pfam05534 657321001566 Flavin Reductases; Region: FlaRed; cl00801 657321001567 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 657321001568 active site 657321001569 catalytic site [active] 657321001570 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 657321001571 dockerin binding interface; other site 657321001572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657321001573 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 657321001574 dimer interface [polypeptide binding]; other site 657321001575 phosphorylation site [posttranslational modification] 657321001576 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 657321001577 ATP binding site [chemical binding]; other site 657321001578 Mg2+ binding site [ion binding]; other site 657321001579 G-X-G motif; other site 657321001580 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657321001581 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657321001582 FtsX-like permease family; Region: FtsX; pfam02687 657321001583 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657321001584 FtsX-like permease family; Region: FtsX; pfam02687 657321001585 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657321001586 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657321001587 Walker A/P-loop; other site 657321001588 ATP binding site [chemical binding]; other site 657321001589 Q-loop/lid; other site 657321001590 ABC transporter signature motif; other site 657321001591 Walker B; other site 657321001592 D-loop; other site 657321001593 H-loop/switch region; other site 657321001594 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 657321001595 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 657321001596 RNA binding site [nucleotide binding]; other site 657321001597 active site 657321001598 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657321001599 DHH family; Region: DHH; pfam01368 657321001600 DHHA1 domain; Region: DHHA1; pfam02272 657321001601 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 657321001602 translation initiation factor IF-2; Validated; Region: infB; PRK05306 657321001603 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 657321001604 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 657321001605 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 657321001606 G1 box; other site 657321001607 putative GEF interaction site [polypeptide binding]; other site 657321001608 GTP/Mg2+ binding site [chemical binding]; other site 657321001609 Switch I region; other site 657321001610 G2 box; other site 657321001611 G3 box; other site 657321001612 Switch II region; other site 657321001613 G4 box; other site 657321001614 G5 box; other site 657321001615 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 657321001616 Translation-initiation factor 2; Region: IF-2; pfam11987 657321001617 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 657321001618 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 657321001619 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 657321001620 putative RNA binding cleft [nucleotide binding]; other site 657321001621 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 657321001622 NusA N-terminal domain; Region: NusA_N; pfam08529 657321001623 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 657321001624 RNA binding site [nucleotide binding]; other site 657321001625 homodimer interface [polypeptide binding]; other site 657321001626 NusA-like KH domain; Region: KH_5; pfam13184 657321001627 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 657321001628 G-X-X-G motif; other site 657321001629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 657321001630 Sm and related proteins; Region: Sm_like; cl00259 657321001631 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 657321001632 putative oligomer interface [polypeptide binding]; other site 657321001633 putative RNA binding site [nucleotide binding]; other site 657321001634 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321001635 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 657321001636 non-specific DNA binding site [nucleotide binding]; other site 657321001637 salt bridge; other site 657321001638 sequence-specific DNA binding site [nucleotide binding]; other site 657321001639 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657321001640 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 657321001641 GGGtGRT protein; Region: GGGtGRT; pfam14057 657321001642 CpXC protein; Region: CpXC; pfam14353 657321001643 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657321001644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 657321001645 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657321001646 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 657321001647 protein binding site [polypeptide binding]; other site 657321001648 BioY family; Region: BioY; pfam02632 657321001649 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 657321001650 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 657321001651 PA14 domain; Region: PA14; cl08459 657321001652 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 657321001653 Cna protein B-type domain; Region: Cna_B; pfam05738 657321001654 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 657321001655 active site 657321001656 catalytic site [active] 657321001657 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 657321001658 active site 657321001659 catalytic site [active] 657321001660 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 657321001661 MgtE intracellular N domain; Region: MgtE_N; smart00924 657321001662 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 657321001663 Divalent cation transporter; Region: MgtE; pfam01769 657321001664 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 657321001665 FAD binding site [chemical binding]; other site 657321001666 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 657321001667 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 657321001668 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 657321001669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 657321001670 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657321001671 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 657321001672 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657321001673 Zn2+ binding site [ion binding]; other site 657321001674 Mg2+ binding site [ion binding]; other site 657321001675 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 657321001676 Pyruvate formate lyase 1; Region: PFL1; cd01678 657321001677 coenzyme A binding site [chemical binding]; other site 657321001678 active site 657321001679 catalytic residues [active] 657321001680 glycine loop; other site 657321001681 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 657321001682 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 657321001683 FeS/SAM binding site; other site 657321001684 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 657321001685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 657321001686 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 657321001687 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 657321001688 active site 657321001689 substrate binding site [chemical binding]; other site 657321001690 trimer interface [polypeptide binding]; other site 657321001691 CoA binding site [chemical binding]; other site 657321001692 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657321001693 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657321001694 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657321001695 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657321001696 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 657321001697 active site 657321001698 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657321001699 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657321001700 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 657321001701 active site 657321001702 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657321001703 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657321001704 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 657321001705 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 657321001706 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657321001707 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 657321001708 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 657321001709 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 657321001710 Ligand binding site; other site 657321001711 metal-binding site 657321001712 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 657321001713 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657321001714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321001715 NAD(P) binding site [chemical binding]; other site 657321001716 active site 657321001717 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 657321001718 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 657321001719 NAD binding site [chemical binding]; other site 657321001720 homotetramer interface [polypeptide binding]; other site 657321001721 homodimer interface [polypeptide binding]; other site 657321001722 substrate binding site [chemical binding]; other site 657321001723 active site 657321001724 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657321001725 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657321001726 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 657321001727 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 657321001728 Chain length determinant protein; Region: Wzz; cl15801 657321001729 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 657321001730 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 657321001731 active site 657321001732 catalytic site [active] 657321001733 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 657321001734 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 657321001735 active site 657321001736 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 657321001737 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 657321001738 active site 657321001739 HIGH motif; other site 657321001740 KMSKS motif; other site 657321001741 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 657321001742 tRNA binding surface [nucleotide binding]; other site 657321001743 anticodon binding site; other site 657321001744 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 657321001745 dimer interface [polypeptide binding]; other site 657321001746 putative tRNA-binding site [nucleotide binding]; other site 657321001747 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657321001748 putative substrate binding site 1 [chemical binding]; other site 657321001749 Na binding site 1 [ion binding]; other site 657321001750 putative substrate binding site 2 [chemical binding]; other site 657321001751 Na2 binding site [ion binding]; other site 657321001752 polyphosphate kinase; Provisional; Region: PRK05443 657321001753 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 657321001754 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 657321001755 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 657321001756 putative domain interface [polypeptide binding]; other site 657321001757 putative active site [active] 657321001758 catalytic site [active] 657321001759 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 657321001760 putative domain interface [polypeptide binding]; other site 657321001761 putative active site [active] 657321001762 catalytic site [active] 657321001763 6-phosphofructokinase; Provisional; Region: PRK03202 657321001764 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657321001765 active site 657321001766 ADP/pyrophosphate binding site [chemical binding]; other site 657321001767 dimerization interface [polypeptide binding]; other site 657321001768 allosteric effector site; other site 657321001769 fructose-1,6-bisphosphate binding site; other site 657321001770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 657321001771 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 657321001772 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 657321001773 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 657321001774 FMN binding site [chemical binding]; other site 657321001775 active site 657321001776 catalytic residues [active] 657321001777 substrate binding site [chemical binding]; other site 657321001778 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 657321001779 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 657321001780 dimer interface [polypeptide binding]; other site 657321001781 active site 657321001782 glycine-pyridoxal phosphate binding site [chemical binding]; other site 657321001783 folate binding site [chemical binding]; other site 657321001784 DNA protecting protein DprA; Region: dprA; TIGR00732 657321001785 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 657321001786 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 657321001787 active site 657321001788 stage V sporulation protein AD; Validated; Region: PRK08304 657321001789 stage V sporulation protein AD; Provisional; Region: PRK12404 657321001790 VanW like protein; Region: VanW; pfam04294 657321001791 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 657321001792 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 657321001793 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 657321001794 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 657321001795 reactive center loop; other site 657321001796 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 657321001797 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657321001798 HIGH motif; other site 657321001799 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657321001800 active site 657321001801 KMSKS motif; other site 657321001802 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 657321001803 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657321001804 active site 657321001805 HIGH motif; other site 657321001806 nucleotide binding site [chemical binding]; other site 657321001807 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 657321001808 KMSKS motif; other site 657321001809 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 657321001810 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 657321001811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321001812 NAD(P) binding site [chemical binding]; other site 657321001813 active site 657321001814 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 657321001815 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657321001816 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657321001817 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657321001818 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 657321001819 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657321001820 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657321001821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321001822 dimer interface [polypeptide binding]; other site 657321001823 conserved gate region; other site 657321001824 putative PBP binding loops; other site 657321001825 ABC-ATPase subunit interface; other site 657321001826 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657321001827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321001828 dimer interface [polypeptide binding]; other site 657321001829 conserved gate region; other site 657321001830 putative PBP binding loops; other site 657321001831 ABC-ATPase subunit interface; other site 657321001832 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 657321001833 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657321001834 Ca binding site [ion binding]; other site 657321001835 active site 657321001836 catalytic site [active] 657321001837 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 657321001838 S17 interaction site [polypeptide binding]; other site 657321001839 S8 interaction site; other site 657321001840 16S rRNA interaction site [nucleotide binding]; other site 657321001841 streptomycin interaction site [chemical binding]; other site 657321001842 23S rRNA interaction site [nucleotide binding]; other site 657321001843 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 657321001844 elongation factor G; Reviewed; Region: PRK00007 657321001845 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 657321001846 G1 box; other site 657321001847 putative GEF interaction site [polypeptide binding]; other site 657321001848 GTP/Mg2+ binding site [chemical binding]; other site 657321001849 Switch I region; other site 657321001850 G2 box; other site 657321001851 G3 box; other site 657321001852 Switch II region; other site 657321001853 G4 box; other site 657321001854 G5 box; other site 657321001855 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 657321001856 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 657321001857 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 657321001858 elongation factor Tu; Reviewed; Region: PRK00049 657321001859 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 657321001860 G1 box; other site 657321001861 GEF interaction site [polypeptide binding]; other site 657321001862 GTP/Mg2+ binding site [chemical binding]; other site 657321001863 Switch I region; other site 657321001864 G2 box; other site 657321001865 G3 box; other site 657321001866 Switch II region; other site 657321001867 G4 box; other site 657321001868 G5 box; other site 657321001869 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 657321001870 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 657321001871 Antibiotic Binding Site [chemical binding]; other site 657321001872 SpoVA protein; Region: SpoVA; cl04298 657321001873 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657321001874 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657321001875 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657321001876 catalytic residue [active] 657321001877 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 657321001878 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 657321001879 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 657321001880 Ligand Binding Site [chemical binding]; other site 657321001881 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657321001882 active site 657321001883 catalytic site [active] 657321001884 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 657321001885 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 657321001886 homodimer interface [polypeptide binding]; other site 657321001887 substrate-cofactor binding pocket; other site 657321001888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321001889 catalytic residue [active] 657321001890 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657321001891 Peptidase family M23; Region: Peptidase_M23; pfam01551 657321001892 DHHW protein; Region: DHHW; pfam14286 657321001893 DHHW protein; Region: DHHW; pfam14286 657321001894 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 657321001895 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 657321001896 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 657321001897 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 657321001898 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 657321001899 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 657321001900 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 657321001901 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 657321001902 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 657321001903 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 657321001904 putative translocon binding site; other site 657321001905 protein-rRNA interface [nucleotide binding]; other site 657321001906 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 657321001907 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 657321001908 G-X-X-G motif; other site 657321001909 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 657321001910 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 657321001911 23S rRNA interface [nucleotide binding]; other site 657321001912 5S rRNA interface [nucleotide binding]; other site 657321001913 putative antibiotic binding site [chemical binding]; other site 657321001914 L25 interface [polypeptide binding]; other site 657321001915 L27 interface [polypeptide binding]; other site 657321001916 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 657321001917 23S rRNA interface [nucleotide binding]; other site 657321001918 putative translocon interaction site; other site 657321001919 signal recognition particle (SRP54) interaction site; other site 657321001920 L23 interface [polypeptide binding]; other site 657321001921 trigger factor interaction site; other site 657321001922 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 657321001923 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 657321001924 RNA binding site [nucleotide binding]; other site 657321001925 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 657321001926 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 657321001927 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 657321001928 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 657321001929 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 657321001930 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 657321001931 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657321001932 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657321001933 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 657321001934 23S rRNA interface [nucleotide binding]; other site 657321001935 5S rRNA interface [nucleotide binding]; other site 657321001936 L27 interface [polypeptide binding]; other site 657321001937 L5 interface [polypeptide binding]; other site 657321001938 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 657321001939 23S rRNA binding site [nucleotide binding]; other site 657321001940 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 657321001941 adenylate kinase; Reviewed; Region: adk; PRK00279 657321001942 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 657321001943 AMP-binding site [chemical binding]; other site 657321001944 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 657321001945 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 657321001946 active site 657321001947 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 657321001948 RNA binding site [nucleotide binding]; other site 657321001949 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 657321001950 rRNA binding site [nucleotide binding]; other site 657321001951 predicted 30S ribosome binding site; other site 657321001952 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 657321001953 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 657321001954 30S ribosomal protein S13; Region: bact_S13; TIGR03631 657321001955 30S ribosomal protein S11; Validated; Region: PRK05309 657321001956 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657321001957 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 657321001958 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 657321001959 RNA binding surface [nucleotide binding]; other site 657321001960 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 657321001961 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 657321001962 alphaNTD homodimer interface [polypeptide binding]; other site 657321001963 alphaNTD - beta interaction site [polypeptide binding]; other site 657321001964 alphaNTD - beta' interaction site [polypeptide binding]; other site 657321001965 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 657321001966 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 657321001967 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 657321001968 dockerin binding interface; other site 657321001969 pyruvate kinase; Provisional; Region: PRK05826 657321001970 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 657321001971 domain interfaces; other site 657321001972 active site 657321001973 shikimate kinase; Reviewed; Region: aroK; PRK00131 657321001974 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 657321001975 ADP binding site [chemical binding]; other site 657321001976 magnesium binding site [ion binding]; other site 657321001977 putative shikimate binding site; other site 657321001978 RNA polymerase sigma-F factor; Region: spore_sigF; TIGR02885 657321001979 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657321001980 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657321001981 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 657321001982 DNA binding residues [nucleotide binding] 657321001983 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 657321001984 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 657321001985 ATP binding site [chemical binding]; other site 657321001986 Mg2+ binding site [ion binding]; other site 657321001987 G-X-G motif; other site 657321001988 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 657321001989 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657321001990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657321001991 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 657321001992 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 657321001993 S-adenosylmethionine binding site [chemical binding]; other site 657321001994 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 657321001995 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657321001996 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 657321001997 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657321001998 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657321001999 active site 657321002000 metal binding site [ion binding]; metal-binding site 657321002001 homotetramer interface [polypeptide binding]; other site 657321002002 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 657321002003 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 657321002004 putative catalytic cysteine [active] 657321002005 gamma-glutamyl kinase; Provisional; Region: PRK05429 657321002006 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 657321002007 nucleotide binding site [chemical binding]; other site 657321002008 homotetrameric interface [polypeptide binding]; other site 657321002009 putative phosphate binding site [ion binding]; other site 657321002010 putative allosteric binding site; other site 657321002011 Homoserine O-succinyltransferase; Region: HTS; pfam04204 657321002012 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 657321002013 proposed active site lysine [active] 657321002014 conserved cys residue [active] 657321002015 prolyl-tRNA synthetase; Provisional; Region: PRK08661 657321002016 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 657321002017 dimer interface [polypeptide binding]; other site 657321002018 motif 1; other site 657321002019 active site 657321002020 motif 2; other site 657321002021 motif 3; other site 657321002022 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 657321002023 anticodon binding site; other site 657321002024 zinc-binding site [ion binding]; other site 657321002025 acyl carrier protein; Provisional; Region: acpP; PRK00982 657321002026 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 657321002027 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657321002028 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 657321002029 shikimate binding site; other site 657321002030 NAD(P) binding site [chemical binding]; other site 657321002031 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 657321002032 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 657321002033 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657321002034 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 657321002035 active site 657321002036 dimer interface [polypeptide binding]; other site 657321002037 metal binding site [ion binding]; metal-binding site 657321002038 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 657321002039 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 657321002040 hinge; other site 657321002041 active site 657321002042 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 657321002043 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 657321002044 Tetramer interface [polypeptide binding]; other site 657321002045 active site 657321002046 FMN-binding site [chemical binding]; other site 657321002047 Chorismate mutase type II; Region: CM_2; smart00830 657321002048 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 657321002049 Prephenate dehydratase; Region: PDT; pfam00800 657321002050 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 657321002051 putative L-Phe binding site [chemical binding]; other site 657321002052 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321002053 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 657321002054 sequence-specific DNA binding site [nucleotide binding]; other site 657321002055 salt bridge; other site 657321002056 Double zinc ribbon; Region: DZR; pfam12773 657321002057 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657321002058 trehalose synthase; Region: treS_nterm; TIGR02456 657321002059 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_2; cd11348 657321002060 active site 657321002061 catalytic site [active] 657321002062 DNA protecting protein DprA; Region: dprA; TIGR00732 657321002063 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657321002064 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657321002065 active site 657321002066 HIGH motif; other site 657321002067 nucleotide binding site [chemical binding]; other site 657321002068 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657321002069 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 657321002070 active site 657321002071 KMSKS motif; other site 657321002072 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 657321002073 tRNA binding surface [nucleotide binding]; other site 657321002074 anticodon binding site; other site 657321002075 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 657321002076 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 657321002077 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657321002078 putative NAD(P) binding site [chemical binding]; other site 657321002079 catalytic Zn binding site [ion binding]; other site 657321002080 structural Zn binding site [ion binding]; other site 657321002081 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 657321002082 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 657321002083 substrate binding site [chemical binding]; other site 657321002084 hexamer interface [polypeptide binding]; other site 657321002085 metal binding site [ion binding]; metal-binding site 657321002086 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657321002087 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 657321002088 putative substrate translocation pore; other site 657321002089 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 657321002090 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 657321002091 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 657321002092 inhibitor binding site; inhibition site 657321002093 catalytic Zn binding site [ion binding]; other site 657321002094 structural Zn binding site [ion binding]; other site 657321002095 NADP binding site [chemical binding]; other site 657321002096 tetramer interface [polypeptide binding]; other site 657321002097 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 657321002098 intersubunit interface [polypeptide binding]; other site 657321002099 active site 657321002100 zinc binding site [ion binding]; other site 657321002101 Na+ binding site [ion binding]; other site 657321002102 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657321002103 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 657321002104 substrate binding site [chemical binding]; other site 657321002105 ATP binding site [chemical binding]; other site 657321002106 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 657321002107 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657321002108 active site 657321002109 catalytic tetrad [active] 657321002110 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657321002111 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 657321002112 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657321002113 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 657321002114 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 657321002115 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 657321002116 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657321002117 putative active site [active] 657321002118 metal binding site [ion binding]; metal-binding site 657321002119 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 657321002120 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 657321002121 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 657321002122 active site 657321002123 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 657321002124 Protein of unknown function (DUF2712); Region: DUF2712; pfam10916 657321002125 Protein of unknown function (DUF2705); Region: DUF2705; pfam10920 657321002126 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657321002127 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657321002128 Walker A/P-loop; other site 657321002129 ATP binding site [chemical binding]; other site 657321002130 Q-loop/lid; other site 657321002131 ABC transporter signature motif; other site 657321002132 Walker B; other site 657321002133 D-loop; other site 657321002134 H-loop/switch region; other site 657321002135 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321002136 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321002137 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657321002138 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 657321002139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657321002140 Zn2+ binding site [ion binding]; other site 657321002141 Mg2+ binding site [ion binding]; other site 657321002142 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 657321002143 RloB-like protein; Region: RloB; pfam13707 657321002144 AAA domain; Region: AAA_21; pfam13304 657321002145 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 657321002146 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 657321002147 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 657321002148 ATP binding site [chemical binding]; other site 657321002149 putative Mg++ binding site [ion binding]; other site 657321002150 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 657321002151 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657321002152 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657321002153 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657321002154 HsdM N-terminal domain; Region: HsdM_N; pfam12161 657321002155 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657321002156 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657321002157 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 657321002158 Int/Topo IB signature motif; other site 657321002159 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657321002160 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657321002161 Putative viral replication protein; Region: Viral_Rep; pfam02407 657321002162 RNA helicase; Region: RNA_helicase; pfam00910 657321002163 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 657321002164 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657321002165 Helix-turn-helix domain; Region: HTH_17; pfam12728 657321002166 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657321002167 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 657321002168 Int/Topo IB signature motif; other site 657321002169 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321002170 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 657321002171 non-specific DNA binding site [nucleotide binding]; other site 657321002172 salt bridge; other site 657321002173 sequence-specific DNA binding site [nucleotide binding]; other site 657321002174 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657321002175 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 657321002176 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 657321002177 active site 657321002178 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321002179 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 657321002180 non-specific DNA binding site [nucleotide binding]; other site 657321002181 salt bridge; other site 657321002182 sequence-specific DNA binding site [nucleotide binding]; other site 657321002183 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321002184 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321002185 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657321002186 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657321002187 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 657321002188 Interdomain contacts; other site 657321002189 Cytokine receptor motif; other site 657321002190 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 657321002191 Interdomain contacts; other site 657321002192 Cytokine receptor motif; other site 657321002193 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 657321002194 Interdomain contacts; other site 657321002195 Cytokine receptor motif; other site 657321002196 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 657321002197 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 657321002198 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 657321002199 TMP-binding site; other site 657321002200 ATP-binding site [chemical binding]; other site 657321002201 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 657321002202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321002203 Coenzyme A binding pocket [chemical binding]; other site 657321002204 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 657321002205 DJ-1 family protein; Region: not_thiJ; TIGR01383 657321002206 conserved cys residue [active] 657321002207 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 657321002208 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 657321002209 YceG-like family; Region: YceG; pfam02618 657321002210 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 657321002211 dimerization interface [polypeptide binding]; other site 657321002212 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657321002213 Peptidase family U32; Region: Peptidase_U32; pfam01136 657321002214 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 657321002215 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 657321002216 motif 1; other site 657321002217 active site 657321002218 motif 2; other site 657321002219 motif 3; other site 657321002220 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 657321002221 DHHA1 domain; Region: DHHA1; pfam02272 657321002222 endonuclease IV; Provisional; Region: PRK01060 657321002223 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 657321002224 AP (apurinic/apyrimidinic) site pocket; other site 657321002225 DNA interaction; other site 657321002226 Metal-binding active site; metal-binding site 657321002227 EamA-like transporter family; Region: EamA; pfam00892 657321002228 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 657321002229 EamA-like transporter family; Region: EamA; pfam00892 657321002230 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657321002231 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 657321002232 motif II; other site 657321002233 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657321002234 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657321002235 HD domain; Region: HD_3; pfam13023 657321002236 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 657321002237 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657321002238 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657321002239 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657321002240 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657321002241 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657321002242 Walker A/P-loop; other site 657321002243 ATP binding site [chemical binding]; other site 657321002244 Q-loop/lid; other site 657321002245 ABC transporter signature motif; other site 657321002246 Walker B; other site 657321002247 D-loop; other site 657321002248 H-loop/switch region; other site 657321002249 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 657321002250 phosphoglyceromutase; Provisional; Region: PRK05434 657321002251 triosephosphate isomerase; Provisional; Region: PRK14567 657321002252 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 657321002253 substrate binding site [chemical binding]; other site 657321002254 dimer interface [polypeptide binding]; other site 657321002255 catalytic triad [active] 657321002256 Phosphoglycerate kinase; Region: PGK; pfam00162 657321002257 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 657321002258 substrate binding site [chemical binding]; other site 657321002259 hinge regions; other site 657321002260 ADP binding site [chemical binding]; other site 657321002261 catalytic site [active] 657321002262 S-ribosylhomocysteinase; Provisional; Region: PRK02260 657321002263 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 657321002264 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 657321002265 active site 657321002266 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 657321002267 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 657321002268 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 657321002269 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321002270 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321002271 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 657321002272 sequence-specific DNA binding site [nucleotide binding]; other site 657321002273 salt bridge; other site 657321002274 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 657321002275 NodB motif; other site 657321002276 active site 657321002277 catalytic site [active] 657321002278 metal binding site [ion binding]; metal-binding site 657321002279 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 657321002280 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657321002281 active site 657321002282 HIGH motif; other site 657321002283 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657321002284 KMSKS motif; other site 657321002285 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657321002286 tRNA binding surface [nucleotide binding]; other site 657321002287 anticodon binding site; other site 657321002288 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 657321002289 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 657321002290 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657321002291 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 657321002292 FeS/SAM binding site; other site 657321002293 recombination regulator RecX; Reviewed; Region: recX; PRK00117 657321002294 recombinase A; Provisional; Region: recA; PRK09354 657321002295 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 657321002296 hexamer interface [polypeptide binding]; other site 657321002297 Walker A motif; other site 657321002298 ATP binding site [chemical binding]; other site 657321002299 Walker B motif; other site 657321002300 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 657321002301 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 657321002302 S-adenosylmethionine binding site [chemical binding]; other site 657321002303 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 657321002304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321002305 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 657321002306 active site 657321002307 phosphorylation site [posttranslational modification] 657321002308 intermolecular recognition site; other site 657321002309 dimerization interface [polypeptide binding]; other site 657321002310 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 657321002311 DNA binding site [nucleotide binding] 657321002312 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 657321002313 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 657321002314 Family of unknown function (DUF633); Region: DUF633; pfam04816 657321002315 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 657321002316 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 657321002317 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657321002318 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 657321002319 Walker A motif; other site 657321002320 ATP binding site [chemical binding]; other site 657321002321 Walker B motif; other site 657321002322 arginine finger; other site 657321002323 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 657321002324 RNA polymerase factor sigma-70; Validated; Region: PRK08295 657321002325 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657321002326 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657321002327 Probable zinc-binding domain; Region: zf-trcl; pfam13451 657321002328 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 657321002329 Protein of unknown function DUF262; Region: DUF262; pfam03235 657321002330 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 657321002331 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 657321002332 active site 657321002333 putative metal dependent hydrolase; Provisional; Region: PRK11598 657321002334 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 657321002335 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 657321002336 UvrB/uvrC motif; Region: UVR; pfam02151 657321002337 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 657321002338 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 657321002339 ADP binding site [chemical binding]; other site 657321002340 phosphagen binding site; other site 657321002341 substrate specificity loop; other site 657321002342 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 657321002343 Clp amino terminal domain; Region: Clp_N; pfam02861 657321002344 Clp amino terminal domain; Region: Clp_N; pfam02861 657321002345 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 657321002346 Walker A motif; other site 657321002347 ATP binding site [chemical binding]; other site 657321002348 Walker B motif; other site 657321002349 arginine finger; other site 657321002350 UvrB/uvrC motif; Region: UVR; pfam02151 657321002351 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 657321002352 Walker A motif; other site 657321002353 ATP binding site [chemical binding]; other site 657321002354 Walker B motif; other site 657321002355 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657321002356 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 657321002357 KH domain; Region: KH_4; pfam13083 657321002358 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 657321002359 signal recognition particle protein; Provisional; Region: PRK10867 657321002360 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 657321002361 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 657321002362 P loop; other site 657321002363 GTP binding site [chemical binding]; other site 657321002364 Signal peptide binding domain; Region: SRP_SPB; pfam02978 657321002365 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 657321002366 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 657321002367 DNA binding residues [nucleotide binding] 657321002368 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 657321002369 PhoH-like protein; Region: PhoH; pfam02562 657321002370 metal-binding heat shock protein; Provisional; Region: PRK00016 657321002371 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 657321002372 GTPase Era; Reviewed; Region: era; PRK00089 657321002373 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 657321002374 G1 box; other site 657321002375 GTP/Mg2+ binding site [chemical binding]; other site 657321002376 Switch I region; other site 657321002377 G2 box; other site 657321002378 Switch II region; other site 657321002379 G3 box; other site 657321002380 G4 box; other site 657321002381 G5 box; other site 657321002382 KH domain; Region: KH_2; pfam07650 657321002383 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 657321002384 Recombination protein O N terminal; Region: RecO_N; pfam11967 657321002385 Recombination protein O C terminal; Region: RecO_C; pfam02565 657321002386 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 657321002387 MutS domain III; Region: MutS_III; pfam05192 657321002388 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 657321002389 Walker A/P-loop; other site 657321002390 ATP binding site [chemical binding]; other site 657321002391 Q-loop/lid; other site 657321002392 ABC transporter signature motif; other site 657321002393 Walker B; other site 657321002394 D-loop; other site 657321002395 H-loop/switch region; other site 657321002396 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cd07307 657321002397 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 657321002398 Smr domain; Region: Smr; pfam01713 657321002399 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 657321002400 RimM N-terminal domain; Region: RimM; pfam01782 657321002401 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 657321002402 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 657321002403 dimerization domain swap beta strand [polypeptide binding]; other site 657321002404 regulatory protein interface [polypeptide binding]; other site 657321002405 active site 657321002406 regulatory phosphorylation site [posttranslational modification]; other site 657321002407 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 657321002408 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 657321002409 active site 657321002410 (T/H)XGH motif; other site 657321002411 cell division protein MraZ; Reviewed; Region: PRK00326 657321002412 MraZ protein; Region: MraZ; pfam02381 657321002413 MraZ protein; Region: MraZ; pfam02381 657321002414 MraW methylase family; Region: Methyltransf_5; pfam01795 657321002415 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 657321002416 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 657321002417 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 657321002418 Mg++ binding site [ion binding]; other site 657321002419 putative catalytic motif [active] 657321002420 putative substrate binding site [chemical binding]; other site 657321002421 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 657321002422 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 657321002423 active site 657321002424 homodimer interface [polypeptide binding]; other site 657321002425 cell division protein FtsZ; Validated; Region: PRK09330 657321002426 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 657321002427 nucleotide binding site [chemical binding]; other site 657321002428 SulA interaction site; other site 657321002429 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 657321002430 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 657321002431 membrane-bound complex binding site; other site 657321002432 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 657321002433 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 657321002434 active site 657321002435 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657321002436 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 657321002437 Cl- selectivity filter; other site 657321002438 Cl- binding residues [ion binding]; other site 657321002439 pore gating glutamate residue; other site 657321002440 dimer interface [polypeptide binding]; other site 657321002441 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 657321002442 L-aspartate oxidase; Provisional; Region: PRK06175 657321002443 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 657321002444 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 657321002445 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 657321002446 dimerization interface [polypeptide binding]; other site 657321002447 active site 657321002448 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657321002449 AAA domain; Region: AAA_14; pfam13173 657321002450 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 657321002451 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 657321002452 active site 657321002453 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 657321002454 FemAB family; Region: FemAB; pfam02388 657321002455 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 657321002456 FemAB family; Region: FemAB; pfam02388 657321002457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657321002458 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 657321002459 dimerization interface [polypeptide binding]; other site 657321002460 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 657321002461 dimer interface [polypeptide binding]; other site 657321002462 phosphorylation site [posttranslational modification] 657321002463 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 657321002464 ATP binding site [chemical binding]; other site 657321002465 Mg2+ binding site [ion binding]; other site 657321002466 G-X-G motif; other site 657321002467 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 657321002468 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657321002469 Helix-turn-helix domain; Region: HTH_17; cl17695 657321002470 Origin recognition complex (ORC) subunit 3 N-terminus; Region: ORC3_N; pfam07034 657321002471 Replication initiation factor; Region: Rep_trans; pfam02486 657321002472 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657321002473 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 657321002474 HSP70 interaction site [polypeptide binding]; other site 657321002475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321002476 AAA domain; Region: AAA_21; pfam13304 657321002477 Walker A/P-loop; other site 657321002478 ATP binding site [chemical binding]; other site 657321002479 AAA domain; Region: AAA_21; pfam13304 657321002480 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321002481 active site 657321002482 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 657321002483 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 657321002484 Na binding site [ion binding]; other site 657321002485 alanine racemase; Reviewed; Region: alr; PRK00053 657321002486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 657321002487 active site 657321002488 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657321002489 dimer interface [polypeptide binding]; other site 657321002490 substrate binding site [chemical binding]; other site 657321002491 catalytic residues [active] 657321002492 DNA polymerase I; Provisional; Region: PRK05755 657321002493 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 657321002494 active site 657321002495 metal binding site 1 [ion binding]; metal-binding site 657321002496 putative 5' ssDNA interaction site; other site 657321002497 metal binding site 3; metal-binding site 657321002498 metal binding site 2 [ion binding]; metal-binding site 657321002499 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 657321002500 putative DNA binding site [nucleotide binding]; other site 657321002501 putative metal binding site [ion binding]; other site 657321002502 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 657321002503 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 657321002504 active site 657321002505 DNA binding site [nucleotide binding] 657321002506 catalytic site [active] 657321002507 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 657321002508 Low molecular weight phosphatase family; Region: LMWPc; cd00115 657321002509 active site 657321002510 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 657321002511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321002512 Coenzyme A binding pocket [chemical binding]; other site 657321002513 UGMP family protein; Validated; Region: PRK09604 657321002514 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657321002515 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 657321002516 active site 657321002517 UDP-glucose 4-epimerase; Region: PLN02240 657321002518 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657321002519 NAD binding site [chemical binding]; other site 657321002520 homodimer interface [polypeptide binding]; other site 657321002521 active site 657321002522 substrate binding site [chemical binding]; other site 657321002523 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 657321002524 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 657321002525 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 657321002526 dockerin binding interface; other site 657321002527 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 657321002528 Peptidase family M50; Region: Peptidase_M50; pfam02163 657321002529 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 657321002530 active site 657321002531 putative substrate binding region [chemical binding]; other site 657321002532 ScpA/B protein; Region: ScpA_ScpB; cl00598 657321002533 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 657321002534 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 657321002535 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657321002536 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657321002537 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 657321002538 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 657321002539 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 657321002540 RNA binding surface [nucleotide binding]; other site 657321002541 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 657321002542 active site 657321002543 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657321002544 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 657321002545 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 657321002546 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 657321002547 carboxyltransferase (CT) interaction site; other site 657321002548 biotinylation site [posttranslational modification]; other site 657321002549 oxaloacetate decarboxylase; Provisional; Region: PRK12331 657321002550 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 657321002551 active site 657321002552 catalytic residues [active] 657321002553 metal binding site [ion binding]; metal-binding site 657321002554 homodimer binding site [polypeptide binding]; other site 657321002555 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 657321002556 Interdomain contacts; other site 657321002557 Cytokine receptor motif; other site 657321002558 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 657321002559 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 657321002560 Interdomain contacts; other site 657321002561 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 657321002562 Interdomain contacts; other site 657321002563 Cytokine receptor motif; other site 657321002564 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 657321002565 ketol-acid reductoisomerase; Provisional; Region: PRK05479 657321002566 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 657321002567 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 657321002568 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657321002569 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 657321002570 putative valine binding site [chemical binding]; other site 657321002571 dimer interface [polypeptide binding]; other site 657321002572 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657321002573 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657321002574 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657321002575 PYR/PP interface [polypeptide binding]; other site 657321002576 dimer interface [polypeptide binding]; other site 657321002577 TPP binding site [chemical binding]; other site 657321002578 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657321002579 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 657321002580 TPP-binding site [chemical binding]; other site 657321002581 Heavy-metal-associated domain; Region: HMA; pfam00403 657321002582 metal-binding site [ion binding] 657321002583 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657321002584 Heavy-metal-associated domain; Region: HMA; pfam00403 657321002585 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657321002586 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657321002587 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 657321002588 dimerization interface [polypeptide binding]; other site 657321002589 putative DNA binding site [nucleotide binding]; other site 657321002590 putative Zn2+ binding site [ion binding]; other site 657321002591 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 657321002592 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 657321002593 Domain of unknown function (DUF814); Region: DUF814; pfam05670 657321002594 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 657321002595 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 657321002596 FeS/SAM binding site; other site 657321002597 pullulanase, type I; Region: pulA_typeI; TIGR02104 657321002598 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 657321002599 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 657321002600 Ca binding site [ion binding]; other site 657321002601 active site 657321002602 catalytic site [active] 657321002603 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 657321002604 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 657321002605 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 657321002606 Ligand Binding Site [chemical binding]; other site 657321002607 Quinolinate synthetase A protein; Region: NadA; pfam02445 657321002608 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657321002609 active site 657321002610 catalytic site [active] 657321002611 Transcriptional regulator [Transcription]; Region: LytR; COG1316 657321002612 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 657321002613 5'-nucleotidase; Provisional; Region: PRK03826 657321002614 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657321002615 Predicted membrane protein [Function unknown]; Region: COG3463 657321002616 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 657321002617 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 657321002618 active site 657321002619 metal binding site [ion binding]; metal-binding site 657321002620 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 657321002621 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657321002622 Ligand binding site; other site 657321002623 LicD family; Region: LicD; cl01378 657321002624 A new structural DNA glycosylase; Region: AlkD_like; cd06561 657321002625 active site 657321002626 Predicted membrane protein [Function unknown]; Region: COG3601 657321002627 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657321002628 hypothetical protein; Provisional; Region: PRK09609 657321002629 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657321002630 glycogen synthase; Provisional; Region: glgA; PRK00654 657321002631 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 657321002632 ADP-binding pocket [chemical binding]; other site 657321002633 homodimer interface [polypeptide binding]; other site 657321002634 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 657321002635 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 657321002636 active site 657321002637 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 657321002638 dimer interface [polypeptide binding]; other site 657321002639 N-terminal domain interface [polypeptide binding]; other site 657321002640 sulfate 1 binding site; other site 657321002641 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 657321002642 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657321002643 ligand binding site; other site 657321002644 oligomer interface; other site 657321002645 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 657321002646 dimer interface [polypeptide binding]; other site 657321002647 N-terminal domain interface [polypeptide binding]; other site 657321002648 sulfate 1 binding site; other site 657321002649 glycogen branching enzyme; Provisional; Region: PRK12313 657321002650 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657321002651 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657321002652 active site 657321002653 catalytic site [active] 657321002654 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657321002655 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 657321002656 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 657321002657 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 657321002658 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 657321002659 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 657321002660 Nitrogen regulatory protein P-II; Region: P-II; smart00938 657321002661 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 657321002662 active site 657321002663 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 657321002664 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657321002665 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657321002666 AMP binding site [chemical binding]; other site 657321002667 active site 657321002668 acyl-activating enzyme (AAE) consensus motif; other site 657321002669 CoA binding site [chemical binding]; other site 657321002670 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657321002671 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 657321002672 dimer interface [polypeptide binding]; other site 657321002673 active site 657321002674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657321002675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657321002676 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 657321002677 dimerization interface [polypeptide binding]; other site 657321002678 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657321002679 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 657321002680 putative active site [active] 657321002681 metal binding site [ion binding]; metal-binding site 657321002682 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657321002683 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657321002684 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 657321002685 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657321002686 active site 657321002687 catalytic site [active] 657321002688 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 657321002689 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657321002690 Coenzyme A binding pocket [chemical binding]; other site 657321002691 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657321002692 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 657321002693 Cl- selectivity filter; other site 657321002694 Cl- binding residues [ion binding]; other site 657321002695 pore gating glutamate residue; other site 657321002696 dimer interface [polypeptide binding]; other site 657321002697 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657321002698 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321002699 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657321002700 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657321002701 Rubrerythrin [Energy production and conversion]; Region: COG1592 657321002702 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 657321002703 binuclear metal center [ion binding]; other site 657321002704 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657321002705 iron binding site [ion binding]; other site 657321002706 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657321002707 PBP superfamily domain; Region: PBP_like; cl17867 657321002708 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 657321002709 membrane-bound complex binding site; other site 657321002710 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657321002711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321002712 dimer interface [polypeptide binding]; other site 657321002713 conserved gate region; other site 657321002714 putative PBP binding loops; other site 657321002715 ABC-ATPase subunit interface; other site 657321002716 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657321002717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321002718 dimer interface [polypeptide binding]; other site 657321002719 conserved gate region; other site 657321002720 putative PBP binding loops; other site 657321002721 ABC-ATPase subunit interface; other site 657321002722 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 657321002723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321002724 Walker A/P-loop; other site 657321002725 ATP binding site [chemical binding]; other site 657321002726 Q-loop/lid; other site 657321002727 ABC transporter signature motif; other site 657321002728 Walker B; other site 657321002729 D-loop; other site 657321002730 H-loop/switch region; other site 657321002731 TOBE domain; Region: TOBE_2; pfam08402 657321002732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 657321002733 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 657321002734 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 657321002735 putative ATP binding site [chemical binding]; other site 657321002736 putative substrate interface [chemical binding]; other site 657321002737 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 657321002738 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 657321002739 tRNA; other site 657321002740 putative tRNA binding site [nucleotide binding]; other site 657321002741 putative NADP binding site [chemical binding]; other site 657321002742 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 657321002743 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 657321002744 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 657321002745 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; cl17708 657321002746 domain interfaces; other site 657321002747 active site 657321002748 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 657321002749 dimer interface [polypeptide binding]; other site 657321002750 active site 657321002751 Schiff base residues; other site 657321002752 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 657321002753 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 657321002754 inhibitor-cofactor binding pocket; inhibition site 657321002755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321002756 catalytic residue [active] 657321002757 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657321002758 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 657321002759 homodimer interface [polypeptide binding]; other site 657321002760 substrate-cofactor binding pocket; other site 657321002761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321002762 catalytic residue [active] 657321002763 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 657321002764 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 657321002765 4Fe-4S binding domain; Region: Fer4; pfam00037 657321002766 4Fe-4S binding domain; Region: Fer4; pfam00037 657321002767 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 657321002768 CPxP motif; other site 657321002769 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 657321002770 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657321002771 catalytic residues [active] 657321002772 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 657321002773 thiS-thiF/thiG interaction site; other site 657321002774 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 657321002775 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 657321002776 ATP binding site [chemical binding]; other site 657321002777 substrate interface [chemical binding]; other site 657321002778 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 657321002779 MPN+ (JAMM) motif; other site 657321002780 Zinc-binding site [ion binding]; other site 657321002781 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 657321002782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657321002783 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657321002784 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 657321002785 L-aspartate oxidase; Provisional; Region: PRK06175 657321002786 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 657321002787 Ferredoxin [Energy production and conversion]; Region: COG1146 657321002788 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657321002789 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 657321002790 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 657321002791 Active Sites [active] 657321002792 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 657321002793 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 657321002794 CysD dimerization site [polypeptide binding]; other site 657321002795 G1 box; other site 657321002796 putative GEF interaction site [polypeptide binding]; other site 657321002797 GTP/Mg2+ binding site [chemical binding]; other site 657321002798 Switch I region; other site 657321002799 G2 box; other site 657321002800 G3 box; other site 657321002801 Switch II region; other site 657321002802 G4 box; other site 657321002803 G5 box; other site 657321002804 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 657321002805 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 657321002806 TM2 domain; Region: TM2; cl00984 657321002807 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 657321002808 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 657321002809 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 657321002810 DNA binding site [nucleotide binding] 657321002811 active site 657321002812 VanZ like family; Region: VanZ; pfam04892 657321002813 Condensation domain; Region: Condensation; pfam00668 657321002814 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 657321002815 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 657321002816 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 657321002817 acyl-activating enzyme (AAE) consensus motif; other site 657321002818 AMP binding site [chemical binding]; other site 657321002819 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 657321002820 Condensation domain; Region: Condensation; pfam00668 657321002821 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 657321002822 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 657321002823 acyl-activating enzyme (AAE) consensus motif; other site 657321002824 AMP binding site [chemical binding]; other site 657321002825 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 657321002826 thioester reductase domain; Region: Thioester-redct; TIGR01746 657321002827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321002828 NAD(P) binding site [chemical binding]; other site 657321002829 active site 657321002830 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657321002831 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321002832 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 657321002833 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 657321002834 anti sigma factor interaction site; other site 657321002835 regulatory phosphorylation site [posttranslational modification]; other site 657321002836 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 657321002837 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; cl00075 657321002838 AzlC protein; Region: AzlC; pfam03591 657321002839 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 657321002840 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 657321002841 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 657321002842 active site 657321002843 metal binding site [ion binding]; metal-binding site 657321002844 DNA binding site [nucleotide binding] 657321002845 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 657321002846 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 657321002847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321002848 Walker A/P-loop; other site 657321002849 ATP binding site [chemical binding]; other site 657321002850 Q-loop/lid; other site 657321002851 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 657321002852 ABC transporter signature motif; other site 657321002853 Walker B; other site 657321002854 D-loop; other site 657321002855 H-loop/switch region; other site 657321002856 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 657321002857 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657321002858 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657321002859 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 657321002860 motif II; other site 657321002861 Predicted integral membrane protein [Function unknown]; Region: COG5658 657321002862 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 657321002863 SdpI/YhfL protein family; Region: SdpI; pfam13630 657321002864 enolase; Provisional; Region: eno; PRK00077 657321002865 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 657321002866 dimer interface [polypeptide binding]; other site 657321002867 metal binding site [ion binding]; metal-binding site 657321002868 substrate binding pocket [chemical binding]; other site 657321002869 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321002870 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657321002871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321002872 Coenzyme A binding pocket [chemical binding]; other site 657321002873 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657321002874 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657321002875 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 657321002876 active site 657321002877 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 657321002878 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 657321002879 hypothetical protein; Provisional; Region: PRK13690 657321002880 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657321002881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321002882 Coenzyme A binding pocket [chemical binding]; other site 657321002883 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 657321002884 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 657321002885 G1 box; other site 657321002886 putative GEF interaction site [polypeptide binding]; other site 657321002887 GTP/Mg2+ binding site [chemical binding]; other site 657321002888 Switch I region; other site 657321002889 G2 box; other site 657321002890 G3 box; other site 657321002891 Switch II region; other site 657321002892 G4 box; other site 657321002893 G5 box; other site 657321002894 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 657321002895 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 657321002896 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 657321002897 YacP-like NYN domain; Region: NYN_YacP; pfam05991 657321002898 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 657321002899 active site 657321002900 catalytic residues [active] 657321002901 metal binding site [ion binding]; metal-binding site 657321002902 Putative zinc-finger; Region: zf-HC2; pfam13490 657321002903 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 657321002904 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 657321002905 DNA binding residues [nucleotide binding] 657321002906 putative dimer interface [polypeptide binding]; other site 657321002907 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 657321002908 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 657321002909 active site 657321002910 nucleophile elbow; other site 657321002911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657321002912 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657321002913 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657321002914 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 657321002915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321002916 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 657321002917 NAD(P) binding site [chemical binding]; other site 657321002918 active site 657321002919 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 657321002920 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657321002921 dimer interface [polypeptide binding]; other site 657321002922 active site 657321002923 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 657321002924 active site 657321002925 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657321002926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657321002927 putative acyl-acceptor binding pocket; other site 657321002928 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 657321002929 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 657321002930 active site 657321002931 HIGH motif; other site 657321002932 dimer interface [polypeptide binding]; other site 657321002933 KMSKS motif; other site 657321002934 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 657321002935 active site 657321002936 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657321002937 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 657321002938 active site 657321002939 phosphorylation site [posttranslational modification] 657321002940 intermolecular recognition site; other site 657321002941 dimerization interface [polypeptide binding]; other site 657321002942 LytTr DNA-binding domain; Region: LytTR; pfam04397 657321002943 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 657321002944 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 657321002945 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 657321002946 V-type ATP synthase subunit B; Provisional; Region: PRK04196 657321002947 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657321002948 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 657321002949 Walker A motif homologous position; other site 657321002950 Walker B motif; other site 657321002951 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657321002952 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 657321002953 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 657321002954 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 657321002955 V-type ATP synthase subunit K; Validated; Region: PRK06558 657321002956 Fic family protein [Function unknown]; Region: COG3177 657321002957 Fic/DOC family; Region: Fic; pfam02661 657321002958 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 657321002959 putative deacylase active site [active] 657321002960 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657321002961 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 657321002962 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 657321002963 Protein export membrane protein; Region: SecD_SecF; cl14618 657321002964 Protein export membrane protein; Region: SecD_SecF; cl14618 657321002965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657321002966 Low molecular weight phosphatase family; Region: LMWPc; cl00105 657321002967 Bacterial sugar transferase; Region: Bac_transf; cl00939 657321002968 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657321002969 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 657321002970 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657321002971 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 657321002972 putative ADP-binding pocket [chemical binding]; other site 657321002973 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657321002974 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 657321002975 active site 657321002976 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 657321002977 dinuclear metal binding motif [ion binding]; other site 657321002978 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 657321002979 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657321002980 substrate binding pocket [chemical binding]; other site 657321002981 membrane-bound complex binding site; other site 657321002982 hinge residues; other site 657321002983 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 657321002984 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321002985 dimer interface [polypeptide binding]; other site 657321002986 conserved gate region; other site 657321002987 putative PBP binding loops; other site 657321002988 ABC-ATPase subunit interface; other site 657321002989 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657321002990 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 657321002991 Walker A/P-loop; other site 657321002992 ATP binding site [chemical binding]; other site 657321002993 Q-loop/lid; other site 657321002994 ABC transporter signature motif; other site 657321002995 Walker B; other site 657321002996 D-loop; other site 657321002997 H-loop/switch region; other site 657321002998 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 657321002999 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 657321003000 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 657321003001 Maf-like protein; Region: Maf; pfam02545 657321003002 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 657321003003 active site 657321003004 dimer interface [polypeptide binding]; other site 657321003005 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 657321003006 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 657321003007 serine O-acetyltransferase; Region: cysE; TIGR01172 657321003008 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 657321003009 trimer interface [polypeptide binding]; other site 657321003010 active site 657321003011 substrate binding site [chemical binding]; other site 657321003012 CoA binding site [chemical binding]; other site 657321003013 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657321003014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321003015 Coenzyme A binding pocket [chemical binding]; other site 657321003016 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657321003017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321003018 Coenzyme A binding pocket [chemical binding]; other site 657321003019 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657321003020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657321003021 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 657321003022 dimerization interface [polypeptide binding]; other site 657321003023 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 657321003024 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 657321003025 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 657321003026 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 657321003027 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 657321003028 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 657321003029 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 657321003030 RNA binding site [nucleotide binding]; other site 657321003031 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 657321003032 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 657321003033 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 657321003034 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 657321003035 FeoA domain; Region: FeoA; pfam04023 657321003036 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 657321003037 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 657321003038 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657321003039 G1 box; other site 657321003040 GTP/Mg2+ binding site [chemical binding]; other site 657321003041 Switch I region; other site 657321003042 G2 box; other site 657321003043 G3 box; other site 657321003044 Switch II region; other site 657321003045 G4 box; other site 657321003046 G5 box; other site 657321003047 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657321003048 Nucleoside recognition; Region: Gate; pfam07670 657321003049 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657321003050 Nucleoside recognition; Region: Gate; pfam07670 657321003051 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657321003052 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657321003053 Walker A/P-loop; other site 657321003054 ATP binding site [chemical binding]; other site 657321003055 Q-loop/lid; other site 657321003056 ABC transporter signature motif; other site 657321003057 Walker B; other site 657321003058 D-loop; other site 657321003059 H-loop/switch region; other site 657321003060 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 657321003061 FtsX-like permease family; Region: FtsX; pfam02687 657321003062 FtsX-like permease family; Region: FtsX; pfam02687 657321003063 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 657321003064 metal-binding site [ion binding] 657321003065 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657321003066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657321003067 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 657321003068 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657321003069 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657321003070 threonine dehydratase; Provisional; Region: PRK08198 657321003071 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 657321003072 tetramer interface [polypeptide binding]; other site 657321003073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321003074 catalytic residue [active] 657321003075 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 657321003076 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 657321003077 homotrimer interaction site [polypeptide binding]; other site 657321003078 putative active site [active] 657321003079 S-adenosylmethionine synthetase; Validated; Region: PRK05250 657321003080 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 657321003081 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 657321003082 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 657321003083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657321003084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321003085 Coenzyme A binding pocket [chemical binding]; other site 657321003086 Cupin domain; Region: Cupin_2; pfam07883 657321003087 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 657321003088 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 657321003089 substrate binding site [chemical binding]; other site 657321003090 ATP binding site [chemical binding]; other site 657321003091 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 657321003092 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 657321003093 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 657321003094 FeS/SAM binding site; other site 657321003095 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657321003096 Na2 binding site [ion binding]; other site 657321003097 putative substrate binding site 1 [chemical binding]; other site 657321003098 Na binding site 1 [ion binding]; other site 657321003099 putative substrate binding site 2 [chemical binding]; other site 657321003100 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657321003101 Sel1-like repeats; Region: SEL1; smart00671 657321003102 RNA polymerase sigma-K factor; Region: spore_sigmaK; TIGR02846 657321003103 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657321003104 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 657321003105 DNA binding residues [nucleotide binding] 657321003106 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657321003107 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 657321003108 homodimer interface [polypeptide binding]; other site 657321003109 substrate-cofactor binding pocket; other site 657321003110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321003111 catalytic residue [active] 657321003112 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 657321003113 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657321003114 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 657321003115 dimer interface [polypeptide binding]; other site 657321003116 ssDNA binding site [nucleotide binding]; other site 657321003117 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657321003118 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 657321003119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 657321003120 RelB antitoxin; Region: RelB; cl01171 657321003121 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 657321003122 putative homodimer interface [polypeptide binding]; other site 657321003123 putative homotetramer interface [polypeptide binding]; other site 657321003124 putative allosteric switch controlling residues; other site 657321003125 putative metal binding site [ion binding]; other site 657321003126 putative homodimer-homodimer interface [polypeptide binding]; other site 657321003127 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657321003128 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 657321003129 metal-binding site [ion binding] 657321003130 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657321003131 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657321003132 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 657321003133 metal-binding site [ion binding] 657321003134 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 657321003135 hypothetical protein; Provisional; Region: PRK05473 657321003136 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 657321003137 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 657321003138 putative tRNA-binding site [nucleotide binding]; other site 657321003139 B3/4 domain; Region: B3_4; pfam03483 657321003140 tRNA synthetase B5 domain; Region: B5; smart00874 657321003141 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 657321003142 motif 1; other site 657321003143 dimer interface [polypeptide binding]; other site 657321003144 active site 657321003145 motif 2; other site 657321003146 motif 3; other site 657321003147 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 657321003148 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 657321003149 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 657321003150 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 657321003151 dimer interface [polypeptide binding]; other site 657321003152 motif 1; other site 657321003153 active site 657321003154 motif 2; other site 657321003155 motif 3; other site 657321003156 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 657321003157 putative substrate binding site [chemical binding]; other site 657321003158 putative ATP binding site [chemical binding]; other site 657321003159 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657321003160 Zn2+ binding site [ion binding]; other site 657321003161 Mg2+ binding site [ion binding]; other site 657321003162 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 657321003163 MgtE intracellular N domain; Region: MgtE_N; pfam03448 657321003164 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 657321003165 Divalent cation transporter; Region: MgtE; pfam01769 657321003166 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657321003167 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657321003168 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 657321003169 catalytic core [active] 657321003170 tartrate dehydrogenase; Region: TTC; TIGR02089 657321003171 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 657321003172 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657321003173 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 657321003174 trimerization site [polypeptide binding]; other site 657321003175 active site 657321003176 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657321003177 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657321003178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657321003179 catalytic residue [active] 657321003180 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657321003181 DHH family; Region: DHH; pfam01368 657321003182 DHHA1 domain; Region: DHHA1; pfam02272 657321003183 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 657321003184 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 657321003185 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 657321003186 replicative DNA helicase; Region: DnaB; TIGR00665 657321003187 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657321003188 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 657321003189 Walker A motif; other site 657321003190 ATP binding site [chemical binding]; other site 657321003191 Walker B motif; other site 657321003192 DNA binding loops [nucleotide binding] 657321003193 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657321003194 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 657321003195 Ligand Binding Site [chemical binding]; other site 657321003196 TilS substrate C-terminal domain; Region: TilS_C; smart00977 657321003197 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321003198 active site 657321003199 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 657321003200 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657321003201 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657321003202 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 657321003203 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; cl02713 657321003204 active site 657321003205 Bacterial SH3 domain; Region: SH3_3; pfam08239 657321003206 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657321003207 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321003208 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 657321003209 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657321003210 DNA binding residues [nucleotide binding] 657321003211 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 657321003212 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 657321003213 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 657321003214 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 657321003215 motif 1; other site 657321003216 dimer interface [polypeptide binding]; other site 657321003217 active site 657321003218 motif 2; other site 657321003219 motif 3; other site 657321003220 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 657321003221 anticodon binding site; other site 657321003222 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 657321003223 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 657321003224 Uncharacterized conserved protein [Function unknown]; Region: COG1739 657321003225 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 657321003226 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 657321003227 DNA primase; Validated; Region: dnaG; PRK05667 657321003228 CHC2 zinc finger; Region: zf-CHC2; pfam01807 657321003229 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 657321003230 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 657321003231 active site 657321003232 metal binding site [ion binding]; metal-binding site 657321003233 interdomain interaction site; other site 657321003234 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 657321003235 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657321003236 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 657321003237 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 657321003238 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657321003239 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657321003240 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657321003241 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 657321003242 DNA binding residues [nucleotide binding] 657321003243 Minimal MMP-like domain found in Thermus thermophilus hypothetical protein TTHA0227 and similar proteins; Region: MMP_TTHA0227; cd12953 657321003244 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657321003245 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657321003246 enolase; Provisional; Region: eno; PRK00077 657321003247 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 657321003248 dimer interface [polypeptide binding]; other site 657321003249 metal binding site [ion binding]; metal-binding site 657321003250 substrate binding pocket [chemical binding]; other site 657321003251 pullulanase, type I; Region: pulA_typeI; TIGR02104 657321003252 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 657321003253 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 657321003254 Ca binding site [ion binding]; other site 657321003255 active site 657321003256 catalytic site [active] 657321003257 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 657321003258 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 657321003259 pullulanase, type I; Region: pulA_typeI; TIGR02104 657321003260 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 657321003261 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 657321003262 Ca binding site [ion binding]; other site 657321003263 active site 657321003264 catalytic site [active] 657321003265 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 657321003266 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 657321003267 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 657321003268 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 657321003269 CoA binding domain; Region: CoA_binding; pfam02629 657321003270 isocitrate dehydrogenase; Validated; Region: PRK08299 657321003271 aconitate hydratase; Validated; Region: PRK07229 657321003272 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 657321003273 substrate binding site [chemical binding]; other site 657321003274 ligand binding site [chemical binding]; other site 657321003275 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 657321003276 substrate binding site [chemical binding]; other site 657321003277 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 657321003278 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 657321003279 G1 box; other site 657321003280 putative GEF interaction site [polypeptide binding]; other site 657321003281 GTP/Mg2+ binding site [chemical binding]; other site 657321003282 Switch I region; other site 657321003283 G2 box; other site 657321003284 G3 box; other site 657321003285 Switch II region; other site 657321003286 G4 box; other site 657321003287 G5 box; other site 657321003288 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 657321003289 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 657321003290 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 657321003291 active site 657321003292 catalytic site [active] 657321003293 substrate binding site [chemical binding]; other site 657321003294 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 657321003295 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657321003296 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 657321003297 protein binding site [polypeptide binding]; other site 657321003298 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657321003299 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 657321003300 active site 657321003301 phosphorylation site [posttranslational modification] 657321003302 intermolecular recognition site; other site 657321003303 dimerization interface [polypeptide binding]; other site 657321003304 LytTr DNA-binding domain; Region: LytTR; smart00850 657321003305 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 657321003306 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 657321003307 TRAM domain; Region: TRAM; pfam01938 657321003308 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 657321003309 S-adenosylmethionine binding site [chemical binding]; other site 657321003310 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657321003311 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 657321003312 S-adenosylmethionine binding site [chemical binding]; other site 657321003313 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 657321003314 classical (c) SDRs; Region: SDR_c; cd05233 657321003315 NAD(P) binding site [chemical binding]; other site 657321003316 active site 657321003317 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657321003318 MarR family; Region: MarR_2; pfam12802 657321003319 MarR family; Region: MarR_2; cl17246 657321003320 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657321003321 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657321003322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321003323 Walker A/P-loop; other site 657321003324 ATP binding site [chemical binding]; other site 657321003325 Q-loop/lid; other site 657321003326 ABC transporter signature motif; other site 657321003327 Walker B; other site 657321003328 D-loop; other site 657321003329 H-loop/switch region; other site 657321003330 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657321003331 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657321003332 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657321003333 Walker A/P-loop; other site 657321003334 ATP binding site [chemical binding]; other site 657321003335 Q-loop/lid; other site 657321003336 ABC transporter signature motif; other site 657321003337 Walker B; other site 657321003338 D-loop; other site 657321003339 H-loop/switch region; other site 657321003340 Response regulator receiver domain; Region: Response_reg; pfam00072 657321003341 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 657321003342 active site 657321003343 phosphorylation site [posttranslational modification] 657321003344 intermolecular recognition site; other site 657321003345 dimerization interface [polypeptide binding]; other site 657321003346 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 657321003347 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 657321003348 acyl-activating enzyme (AAE) consensus motif; other site 657321003349 AMP binding site [chemical binding]; other site 657321003350 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657321003351 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 657321003352 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657321003353 catalytic residue [active] 657321003354 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 657321003355 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657321003356 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 657321003357 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 657321003358 HSP70 interaction site [polypeptide binding]; other site 657321003359 Bacterial SH3 domain; Region: SH3_3; pfam08239 657321003360 Bacterial SH3 domain; Region: SH3_3; pfam08239 657321003361 Bacterial SH3 domain; Region: SH3_3; pfam08239 657321003362 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 657321003363 catalytic residue [active] 657321003364 Bacterial SH3 domain homologues; Region: SH3b; smart00287 657321003365 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 657321003366 pyrroline-5-carboxylate reductase; Region: PLN02688 657321003367 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 657321003368 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657321003369 FeS/SAM binding site; other site 657321003370 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321003371 active site 657321003372 hypothetical protein; Reviewed; Region: PRK00024 657321003373 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657321003374 MPN+ (JAMM) motif; other site 657321003375 Zinc-binding site [ion binding]; other site 657321003376 excinuclease ABC subunit B; Provisional; Region: PRK05298 657321003377 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 657321003378 ATP binding site [chemical binding]; other site 657321003379 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 657321003380 nucleotide binding region [chemical binding]; other site 657321003381 ATP-binding site [chemical binding]; other site 657321003382 Ultra-violet resistance protein B; Region: UvrB; pfam12344 657321003383 UvrB/uvrC motif; Region: UVR; pfam02151 657321003384 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]; Region: GyrB; COG0187 657321003385 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 657321003386 Mg2+ binding site [ion binding]; other site 657321003387 G-X-G motif; other site 657321003388 DNA gyrase B; Region: DNA_gyraseB; pfam00204 657321003389 ATP binding site [chemical binding]; other site 657321003390 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 657321003391 active site 657321003392 metal binding site [ion binding]; metal-binding site 657321003393 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657321003394 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 657321003395 CAP-like domain; other site 657321003396 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 657321003397 active site 657321003398 primary dimer interface [polypeptide binding]; other site 657321003399 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 657321003400 Transcriptional regulator; Region: Rrf2; cl17282 657321003401 Rrf2 family protein; Region: rrf2_super; TIGR00738 657321003402 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 657321003403 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 657321003404 Walker A/P-loop; other site 657321003405 ATP binding site [chemical binding]; other site 657321003406 Q-loop/lid; other site 657321003407 ABC transporter signature motif; other site 657321003408 Walker B; other site 657321003409 D-loop; other site 657321003410 H-loop/switch region; other site 657321003411 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657321003412 FeS assembly protein SufB; Region: sufB; TIGR01980 657321003413 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 657321003414 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657321003415 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657321003416 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 657321003417 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657321003418 catalytic residue [active] 657321003419 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 657321003420 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657321003421 trimerization site [polypeptide binding]; other site 657321003422 active site 657321003423 Predicted transcriptional regulators [Transcription]; Region: COG1695 657321003424 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 657321003425 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 657321003426 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 657321003427 catalytic residues [active] 657321003428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321003429 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 657321003430 active site 657321003431 phosphorylation site [posttranslational modification] 657321003432 intermolecular recognition site; other site 657321003433 dimerization interface [polypeptide binding]; other site 657321003434 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 657321003435 DNA binding site [nucleotide binding] 657321003436 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657321003437 HAMP domain; Region: HAMP; pfam00672 657321003438 dimerization interface [polypeptide binding]; other site 657321003439 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 657321003440 dimer interface [polypeptide binding]; other site 657321003441 phosphorylation site [posttranslational modification] 657321003442 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 657321003443 ATP binding site [chemical binding]; other site 657321003444 Mg2+ binding site [ion binding]; other site 657321003445 G-X-G motif; other site 657321003446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657321003447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657321003448 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657321003449 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657321003450 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657321003451 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657321003452 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657321003453 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 657321003454 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 657321003455 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 657321003456 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 657321003457 homodimer interface [polypeptide binding]; other site 657321003458 NADP binding site [chemical binding]; other site 657321003459 substrate binding site [chemical binding]; other site 657321003460 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 657321003461 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 657321003462 Protein of unknown function (DUF464); Region: DUF464; pfam04327 657321003463 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 657321003464 GTPase CgtA; Reviewed; Region: obgE; PRK12297 657321003465 GTP1/OBG; Region: GTP1_OBG; pfam01018 657321003466 Obg GTPase; Region: Obg; cd01898 657321003467 G1 box; other site 657321003468 GTP/Mg2+ binding site [chemical binding]; other site 657321003469 Switch I region; other site 657321003470 G2 box; other site 657321003471 G3 box; other site 657321003472 Switch II region; other site 657321003473 G4 box; other site 657321003474 G5 box; other site 657321003475 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 657321003476 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 657321003477 active site 657321003478 metal binding site [ion binding]; metal-binding site 657321003479 dimerization interface [polypeptide binding]; other site 657321003480 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657321003481 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657321003482 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657321003483 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657321003484 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657321003485 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 657321003486 Ligand binding site; other site 657321003487 Putative Catalytic site; other site 657321003488 DXD motif; other site 657321003489 GtrA-like protein; Region: GtrA; pfam04138 657321003490 SseB protein; Region: SseB; cl06279 657321003491 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 657321003492 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 657321003493 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657321003494 substrate binding site [chemical binding]; other site 657321003495 glutamase interaction surface [polypeptide binding]; other site 657321003496 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 657321003497 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 657321003498 putative active site [active] 657321003499 oxyanion strand; other site 657321003500 catalytic triad [active] 657321003501 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657321003502 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657321003503 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 657321003504 putative active site [active] 657321003505 flavoprotein, HI0933 family; Region: TIGR00275 657321003506 cytidylate kinase; Provisional; Region: cmk; PRK00023 657321003507 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 657321003508 CMP-binding site; other site 657321003509 The sites determining sugar specificity; other site 657321003510 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657321003511 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657321003512 putative acyl-acceptor binding pocket; other site 657321003513 hypothetical protein; Validated; Region: PRK00110 657321003514 hypothetical protein; Provisional; Region: PRK11820 657321003515 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 657321003516 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 657321003517 hypothetical protein; Provisional; Region: PRK04323 657321003518 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 657321003519 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 657321003520 catalytic site [active] 657321003521 G-X2-G-X-G-K; other site 657321003522 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 657321003523 primosomal protein N' Region: priA; TIGR00595 657321003524 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 657321003525 ATP binding site [chemical binding]; other site 657321003526 putative Mg++ binding site [ion binding]; other site 657321003527 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 657321003528 ATP-binding site [chemical binding]; other site 657321003529 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 657321003530 active site 657321003531 catalytic residues [active] 657321003532 metal binding site [ion binding]; metal-binding site 657321003533 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 657321003534 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 657321003535 putative active site [active] 657321003536 substrate binding site [chemical binding]; other site 657321003537 putative cosubstrate binding site; other site 657321003538 catalytic site [active] 657321003539 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 657321003540 substrate binding site [chemical binding]; other site 657321003541 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 657321003542 16S rRNA methyltransferase B; Provisional; Region: PRK14902 657321003543 NusB family; Region: NusB; pfam01029 657321003544 putative RNA binding site [nucleotide binding]; other site 657321003545 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 657321003546 GTPase RsgA; Reviewed; Region: PRK00098 657321003547 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 657321003548 RNA binding site [nucleotide binding]; other site 657321003549 homodimer interface [polypeptide binding]; other site 657321003550 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 657321003551 GTPase/Zn-binding domain interface [polypeptide binding]; other site 657321003552 GTP/Mg2+ binding site [chemical binding]; other site 657321003553 G4 box; other site 657321003554 G5 box; other site 657321003555 G1 box; other site 657321003556 Switch I region; other site 657321003557 G2 box; other site 657321003558 G3 box; other site 657321003559 Switch II region; other site 657321003560 Thiamine pyrophosphokinase; Region: TPK; cd07995 657321003561 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 657321003562 active site 657321003563 dimerization interface [polypeptide binding]; other site 657321003564 thiamine binding site [chemical binding]; other site 657321003565 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 657321003566 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 657321003567 active site 657321003568 ATP binding site [chemical binding]; other site 657321003569 substrate binding site [chemical binding]; other site 657321003570 activation loop (A-loop); other site 657321003571 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 657321003572 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 657321003573 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 657321003574 oligomerisation interface [polypeptide binding]; other site 657321003575 mobile loop; other site 657321003576 roof hairpin; other site 657321003577 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 657321003578 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 657321003579 ring oligomerisation interface [polypeptide binding]; other site 657321003580 ATP/Mg binding site [chemical binding]; other site 657321003581 stacking interactions; other site 657321003582 hinge regions; other site 657321003583 EDD domain protein, DegV family; Region: DegV; TIGR00762 657321003584 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657321003585 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 657321003586 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 657321003587 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657321003588 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 657321003589 Bacterial sugar transferase; Region: Bac_transf; pfam02397 657321003590 NAD synthetase; Reviewed; Region: nadE; PRK02628 657321003591 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 657321003592 multimer interface [polypeptide binding]; other site 657321003593 active site 657321003594 catalytic triad [active] 657321003595 protein interface 1 [polypeptide binding]; other site 657321003596 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 657321003597 homodimer interface [polypeptide binding]; other site 657321003598 NAD binding pocket [chemical binding]; other site 657321003599 ATP binding pocket [chemical binding]; other site 657321003600 Mg binding site [ion binding]; other site 657321003601 active-site loop [active] 657321003602 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657321003603 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 657321003604 AsnC family; Region: AsnC_trans_reg; pfam01037 657321003605 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 657321003606 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657321003607 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 657321003608 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 657321003609 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657321003610 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 657321003611 Part of AAA domain; Region: AAA_19; pfam13245 657321003612 Family description; Region: UvrD_C_2; pfam13538 657321003613 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657321003614 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 657321003615 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 657321003616 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657321003617 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657321003618 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657321003619 substrate binding site; other site 657321003620 dimer interface; other site 657321003621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321003622 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657321003623 NAD(P) binding site [chemical binding]; other site 657321003624 active site 657321003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321003626 LicD family; Region: LicD; pfam04991 657321003627 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 657321003628 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 657321003629 active site 657321003630 substrate binding site [chemical binding]; other site 657321003631 metal binding site [ion binding]; metal-binding site 657321003632 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657321003633 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657321003634 conserved hypothetical integral membrane protein; Region: TIGR03766 657321003635 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657321003636 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657321003637 Ligand binding site; other site 657321003638 Putative Catalytic site; other site 657321003639 DXD motif; other site 657321003640 6-phosphofructokinase; Provisional; Region: PRK03202 657321003641 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657321003642 active site 657321003643 ADP/pyrophosphate binding site [chemical binding]; other site 657321003644 dimerization interface [polypeptide binding]; other site 657321003645 allosteric effector site; other site 657321003646 fructose-1,6-bisphosphate binding site; other site 657321003647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 657321003648 MORN repeat; Region: MORN; cl14787 657321003649 Mechanosensitive ion channel; Region: MS_channel; pfam00924 657321003650 sporulation sigma factor SigE; Reviewed; Region: PRK08301 657321003651 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657321003652 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 657321003653 DNA binding residues [nucleotide binding] 657321003654 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 657321003655 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 657321003656 EDD domain protein, DegV family; Region: DegV; TIGR00762 657321003657 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657321003658 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 657321003659 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 657321003660 rRNA interaction site [nucleotide binding]; other site 657321003661 S8 interaction site; other site 657321003662 putative laminin-1 binding site; other site 657321003663 elongation factor Ts; Provisional; Region: tsf; PRK09377 657321003664 UBA/TS-N domain; Region: UBA; pfam00627 657321003665 Elongation factor TS; Region: EF_TS; pfam00889 657321003666 Elongation factor TS; Region: EF_TS; pfam00889 657321003667 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 657321003668 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 657321003669 23S rRNA binding site [nucleotide binding]; other site 657321003670 L21 binding site [polypeptide binding]; other site 657321003671 L13 binding site [polypeptide binding]; other site 657321003672 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657321003673 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 657321003674 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657321003675 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 657321003676 DNA protecting protein DprA; Region: dprA; TIGR00732 657321003677 DNA topoisomerase I; Validated; Region: PRK05582 657321003678 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 657321003679 active site 657321003680 interdomain interaction site; other site 657321003681 putative metal-binding site [ion binding]; other site 657321003682 nucleotide binding site [chemical binding]; other site 657321003683 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 657321003684 domain I; other site 657321003685 DNA binding groove [nucleotide binding] 657321003686 phosphate binding site [ion binding]; other site 657321003687 domain II; other site 657321003688 domain III; other site 657321003689 nucleotide binding site [chemical binding]; other site 657321003690 catalytic site [active] 657321003691 domain IV; other site 657321003692 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657321003693 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 657321003694 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 657321003695 Glucose inhibited division protein A; Region: GIDA; pfam01134 657321003696 putative phosphate acyltransferase; Provisional; Region: PRK05331 657321003697 ribonuclease III; Reviewed; Region: rnc; PRK00102 657321003698 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 657321003699 dimerization interface [polypeptide binding]; other site 657321003700 active site 657321003701 metal binding site [ion binding]; metal-binding site 657321003702 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 657321003703 dsRNA binding site [nucleotide binding]; other site 657321003704 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657321003705 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 657321003706 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 657321003707 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 657321003708 P loop; other site 657321003709 GTP binding site [chemical binding]; other site 657321003710 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 657321003711 active site 657321003712 dimerization interface [polypeptide binding]; other site 657321003713 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 657321003714 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 657321003715 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 657321003716 active site 657321003717 (T/H)XGH motif; other site 657321003718 Oligomerisation domain; Region: Oligomerisation; pfam02410 657321003719 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 657321003720 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657321003721 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657321003722 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 657321003723 active site 657321003724 elongation factor P; Validated; Region: PRK00529 657321003725 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 657321003726 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 657321003727 RNA binding site [nucleotide binding]; other site 657321003728 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 657321003729 RNA binding site [nucleotide binding]; other site 657321003730 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 657321003731 Protein of unknown function (DUF964); Region: DUF964; pfam06133 657321003732 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 657321003733 MutS domain I; Region: MutS_I; pfam01624 657321003734 MutS domain II; Region: MutS_II; pfam05188 657321003735 MutS domain III; Region: MutS_III; pfam05192 657321003736 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 657321003737 Walker A/P-loop; other site 657321003738 ATP binding site [chemical binding]; other site 657321003739 Q-loop/lid; other site 657321003740 ABC transporter signature motif; other site 657321003741 Walker B; other site 657321003742 D-loop; other site 657321003743 H-loop/switch region; other site 657321003744 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 657321003745 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 657321003746 ATP binding site [chemical binding]; other site 657321003747 Mg2+ binding site [ion binding]; other site 657321003748 G-X-G motif; other site 657321003749 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 657321003750 ATP binding site [chemical binding]; other site 657321003751 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 657321003752 HlyD family secretion protein; Region: HlyD_2; pfam12700 657321003753 putative membrane fusion protein; Region: TIGR02828 657321003754 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 657321003755 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657321003756 catalytic residue [active] 657321003757 Protein of unknown function (DUF552); Region: DUF552; pfam04472 657321003758 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 657321003759 S4 RNA-binding domain; Region: S4; smart00363 657321003760 DivIVA protein; Region: DivIVA; pfam05103 657321003761 DivIVA domain; Region: DivI1A_domain; TIGR03544 657321003762 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 657321003763 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657321003764 active site 657321003765 HIGH motif; other site 657321003766 nucleotide binding site [chemical binding]; other site 657321003767 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657321003768 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 657321003769 active site 657321003770 KMSKS motif; other site 657321003771 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 657321003772 tRNA binding surface [nucleotide binding]; other site 657321003773 anticodon binding site; other site 657321003774 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 657321003775 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 657321003776 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 657321003777 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 657321003778 RNA binding surface [nucleotide binding]; other site 657321003779 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657321003780 active site 657321003781 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 657321003782 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657321003783 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 657321003784 Catalytic site [active] 657321003785 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 657321003786 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 657321003787 GTP/Mg2+ binding site [chemical binding]; other site 657321003788 G4 box; other site 657321003789 G5 box; other site 657321003790 G1 box; other site 657321003791 Switch I region; other site 657321003792 G2 box; other site 657321003793 G3 box; other site 657321003794 Switch II region; other site 657321003795 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 657321003796 RNA/DNA hybrid binding site [nucleotide binding]; other site 657321003797 active site 657321003798 hypothetical protein; Reviewed; Region: PRK12497 657321003799 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 657321003800 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 657321003801 active site 657321003802 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 657321003803 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 657321003804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321003805 catalytic residue [active] 657321003806 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657321003807 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657321003808 active site 657321003809 metal binding site [ion binding]; metal-binding site 657321003810 trigger factor; Provisional; Region: tig; PRK01490 657321003811 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657321003812 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657321003813 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 657321003814 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 657321003815 oligomer interface [polypeptide binding]; other site 657321003816 active site residues [active] 657321003817 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657321003818 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 657321003819 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 657321003820 Walker A motif; other site 657321003821 ATP binding site [chemical binding]; other site 657321003822 Walker B motif; other site 657321003823 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657321003824 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 657321003825 Found in ATP-dependent protease La (LON); Region: LON; smart00464 657321003826 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 657321003827 Walker A motif; other site 657321003828 ATP binding site [chemical binding]; other site 657321003829 Walker B motif; other site 657321003830 arginine finger; other site 657321003831 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657321003832 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 657321003833 G1 box; other site 657321003834 GTP/Mg2+ binding site [chemical binding]; other site 657321003835 Switch I region; other site 657321003836 G2 box; other site 657321003837 G3 box; other site 657321003838 Switch II region; other site 657321003839 G4 box; other site 657321003840 G5 box; other site 657321003841 diaminopimelate decarboxylase; Region: lysA; TIGR01048 657321003842 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 657321003843 active site 657321003844 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657321003845 substrate binding site [chemical binding]; other site 657321003846 catalytic residues [active] 657321003847 dimer interface [polypeptide binding]; other site 657321003848 glutamate dehydrogenase; Provisional; Region: PRK09414 657321003849 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657321003850 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657321003851 NAD(P) binding site [chemical binding]; other site 657321003852 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657321003853 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 657321003854 active site 657321003855 DNA binding site [nucleotide binding] 657321003856 Int/Topo IB signature motif; other site 657321003857 DNA repair protein RadA; Provisional; Region: PRK11823 657321003858 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 657321003859 Walker A motif/ATP binding site; other site 657321003860 ATP binding site [chemical binding]; other site 657321003861 Walker B motif; other site 657321003862 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657321003863 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657321003864 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 657321003865 active site 657321003866 metal binding site [ion binding]; metal-binding site 657321003867 methionine aminopeptidase; Provisional; Region: PRK12318 657321003868 SEC-C motif; Region: SEC-C; pfam02810 657321003869 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 657321003870 active site 657321003871 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 657321003872 amidophosphoribosyltransferase; Region: purF; TIGR01134 657321003873 active site 657321003874 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321003875 active site 657321003876 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657321003877 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657321003878 Walker A/P-loop; other site 657321003879 ATP binding site [chemical binding]; other site 657321003880 Q-loop/lid; other site 657321003881 ABC transporter signature motif; other site 657321003882 Walker B; other site 657321003883 D-loop; other site 657321003884 H-loop/switch region; other site 657321003885 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657321003886 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657321003887 Walker A/P-loop; other site 657321003888 ATP binding site [chemical binding]; other site 657321003889 Q-loop/lid; other site 657321003890 ABC transporter signature motif; other site 657321003891 Walker B; other site 657321003892 D-loop; other site 657321003893 H-loop/switch region; other site 657321003894 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 657321003895 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657321003896 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657321003897 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 657321003898 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 657321003899 FeoA domain; Region: FeoA; cl00838 657321003900 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 657321003901 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 657321003902 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 657321003903 FeS/SAM binding site; other site 657321003904 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657321003905 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 657321003906 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657321003907 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 657321003908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657321003909 catalytic residue [active] 657321003910 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657321003911 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 657321003912 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 657321003913 G1 box; other site 657321003914 putative GEF interaction site [polypeptide binding]; other site 657321003915 GTP/Mg2+ binding site [chemical binding]; other site 657321003916 Switch I region; other site 657321003917 G2 box; other site 657321003918 G3 box; other site 657321003919 Switch II region; other site 657321003920 G4 box; other site 657321003921 G5 box; other site 657321003922 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 657321003923 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657321003924 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657321003925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321003926 Walker A/P-loop; other site 657321003927 ATP binding site [chemical binding]; other site 657321003928 Q-loop/lid; other site 657321003929 ABC transporter signature motif; other site 657321003930 Walker B; other site 657321003931 D-loop; other site 657321003932 H-loop/switch region; other site 657321003933 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 657321003934 non-specific DNA binding site [nucleotide binding]; other site 657321003935 salt bridge; other site 657321003936 sequence-specific DNA binding site [nucleotide binding]; other site 657321003937 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 657321003938 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 657321003939 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 657321003940 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 657321003941 Potassium binding sites [ion binding]; other site 657321003942 Cesium cation binding sites [ion binding]; other site 657321003943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 657321003944 YbbR-like protein; Region: YbbR; pfam07949 657321003945 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657321003946 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 657321003947 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657321003948 catalytic residue [active] 657321003949 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 657321003950 dihydrodipicolinate reductase; Provisional; Region: PRK00048 657321003951 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 657321003952 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 657321003953 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657321003954 dihydrodipicolinate synthase; Region: dapA; TIGR00674 657321003955 dimer interface [polypeptide binding]; other site 657321003956 active site 657321003957 catalytic residue [active] 657321003958 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 657321003959 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657321003960 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 657321003961 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 657321003962 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 657321003963 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 657321003964 Preprotein translocase subunit; Region: YajC; pfam02699 657321003965 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 657321003966 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657321003967 active site 657321003968 ATP binding site [chemical binding]; other site 657321003969 substrate binding site [chemical binding]; other site 657321003970 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 657321003971 YARHG domain; Region: YARHG; pfam13308 657321003972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 657321003973 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657321003974 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 657321003975 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 657321003976 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 657321003977 putative active site [active] 657321003978 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657321003979 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657321003980 active site 657321003981 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 657321003982 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 657321003983 metal binding site [ion binding]; metal-binding site 657321003984 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 657321003985 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 657321003986 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 657321003987 catalytic residues [active] 657321003988 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 657321003989 putative active site pocket [active] 657321003990 4-fold oligomerization interface [polypeptide binding]; other site 657321003991 metal binding residues [ion binding]; metal-binding site 657321003992 3-fold/trimer interface [polypeptide binding]; other site 657321003993 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 657321003994 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 657321003995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321003996 homodimer interface [polypeptide binding]; other site 657321003997 catalytic residue [active] 657321003998 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 657321003999 histidinol dehydrogenase; Region: hisD; TIGR00069 657321004000 NAD binding site [chemical binding]; other site 657321004001 dimerization interface [polypeptide binding]; other site 657321004002 product binding site; other site 657321004003 substrate binding site [chemical binding]; other site 657321004004 zinc binding site [ion binding]; other site 657321004005 catalytic residues [active] 657321004006 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 657321004007 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 657321004008 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 657321004009 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 657321004010 dimer interface [polypeptide binding]; other site 657321004011 motif 1; other site 657321004012 active site 657321004013 motif 2; other site 657321004014 motif 3; other site 657321004015 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657321004016 Domain of unknown function DUF20; Region: UPF0118; pfam01594 657321004017 DNA polymerase III PolC; Validated; Region: polC; PRK00448 657321004018 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 657321004019 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 657321004020 generic binding surface II; other site 657321004021 generic binding surface I; other site 657321004022 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657321004023 active site 657321004024 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 657321004025 active site 657321004026 catalytic site [active] 657321004027 substrate binding site [chemical binding]; other site 657321004028 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 657321004029 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 657321004030 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 657321004031 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657321004032 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657321004033 RIP metalloprotease RseP; Region: TIGR00054 657321004034 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 657321004035 active site 657321004036 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; cl00117 657321004037 protein binding site [polypeptide binding]; other site 657321004038 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 657321004039 putative substrate binding region [chemical binding]; other site 657321004040 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 657321004041 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 657321004042 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 657321004043 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 657321004044 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 657321004045 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 657321004046 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 657321004047 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 657321004048 catalytic residue [active] 657321004049 putative FPP diphosphate binding site; other site 657321004050 putative FPP binding hydrophobic cleft; other site 657321004051 dimer interface [polypeptide binding]; other site 657321004052 putative IPP diphosphate binding site; other site 657321004053 ribosome recycling factor; Reviewed; Region: frr; PRK00083 657321004054 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 657321004055 hinge region; other site 657321004056 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 657321004057 putative nucleotide binding site [chemical binding]; other site 657321004058 uridine monophosphate binding site [chemical binding]; other site 657321004059 homohexameric interface [polypeptide binding]; other site 657321004060 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 657321004061 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 657321004062 FeS/SAM binding site; other site 657321004063 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 657321004064 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 657321004065 FeS/SAM binding site; other site 657321004066 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 657321004067 active site 657321004068 putative substrate binding region [chemical binding]; other site 657321004069 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 657321004070 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657321004071 VanZ like family; Region: VanZ; pfam04892 657321004072 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 657321004073 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 657321004074 flavoprotein, HI0933 family; Region: TIGR00275 657321004075 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657321004076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657321004077 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657321004078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321004079 NAD(P) binding site [chemical binding]; other site 657321004080 active site 657321004081 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 657321004082 Malic enzyme, N-terminal domain; Region: malic; pfam00390 657321004083 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 657321004084 putative NAD(P) binding site [chemical binding]; other site 657321004085 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657321004086 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 657321004087 membrane-bound complex binding site; other site 657321004088 hinge residues; other site 657321004089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657321004090 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 657321004091 substrate binding pocket [chemical binding]; other site 657321004092 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 657321004093 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321004094 dimer interface [polypeptide binding]; other site 657321004095 conserved gate region; other site 657321004096 putative PBP binding loops; other site 657321004097 ABC-ATPase subunit interface; other site 657321004098 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 657321004099 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 657321004100 active site 657321004101 NTP binding site [chemical binding]; other site 657321004102 metal binding triad [ion binding]; metal-binding site 657321004103 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 657321004104 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657321004105 Zn2+ binding site [ion binding]; other site 657321004106 Mg2+ binding site [ion binding]; other site 657321004107 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 657321004108 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657321004109 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 657321004110 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 657321004111 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 657321004112 active site 657321004113 phosphorylation site [posttranslational modification] 657321004114 intermolecular recognition site; other site 657321004115 dimerization interface [polypeptide binding]; other site 657321004116 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 657321004117 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 657321004118 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 657321004119 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 657321004120 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 657321004121 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 657321004122 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 657321004123 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 657321004124 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 657321004125 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 657321004126 active site 657321004127 substrate binding site [chemical binding]; other site 657321004128 cosubstrate binding site; other site 657321004129 catalytic site [active] 657321004130 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 657321004131 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 657321004132 dimerization interface [polypeptide binding]; other site 657321004133 putative ATP binding site [chemical binding]; other site 657321004134 AIR carboxylase; Region: AIRC; pfam00731 657321004135 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657321004136 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657321004137 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657321004138 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 657321004139 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 657321004140 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657321004141 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321004142 Walker A/P-loop; other site 657321004143 ATP binding site [chemical binding]; other site 657321004144 Q-loop/lid; other site 657321004145 ABC transporter signature motif; other site 657321004146 Walker B; other site 657321004147 D-loop; other site 657321004148 H-loop/switch region; other site 657321004149 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657321004150 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 657321004151 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657321004152 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657321004153 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657321004154 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 657321004155 active site 657321004156 phosphorylation site [posttranslational modification] 657321004157 intermolecular recognition site; other site 657321004158 LytTr DNA-binding domain; Region: LytTR; smart00850 657321004159 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657321004160 active site 657321004161 catalytic residues [active] 657321004162 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 657321004163 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 657321004164 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 657321004165 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 657321004166 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657321004167 NAD binding site [chemical binding]; other site 657321004168 homodimer interface [polypeptide binding]; other site 657321004169 active site 657321004170 substrate binding site [chemical binding]; other site 657321004171 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 657321004172 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657321004173 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657321004174 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 657321004175 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 657321004176 Predicted permeases [General function prediction only]; Region: COG0730 657321004177 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 657321004178 Transposase IS200 like; Region: Y1_Tnp; pfam01797 657321004179 GMP synthase; Reviewed; Region: guaA; PRK00074 657321004180 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 657321004181 AMP/PPi binding site [chemical binding]; other site 657321004182 candidate oxyanion hole; other site 657321004183 catalytic triad [active] 657321004184 potential glutamine specificity residues [chemical binding]; other site 657321004185 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 657321004186 ATP Binding subdomain [chemical binding]; other site 657321004187 Dimerization subdomain; other site 657321004188 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657321004189 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 657321004190 GDP-binding site [chemical binding]; other site 657321004191 ACT binding site; other site 657321004192 IMP binding site; other site 657321004193 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 657321004194 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 657321004195 tetramer interface [polypeptide binding]; other site 657321004196 active site 657321004197 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 657321004198 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 657321004199 ATP binding site [chemical binding]; other site 657321004200 active site 657321004201 substrate binding site [chemical binding]; other site 657321004202 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657321004203 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 657321004204 P-loop; other site 657321004205 Magnesium ion binding site [ion binding]; other site 657321004206 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 657321004207 Magnesium ion binding site [ion binding]; other site 657321004208 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657321004209 Cna protein B-type domain; Region: Cna_B; pfam05738 657321004210 Cna protein B-type domain; Region: Cna_B; pfam05738 657321004211 Cna protein B-type domain; Region: Cna_B; pfam05738 657321004212 Cna protein B-type domain; Region: Cna_B; pfam05738 657321004213 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 657321004214 Antirestriction protein (ArdA); Region: ArdA; pfam07275 657321004215 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 657321004216 sequence-specific DNA binding site [nucleotide binding]; other site 657321004217 salt bridge; other site 657321004218 Fic family protein [Function unknown]; Region: COG3177 657321004219 Fic/DOC family; Region: Fic; pfam02661 657321004220 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657321004221 Toprim-like; Region: Toprim_2; pfam13155 657321004222 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657321004223 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657321004224 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657321004225 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657321004226 AAA-like domain; Region: AAA_10; pfam12846 657321004227 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 657321004228 Walker A motif; other site 657321004229 ATP binding site [chemical binding]; other site 657321004230 Walker B motif; other site 657321004231 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 657321004232 AAA-like domain; Region: AAA_10; pfam12846 657321004233 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657321004234 active site 657321004235 catalytic site [active] 657321004236 CHAP domain; Region: CHAP; cl17642 657321004237 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657321004238 non-specific DNA binding site [nucleotide binding]; other site 657321004239 salt bridge; other site 657321004240 sequence-specific DNA binding site [nucleotide binding]; other site 657321004241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321004242 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 657321004243 active site 657321004244 phosphorylation site [posttranslational modification] 657321004245 intermolecular recognition site; other site 657321004246 dimerization interface [polypeptide binding]; other site 657321004247 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 657321004248 DNA binding site [nucleotide binding] 657321004249 VanW like protein; Region: VanW; pfam04294 657321004250 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 657321004251 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657321004252 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 657321004253 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 657321004254 Acyltransferase family; Region: Acyl_transf_3; pfam01757 657321004255 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 657321004256 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins; Region: PLPDE_III_VanT; cd06825 657321004257 alanine racemase; Reviewed; Region: alr; PRK00053 657321004258 active site 657321004259 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657321004260 dimer interface [polypeptide binding]; other site 657321004261 substrate binding site [chemical binding]; other site 657321004262 catalytic residues [active] 657321004263 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 657321004264 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657321004265 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 657321004266 DNA binding residues [nucleotide binding] 657321004267 PemK-like protein; Region: PemK; pfam02452 657321004268 Helix-turn-helix domain; Region: HTH_17; pfam12728 657321004269 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 657321004270 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657321004271 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 657321004272 Int/Topo IB signature motif; other site 657321004273 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 657321004274 nucleoside/Zn binding site; other site 657321004275 dimer interface [polypeptide binding]; other site 657321004276 catalytic motif [active] 657321004277 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657321004278 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321004279 Coenzyme A binding pocket [chemical binding]; other site 657321004280 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 657321004281 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 657321004282 oligomer interface [polypeptide binding]; other site 657321004283 active site 657321004284 metal binding site [ion binding]; metal-binding site 657321004285 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 657321004286 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 657321004287 oligomer interface [polypeptide binding]; other site 657321004288 active site 657321004289 metal binding site [ion binding]; metal-binding site 657321004290 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 657321004291 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 657321004292 NAD(P) binding pocket [chemical binding]; other site 657321004293 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657321004294 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 657321004295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657321004296 DNA-binding site [nucleotide binding]; DNA binding site 657321004297 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 657321004298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657321004299 homodimer interface [polypeptide binding]; other site 657321004300 catalytic residue [active] 657321004301 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 657321004302 Beta-lactamase; Region: Beta-lactamase; pfam00144 657321004303 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 657321004304 Part of AAA domain; Region: AAA_19; pfam13245 657321004305 Family description; Region: UvrD_C_2; pfam13538 657321004306 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 657321004307 hypothetical protein; Validated; Region: PRK08116 657321004308 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 657321004309 Walker A motif; other site 657321004310 ATP binding site [chemical binding]; other site 657321004311 Walker B motif; other site 657321004312 arginine finger; other site 657321004313 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 657321004314 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 657321004315 TSCPD domain; Region: TSCPD; cl14834 657321004316 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 657321004317 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 657321004318 peptide chain release factor 2; Validated; Region: prfB; PRK00578 657321004319 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657321004320 RF-1 domain; Region: RF-1; pfam00472 657321004321 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 657321004322 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657321004323 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 657321004324 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 657321004325 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 657321004326 active site 657321004327 tetramer interface; other site 657321004328 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 657321004329 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657321004330 active site 657321004331 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 657321004332 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 657321004333 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 657321004334 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 657321004335 ATP synthase subunit C; Region: ATP-synt_C; cl00466 657321004336 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 657321004337 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 657321004338 V-type ATP synthase subunit A; Provisional; Region: PRK04192 657321004339 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657321004340 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 657321004341 Walker A motif/ATP binding site; other site 657321004342 Walker B motif; other site 657321004343 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657321004344 V-type ATP synthase subunit B; Provisional; Region: PRK04196 657321004345 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657321004346 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 657321004347 Walker A motif homologous position; other site 657321004348 Walker B motif; other site 657321004349 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657321004350 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 657321004351 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 657321004352 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 657321004353 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 657321004354 TPP-binding site; other site 657321004355 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 657321004356 PYR/PP interface [polypeptide binding]; other site 657321004357 dimer interface [polypeptide binding]; other site 657321004358 TPP binding site [chemical binding]; other site 657321004359 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657321004360 AAA domain; Region: AAA_28; pfam13521 657321004361 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 657321004362 putative active site; other site 657321004363 putative metal binding residues [ion binding]; other site 657321004364 signature motif; other site 657321004365 putative triphosphate binding site [ion binding]; other site 657321004366 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 657321004367 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 657321004368 homodimer interface [polypeptide binding]; other site 657321004369 substrate-cofactor binding pocket; other site 657321004370 catalytic residue [active] 657321004371 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321004372 Dockerin type I repeat; Region: Dockerin_1; pfam00404 657321004373 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 657321004374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321004375 Walker A/P-loop; other site 657321004376 ATP binding site [chemical binding]; other site 657321004377 Q-loop/lid; other site 657321004378 ABC transporter signature motif; other site 657321004379 Walker B; other site 657321004380 D-loop; other site 657321004381 H-loop/switch region; other site 657321004382 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657321004383 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 657321004384 TM-ABC transporter signature motif; other site 657321004385 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 657321004386 zinc binding site [ion binding]; other site 657321004387 putative ligand binding site [chemical binding]; other site 657321004388 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 657321004389 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 657321004390 active site 657321004391 PHP Thumb interface [polypeptide binding]; other site 657321004392 metal binding site [ion binding]; metal-binding site 657321004393 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 657321004394 generic binding surface I; other site 657321004395 generic binding surface II; other site 657321004396 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 657321004397 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 657321004398 generic binding surface II; other site 657321004399 generic binding surface I; other site 657321004400 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 657321004401 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 657321004402 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 657321004403 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 657321004404 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 657321004405 putative RNA binding site [nucleotide binding]; other site 657321004406 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 657321004407 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 657321004408 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 657321004409 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 657321004410 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 657321004411 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 657321004412 Walker A motif; other site 657321004413 ATP binding site [chemical binding]; other site 657321004414 Walker B motif; other site 657321004415 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 657321004416 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 657321004417 nucleotide binding pocket [chemical binding]; other site 657321004418 K-X-D-G motif; other site 657321004419 catalytic site [active] 657321004420 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 657321004421 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 657321004422 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 657321004423 Dimer interface [polypeptide binding]; other site 657321004424 BRCT sequence motif; other site 657321004425 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 657321004426 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 657321004427 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 657321004428 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 657321004429 30S subunit binding site; other site 657321004430 hypothetical protein; Provisional; Region: PRK08582 657321004431 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 657321004432 RNA binding site [nucleotide binding]; other site 657321004433 Septum formation initiator; Region: DivIC; cl17659 657321004434 YabP family; Region: YabP; cl06766 657321004435 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 657321004436 RNA binding surface [nucleotide binding]; other site 657321004437 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 657321004438 IHF - DNA interface [nucleotide binding]; other site 657321004439 IHF dimer interface [polypeptide binding]; other site 657321004440 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 657321004441 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 657321004442 homodimer interface [polypeptide binding]; other site 657321004443 metal binding site [ion binding]; metal-binding site 657321004444 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 657321004445 homodimer interface [polypeptide binding]; other site 657321004446 active site 657321004447 putative chemical substrate binding site [chemical binding]; other site 657321004448 metal binding site [ion binding]; metal-binding site 657321004449 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 657321004450 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 657321004451 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 657321004452 FeS/SAM binding site; other site 657321004453 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 657321004454 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 657321004455 putative active site [active] 657321004456 dimerization interface [polypeptide binding]; other site 657321004457 putative tRNAtyr binding site [nucleotide binding]; other site 657321004458 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657321004459 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657321004460 Zn2+ binding site [ion binding]; other site 657321004461 Mg2+ binding site [ion binding]; other site 657321004462 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657321004463 synthetase active site [active] 657321004464 NTP binding site [chemical binding]; other site 657321004465 metal binding site [ion binding]; metal-binding site 657321004466 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 657321004467 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 657321004468 arginine repressor; Provisional; Region: argR; PRK00441 657321004469 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 657321004470 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 657321004471 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 657321004472 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 657321004473 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 657321004474 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 657321004475 RNA binding surface [nucleotide binding]; other site 657321004476 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 657321004477 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 657321004478 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 657321004479 TPP-binding site; other site 657321004480 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 657321004481 PYR/PP interface [polypeptide binding]; other site 657321004482 dimer interface [polypeptide binding]; other site 657321004483 TPP binding site [chemical binding]; other site 657321004484 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657321004485 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 657321004486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 657321004487 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 657321004488 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 657321004489 FAD binding domain; Region: FAD_binding_4; pfam01565 657321004490 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 657321004491 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 657321004492 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 657321004493 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 657321004494 Hpr binding site; other site 657321004495 active site 657321004496 homohexamer subunit interaction site [polypeptide binding]; other site 657321004497 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 657321004498 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 657321004499 Predicted membrane protein [Function unknown]; Region: COG2323 657321004500 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 657321004501 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 657321004502 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 657321004503 ABC-ATPase subunit interface; other site 657321004504 dimer interface [polypeptide binding]; other site 657321004505 putative PBP binding regions; other site 657321004506 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657321004507 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 657321004508 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 657321004509 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 657321004510 intersubunit interface [polypeptide binding]; other site 657321004511 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 657321004512 Protein export membrane protein; Region: SecD_SecF; cl14618 657321004513 protein-export membrane protein SecD; Region: secD; TIGR01129 657321004514 Protein export membrane protein; Region: SecD_SecF; cl14618 657321004515 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 657321004516 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 657321004517 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657321004518 catalytic residue [active] 657321004519 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 657321004520 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 657321004521 Nucleotide binding site [chemical binding]; other site 657321004522 P loop; other site 657321004523 DTAP/Switch II; other site 657321004524 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 657321004525 Chain length determinant protein; Region: Wzz; cl15801 657321004526 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 657321004527 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 657321004528 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 657321004529 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 657321004530 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657321004531 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657321004532 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657321004533 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 657321004534 RNA binding surface [nucleotide binding]; other site 657321004535 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657321004536 active site 657321004537 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 657321004538 catalytic triad [active] 657321004539 putative active site [active] 657321004540 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 657321004541 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 657321004542 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 657321004543 dimer interface [polypeptide binding]; other site 657321004544 substrate binding site [chemical binding]; other site 657321004545 metal binding sites [ion binding]; metal-binding site 657321004546 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 657321004547 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 657321004548 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 657321004549 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657321004550 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 657321004551 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 657321004552 motif II; other site 657321004553 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 657321004554 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 657321004555 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 657321004556 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 657321004557 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 657321004558 S-adenosylmethionine binding site [chemical binding]; other site 657321004559 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 657321004560 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657321004561 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 657321004562 active site 657321004563 metal binding site [ion binding]; metal-binding site 657321004564 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 657321004565 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 657321004566 Walker A/P-loop; other site 657321004567 ATP binding site [chemical binding]; other site 657321004568 Q-loop/lid; other site 657321004569 ABC transporter signature motif; other site 657321004570 Walker B; other site 657321004571 D-loop; other site 657321004572 H-loop/switch region; other site 657321004573 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 657321004574 active site 657321004575 hypothetical protein; Validated; Region: PRK00124 657321004576 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657321004577 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 657321004578 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657321004579 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 657321004580 active site 657321004581 catalytic triad [active] 657321004582 oxyanion hole [active] 657321004583 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657321004584 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 657321004585 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657321004586 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657321004587 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657321004588 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 657321004589 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 657321004590 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 657321004591 RNase E interface [polypeptide binding]; other site 657321004592 trimer interface [polypeptide binding]; other site 657321004593 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 657321004594 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 657321004595 RNase E interface [polypeptide binding]; other site 657321004596 trimer interface [polypeptide binding]; other site 657321004597 active site 657321004598 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 657321004599 putative nucleic acid binding region [nucleotide binding]; other site 657321004600 G-X-X-G motif; other site 657321004601 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 657321004602 RNA binding site [nucleotide binding]; other site 657321004603 domain interface; other site 657321004604 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 657321004605 16S/18S rRNA binding site [nucleotide binding]; other site 657321004606 S13e-L30e interaction site [polypeptide binding]; other site 657321004607 25S rRNA binding site [nucleotide binding]; other site 657321004608 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321004609 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 657321004610 non-specific DNA binding site [nucleotide binding]; other site 657321004611 salt bridge; other site 657321004612 sequence-specific DNA binding site [nucleotide binding]; other site 657321004613 Protein of unknown function, DUF624; Region: DUF624; cl02369 657321004614 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657321004615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321004616 dimer interface [polypeptide binding]; other site 657321004617 conserved gate region; other site 657321004618 putative PBP binding loops; other site 657321004619 ABC-ATPase subunit interface; other site 657321004620 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657321004621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321004622 dimer interface [polypeptide binding]; other site 657321004623 conserved gate region; other site 657321004624 putative PBP binding loops; other site 657321004625 ABC-ATPase subunit interface; other site 657321004626 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 657321004627 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657321004628 Walker A motif; other site 657321004629 ATP binding site [chemical binding]; other site 657321004630 Walker B motif; other site 657321004631 arginine finger; other site 657321004632 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 657321004633 Walker A motif; other site 657321004634 ATP binding site [chemical binding]; other site 657321004635 Walker B motif; other site 657321004636 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657321004637 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 657321004638 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 657321004639 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 657321004640 dimerization interface 3.5A [polypeptide binding]; other site 657321004641 active site 657321004642 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657321004643 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 657321004644 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657321004645 Walker A/P-loop; other site 657321004646 ATP binding site [chemical binding]; other site 657321004647 Q-loop/lid; other site 657321004648 ABC transporter signature motif; other site 657321004649 Walker B; other site 657321004650 D-loop; other site 657321004651 H-loop/switch region; other site 657321004652 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 657321004653 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657321004654 Walker A/P-loop; other site 657321004655 ATP binding site [chemical binding]; other site 657321004656 Q-loop/lid; other site 657321004657 ABC transporter signature motif; other site 657321004658 Walker B; other site 657321004659 D-loop; other site 657321004660 H-loop/switch region; other site 657321004661 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 657321004662 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657321004663 S-adenosylmethionine binding site [chemical binding]; other site 657321004664 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 657321004665 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 657321004666 active site 657321004667 substrate binding site [chemical binding]; other site 657321004668 metal binding site [ion binding]; metal-binding site 657321004669 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 657321004670 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 657321004671 Walker A motif; other site 657321004672 ATP binding site [chemical binding]; other site 657321004673 Walker B motif; other site 657321004674 arginine finger; other site 657321004675 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 657321004676 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 657321004677 RuvA N terminal domain; Region: RuvA_N; pfam01330 657321004678 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 657321004679 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 657321004680 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 657321004681 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657321004682 active site 657321004683 catalytic site [active] 657321004684 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 657321004685 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 657321004686 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme; Region: E_set_GDE_N; cd11234 657321004687 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 657321004688 active site 657321004689 catalytic site [active] 657321004690 FtsX-like permease family; Region: FtsX; pfam02687 657321004691 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657321004692 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657321004693 Walker A/P-loop; other site 657321004694 ATP binding site [chemical binding]; other site 657321004695 Q-loop/lid; other site 657321004696 ABC transporter signature motif; other site 657321004697 Walker B; other site 657321004698 D-loop; other site 657321004699 H-loop/switch region; other site 657321004700 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657321004701 FtsX-like permease family; Region: FtsX; pfam02687 657321004702 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 657321004703 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657321004704 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657321004705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321004706 Walker A/P-loop; other site 657321004707 ATP binding site [chemical binding]; other site 657321004708 Q-loop/lid; other site 657321004709 ABC transporter signature motif; other site 657321004710 Walker B; other site 657321004711 D-loop; other site 657321004712 H-loop/switch region; other site 657321004713 RloB-like protein; Region: RloB; pfam13707 657321004714 Predicted ATPases [General function prediction only]; Region: COG1106 657321004715 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657321004716 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 657321004717 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657321004718 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 657321004719 ATP cone domain; Region: ATP-cone; pfam03477 657321004720 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657321004721 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657321004722 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 657321004723 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 657321004724 Y-family of DNA polymerases; Region: PolY; cl12025 657321004725 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 657321004726 generic binding surface II; other site 657321004727 ssDNA binding site; other site 657321004728 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 657321004729 ATP binding site [chemical binding]; other site 657321004730 putative Mg++ binding site [ion binding]; other site 657321004731 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 657321004732 nucleotide binding region [chemical binding]; other site 657321004733 ATP-binding site [chemical binding]; other site 657321004734 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 657321004735 DAK2 domain; Region: Dak2; pfam02734 657321004736 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 657321004737 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657321004738 putative active site [active] 657321004739 metal binding site [ion binding]; metal-binding site 657321004740 homodimer binding site [polypeptide binding]; other site 657321004741 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 657321004742 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 657321004743 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 657321004744 Nucleoside recognition; Region: Gate; pfam07670 657321004745 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 657321004746 active site 657321004747 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 657321004748 dimer interface [polypeptide binding]; other site 657321004749 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 657321004750 Ligand Binding Site [chemical binding]; other site 657321004751 Molecular Tunnel; other site 657321004752 CHAP domain; Region: CHAP; pfam05257 657321004753 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 657321004754 putative sugar binding sites [chemical binding]; other site 657321004755 Q-X-W motif; other site 657321004756 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657321004757 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 657321004758 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 657321004759 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 657321004760 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 657321004761 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 657321004762 active site 657321004763 HIGH motif; other site 657321004764 dimer interface [polypeptide binding]; other site 657321004765 KMSKS motif; other site 657321004766 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 657321004767 RNA binding surface [nucleotide binding]; other site 657321004768 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 657321004769 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 657321004770 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 657321004771 Bacitracin resistance protein BacA; Region: BacA; pfam02673 657321004772 Clp protease; Region: CLP_protease; pfam00574 657321004773 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 657321004774 active site 657321004775 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657321004776 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 657321004777 active site 657321004778 metal binding site [ion binding]; metal-binding site 657321004779 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 657321004780 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 657321004781 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 657321004782 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 657321004783 Competence protein; Region: Competence; pfam03772 657321004784 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321004785 active site 657321004786 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 657321004787 nucleotide binding site/active site [active] 657321004788 HIT family signature motif; other site 657321004789 catalytic residue [active] 657321004790 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 657321004791 GTP-binding protein Der; Reviewed; Region: PRK00093 657321004792 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 657321004793 G1 box; other site 657321004794 GTP/Mg2+ binding site [chemical binding]; other site 657321004795 Switch I region; other site 657321004796 G2 box; other site 657321004797 Switch II region; other site 657321004798 G3 box; other site 657321004799 G4 box; other site 657321004800 G5 box; other site 657321004801 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 657321004802 G1 box; other site 657321004803 GTP/Mg2+ binding site [chemical binding]; other site 657321004804 Switch I region; other site 657321004805 G2 box; other site 657321004806 G3 box; other site 657321004807 Switch II region; other site 657321004808 G4 box; other site 657321004809 G5 box; other site 657321004810 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 657321004811 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 657321004812 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 657321004813 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 657321004814 Penicillinase repressor; Region: Pencillinase_R; cl17580 657321004815 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 657321004816 RmuC family; Region: RmuC; pfam02646 657321004817 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657321004818 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 657321004819 RNA binding site [nucleotide binding]; other site 657321004820 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 657321004821 RNA binding site [nucleotide binding]; other site 657321004822 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 657321004823 active site 657321004824 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; cl00197 657321004825 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657321004826 Protein of unknown function DUF58; Region: DUF58; pfam01882 657321004827 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 657321004828 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657321004829 LytTr DNA-binding domain; Region: LytTR; smart00850 657321004830 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 657321004831 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657321004832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321004833 Walker A/P-loop; other site 657321004834 ATP binding site [chemical binding]; other site 657321004835 Q-loop/lid; other site 657321004836 ABC transporter signature motif; other site 657321004837 Walker B; other site 657321004838 D-loop; other site 657321004839 H-loop/switch region; other site 657321004840 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657321004841 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 657321004842 substrate binding site [chemical binding]; other site 657321004843 THF binding site; other site 657321004844 zinc-binding site [ion binding]; other site 657321004845 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 657321004846 FMN binding site [chemical binding]; other site 657321004847 dimer interface [polypeptide binding]; other site 657321004848 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 657321004849 FMN binding site [chemical binding]; other site 657321004850 dimer interface [polypeptide binding]; other site 657321004851 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 657321004852 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 657321004853 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 657321004854 Protein of unknown function (DUF524); Region: DUF524; pfam04411 657321004855 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657321004856 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 657321004857 Short C-terminal domain; Region: SHOCT; pfam09851 657321004858 DEAD/DEAH box helicase; Region: DEAD; pfam00270 657321004859 ATP binding site [chemical binding]; other site 657321004860 putative Mg++ binding site [ion binding]; other site 657321004861 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657321004862 nucleotide binding region [chemical binding]; other site 657321004863 ATP-binding site [chemical binding]; other site 657321004864 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 657321004865 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321004866 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 657321004867 catalytic residues [active] 657321004868 catalytic nucleophile [active] 657321004869 Recombinase; Region: Recombinase; pfam07508 657321004870 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321004871 ParB-like nuclease domain; Region: ParB; smart00470 657321004872 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 657321004873 Mg binding site [ion binding]; other site 657321004874 nucleotide binding site [chemical binding]; other site 657321004875 putative protofilament interface [polypeptide binding]; other site 657321004876 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 657321004877 Protein of unknown function DUF262; Region: DUF262; pfam03235 657321004878 Uncharacterized conserved protein [Function unknown]; Region: COG1479 657321004879 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 657321004880 HNH endonuclease; Region: HNH_2; pfam13391 657321004881 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 657321004882 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657321004883 recombination protein RecR; Reviewed; Region: recR; PRK00076 657321004884 RecR protein; Region: RecR; pfam02132 657321004885 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 657321004886 putative active site [active] 657321004887 putative metal-binding site [ion binding]; other site 657321004888 tetramer interface [polypeptide binding]; other site 657321004889 hypothetical protein; Validated; Region: PRK00153 657321004890 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 657321004891 flagellar motor switch protein; Validated; Region: PRK08119 657321004892 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657321004893 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 657321004894 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 657321004895 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 657321004896 active site 657321004897 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 657321004898 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 657321004899 HflX GTPase family; Region: HflX; cd01878 657321004900 G1 box; other site 657321004901 GTP/Mg2+ binding site [chemical binding]; other site 657321004902 Switch I region; other site 657321004903 G2 box; other site 657321004904 G3 box; other site 657321004905 Switch II region; other site 657321004906 G4 box; other site 657321004907 G5 box; other site 657321004908 maltose O-acetyltransferase; Provisional; Region: PRK10092 657321004909 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 657321004910 active site 657321004911 substrate binding site [chemical binding]; other site 657321004912 trimer interface [polypeptide binding]; other site 657321004913 CoA binding site [chemical binding]; other site 657321004914 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657321004915 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 657321004916 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657321004917 conserved cys residue [active] 657321004918 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 657321004919 AAA domain; Region: AAA_30; pfam13604 657321004920 Family description; Region: UvrD_C_2; pfam13538 657321004921 comF family protein; Region: comF; TIGR00201 657321004922 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657321004923 active site 657321004924 rod shape-determining protein MreB; Provisional; Region: PRK13930 657321004925 MreB and similar proteins; Region: MreB_like; cd10225 657321004926 nucleotide binding site [chemical binding]; other site 657321004927 Mg binding site [ion binding]; other site 657321004928 putative protofilament interaction site [polypeptide binding]; other site 657321004929 RodZ interaction site [polypeptide binding]; other site 657321004930 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657321004931 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 657321004932 active site 657321004933 Ca binding site [ion binding]; other site 657321004934 catalytic site [active] 657321004935 Aamy_C domain; Region: Aamy_C; smart00632 657321004936 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 657321004937 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 657321004938 Walker A/P-loop; other site 657321004939 ATP binding site [chemical binding]; other site 657321004940 Q-loop/lid; other site 657321004941 ABC transporter signature motif; other site 657321004942 Walker B; other site 657321004943 D-loop; other site 657321004944 H-loop/switch region; other site 657321004945 TOBE domain; Region: TOBE_2; pfam08402 657321004946 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 657321004947 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321004948 dimer interface [polypeptide binding]; other site 657321004949 conserved gate region; other site 657321004950 putative PBP binding loops; other site 657321004951 ABC-ATPase subunit interface; other site 657321004952 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 657321004953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 657321004954 dimer interface [polypeptide binding]; other site 657321004955 conserved gate region; other site 657321004956 putative PBP binding loops; other site 657321004957 ABC-ATPase subunit interface; other site 657321004958 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 657321004959 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 657321004960 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 657321004961 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 657321004962 Walker A/P-loop; other site 657321004963 ATP binding site [chemical binding]; other site 657321004964 Q-loop/lid; other site 657321004965 ABC transporter signature motif; other site 657321004966 Walker B; other site 657321004967 D-loop; other site 657321004968 H-loop/switch region; other site 657321004969 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 657321004970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321004971 NAD(P) binding site [chemical binding]; other site 657321004972 active site 657321004973 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 657321004974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657321004975 LicD family; Region: LicD; cl01378 657321004976 Helix-turn-helix domain; Region: HTH_36; pfam13730 657321004977 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 657321004978 Walker A motif; other site 657321004979 ATP binding site [chemical binding]; other site 657321004980 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657321004981 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321004982 putative catalytic residues [active] 657321004983 catalytic nucleophile [active] 657321004984 Recombinase; Region: Recombinase; pfam07508 657321004985 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321004986 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657321004987 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657321004988 Helix-turn-helix domain; Region: HTH_17; pfam12728 657321004989 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657321004990 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 657321004991 active site 657321004992 phosphorylation site [posttranslational modification] 657321004993 intermolecular recognition site; other site 657321004994 dimerization interface [polypeptide binding]; other site 657321004995 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 657321004996 DNA binding site [nucleotide binding] 657321004997 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657321004998 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 657321004999 dimer interface [polypeptide binding]; other site 657321005000 phosphorylation site [posttranslational modification] 657321005001 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 657321005002 ATP binding site [chemical binding]; other site 657321005003 Mg2+ binding site [ion binding]; other site 657321005004 G-X-G motif; other site 657321005005 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 657321005006 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657321005007 hypothetical protein; Provisional; Region: PRK11622 657321005008 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657321005009 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657321005010 Walker A/P-loop; other site 657321005011 ATP binding site [chemical binding]; other site 657321005012 Q-loop/lid; other site 657321005013 ABC transporter signature motif; other site 657321005014 Walker B; other site 657321005015 D-loop; other site 657321005016 H-loop/switch region; other site 657321005017 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657321005018 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657321005019 DNA binding residues [nucleotide binding] 657321005020 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; Region: Sig-70_gvs1; TIGR02989 657321005021 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 657321005022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 657321005023 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 657321005024 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 657321005025 hypothetical protein; Validated; Region: PRK08116 657321005026 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 657321005027 Walker A motif; other site 657321005028 ATP binding site [chemical binding]; other site 657321005029 Walker B motif; other site 657321005030 arginine finger; other site 657321005031 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657321005032 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 657321005033 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657321005034 Maff2 family; Region: Maff2; pfam12750 657321005035 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657321005036 salt bridge; other site 657321005037 non-specific DNA binding site [nucleotide binding]; other site 657321005038 sequence-specific DNA binding site [nucleotide binding]; other site 657321005039 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657321005040 SnoaL-like domain; Region: SnoaL_2; pfam12680 657321005041 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 657321005042 TfoX N-terminal domain; Region: TfoX_N; pfam04993 657321005043 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 657321005044 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657321005045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321005046 Coenzyme A binding pocket [chemical binding]; other site 657321005047 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321005048 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 657321005049 non-specific DNA binding site [nucleotide binding]; other site 657321005050 salt bridge; other site 657321005051 sequence-specific DNA binding site [nucleotide binding]; other site 657321005052 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657321005053 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; cl17220 657321005054 putative Zn2+ binding site [ion binding]; other site 657321005055 putative DNA binding site [nucleotide binding]; other site 657321005056 Domain of unknown function (DUF4318); Region: DUF4318; pfam14201 657321005057 MobA/MobL family; Region: MobA_MobL; pfam03389 657321005058 Virulence-associated protein E; Region: VirE; pfam05272 657321005059 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321005060 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657321005061 putative catalytic residues [active] 657321005062 catalytic nucleophile [active] 657321005063 Recombinase; Region: Recombinase; pfam07508 657321005064 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321005065 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657321005066 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 657321005067 DNA methylase; Region: N6_N4_Mtase; pfam01555 657321005068 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657321005069 TIGR02594 family protein; Region: TIGR02594 657321005070 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657321005071 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657321005072 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 657321005073 active site 657321005074 metal binding site [ion binding]; metal-binding site 657321005075 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 657321005076 active site 657321005077 metal binding site [ion binding]; metal-binding site 657321005078 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 657321005079 domain I; other site 657321005080 DNA topoisomerase; Region: Topoisom_bac; pfam01131 657321005081 DNA binding groove [nucleotide binding] 657321005082 phosphate binding site [ion binding]; other site 657321005083 domain II; other site 657321005084 domain III; other site 657321005085 nucleotide binding site [chemical binding]; other site 657321005086 catalytic site [active] 657321005087 domain IV; other site 657321005088 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 657321005089 Antirestriction protein (ArdA); Region: ArdA; cl01953 657321005090 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657321005091 YodL-like; Region: YodL; pfam14191 657321005092 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 657321005093 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657321005094 Helix-turn-helix domain; Region: HTH_16; pfam12645 657321005095 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657321005096 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 657321005097 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321005098 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 657321005099 non-specific DNA binding site [nucleotide binding]; other site 657321005100 salt bridge; other site 657321005101 sequence-specific DNA binding site [nucleotide binding]; other site 657321005102 Cysteine-rich KTR; Region: Cys_rich_KTR; pfam14205 657321005103 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 657321005104 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 657321005105 FeS/SAM binding site; other site 657321005106 Helix-turn-helix domain; Region: HTH_16; pfam12645 657321005107 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657321005108 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657321005109 putative catalytic residues [active] 657321005110 catalytic nucleophile [active] 657321005111 Recombinase; Region: Recombinase; pfam07508 657321005112 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657321005113 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657321005114 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; cl02788 657321005115 catalytic nucleophile [active] 657321005116 ParB-like nuclease domain; Region: ParB; smart00470 657321005117 HsdM N-terminal domain; Region: HsdM_N; pfam12161 657321005118 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657321005119 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657321005120 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657321005121 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657321005122 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 657321005123 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 657321005124 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 657321005125 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 657321005126 ATP binding site [chemical binding]; other site 657321005127 putative Mg++ binding site [ion binding]; other site 657321005128 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 657321005129 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657321005130 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657321005131 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 657321005132 motif II; other site 657321005133 O-Antigen ligase; Region: Wzy_C; pfam04932 657321005134 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657321005135 metal binding site 2 [ion binding]; metal-binding site 657321005136 putative DNA binding helix; other site 657321005137 metal binding site 1 [ion binding]; metal-binding site 657321005138 dimer interface [polypeptide binding]; other site 657321005139 structural Zn2+ binding site [ion binding]; other site 657321005140 Rubredoxin [Energy production and conversion]; Region: COG1773 657321005141 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657321005142 iron binding site [ion binding]; other site 657321005143 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 657321005144 Rubrerythrin [Energy production and conversion]; Region: COG1592 657321005145 diiron binding motif [ion binding]; other site 657321005146 Rubredoxin; Region: Rubredoxin; pfam00301 657321005147 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 657321005148 iron binding site [ion binding]; other site 657321005149 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 657321005150 active site 657321005151 putative catalytic site [active] 657321005152 DNA binding site [nucleotide binding] 657321005153 putative phosphate binding site [ion binding]; other site 657321005154 metal binding site A [ion binding]; metal-binding site 657321005155 AP binding site [nucleotide binding]; other site 657321005156 metal binding site B [ion binding]; metal-binding site 657321005157 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; cd00741 657321005158 nucleophilic elbow; other site 657321005159 catalytic triad; other site 657321005160 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 657321005161 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 657321005162 ATP binding site [chemical binding]; other site 657321005163 putative Mg++ binding site [ion binding]; other site 657321005164 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 657321005165 nucleotide binding region [chemical binding]; other site 657321005166 ATP-binding site [chemical binding]; other site 657321005167 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 657321005168 HRDC domain; Region: HRDC; pfam00570 657321005169 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 657321005170 Rubrerythrin [Energy production and conversion]; Region: COG1592 657321005171 Dockerin type I repeat; Region: Dockerin_1; pfam00404 657321005172 Aluminium activated malate transporter; Region: ALMT; pfam11744 657321005173 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657321005174 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 657321005175 active site 657321005176 phosphorylation site [posttranslational modification] 657321005177 intermolecular recognition site; other site 657321005178 dimerization interface [polypeptide binding]; other site 657321005179 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 657321005180 dimerization interface [polypeptide binding]; other site 657321005181 DNA binding residues [nucleotide binding] 657321005182 PAS domain S-box; Region: sensory_box; TIGR00229 657321005183 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; cl00075 657321005184 chromosome segregation protein; Provisional; Region: PRK03918 657321005185 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 657321005186 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657321005187 NlpC/P60 family; Region: NLPC_P60; cl17555 657321005188 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657321005189 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 657321005190 non-specific DNA binding site [nucleotide binding]; other site 657321005191 salt bridge; other site 657321005192 sequence-specific DNA binding site [nucleotide binding]; other site 657321005193 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 657321005194 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 657321005195 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657321005196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657321005197 Coenzyme A binding pocket [chemical binding]; other site 657321005198 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 657321005199 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 657321005200 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 657321005201 cofactor binding site; other site