-- dump date 20140619_130824 -- class Genbank::misc_feature -- table misc_feature_note -- id note 999552000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 999552000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 999552000003 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 999552000004 Walker A motif; other site 999552000005 ATP binding site [chemical binding]; other site 999552000006 Walker B motif; other site 999552000007 arginine finger; other site 999552000008 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 999552000009 DnaA box-binding interface [nucleotide binding]; other site 999552000010 Predicted permeases [General function prediction only]; Region: RarD; COG2962 999552000011 Predicted periplasmic protein [Function unknown]; Region: COG3698 999552000012 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 999552000013 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 999552000014 dihydrodipicolinate reductase; Provisional; Region: PRK00048 999552000015 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 999552000016 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 999552000017 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 999552000018 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 999552000019 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cd00447 999552000020 putative RNA binding site [nucleotide binding]; other site 999552000021 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 999552000022 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 999552000023 S-adenosylmethionine binding site [chemical binding]; other site 999552000024 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 999552000025 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 999552000026 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 999552000027 purine monophosphate binding site [chemical binding]; other site 999552000028 dimer interface [polypeptide binding]; other site 999552000029 putative catalytic residues [active] 999552000030 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 999552000031 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 999552000032 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 999552000033 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 999552000034 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 999552000035 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 999552000036 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 999552000037 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 999552000038 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 999552000039 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 999552000040 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 999552000041 RNase E interface [polypeptide binding]; other site 999552000042 trimer interface [polypeptide binding]; other site 999552000043 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 999552000044 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 999552000045 RNase E interface [polypeptide binding]; other site 999552000046 trimer interface [polypeptide binding]; other site 999552000047 active site 999552000048 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 999552000049 putative nucleic acid binding region [nucleotide binding]; other site 999552000050 G-X-X-G motif; other site 999552000051 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 999552000052 RNA binding site [nucleotide binding]; other site 999552000053 domain interface; other site 999552000054 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 999552000055 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 999552000056 Probable Catalytic site; other site 999552000057 metal-binding site 999552000058 Rhamnan synthesis protein F; Region: RgpF; pfam05045 999552000059 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 999552000060 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 999552000061 dimer interface [polypeptide binding]; other site 999552000062 decamer (pentamer of dimers) interface [polypeptide binding]; other site 999552000063 catalytic triad [active] 999552000064 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 999552000065 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552000066 NAD binding site [chemical binding]; other site 999552000067 catalytic residues [active] 999552000068 Predicted membrane protein [Function unknown]; Region: COG4541 999552000069 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552000070 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 999552000071 salt bridge; other site 999552000072 non-specific DNA binding site [nucleotide binding]; other site 999552000073 sequence-specific DNA binding site [nucleotide binding]; other site 999552000074 Cupin domain; Region: Cupin_2; cl17218 999552000075 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 999552000076 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 999552000077 active site 999552000078 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 999552000079 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 999552000080 RNA binding site [nucleotide binding]; other site 999552000081 active site 999552000082 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 999552000083 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 999552000084 16S/18S rRNA binding site [nucleotide binding]; other site 999552000085 S13e-L30e interaction site [polypeptide binding]; other site 999552000086 25S rRNA binding site [nucleotide binding]; other site 999552000087 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 999552000088 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552000089 NAD(P) binding site [chemical binding]; other site 999552000090 catalytic residues [active] 999552000091 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 999552000092 NAD(P) binding site [chemical binding]; other site 999552000093 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 999552000094 intersubunit interface [polypeptide binding]; other site 999552000095 active site 999552000096 catalytic residue [active] 999552000097 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 999552000098 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 999552000099 ATP binding site [chemical binding]; other site 999552000100 Mg2+ binding site [ion binding]; other site 999552000101 G-X-G motif; other site 999552000102 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 999552000103 ATP binding site [chemical binding]; other site 999552000104 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 999552000105 RmuC family; Region: RmuC; pfam02646 999552000106 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 999552000107 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 999552000108 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 999552000109 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 999552000110 active site 999552000111 ligand binding site [chemical binding]; other site 999552000112 homodimer interface [polypeptide binding]; other site 999552000113 NAD(P) binding site [chemical binding]; other site 999552000114 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552000115 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 999552000116 C-terminal domain interface [polypeptide binding]; other site 999552000117 GSH binding site (G-site) [chemical binding]; other site 999552000118 dimer interface [polypeptide binding]; other site 999552000119 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 999552000120 dimer interface [polypeptide binding]; other site 999552000121 substrate binding pocket (H-site) [chemical binding]; other site 999552000122 N-terminal domain interface [polypeptide binding]; other site 999552000123 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 999552000124 catalytic core [active] 999552000125 allantoate amidohydrolase; Reviewed; Region: PRK12893 999552000126 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 999552000127 active site 999552000128 metal binding site [ion binding]; metal-binding site 999552000129 dimer interface [polypeptide binding]; other site 999552000130 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 999552000131 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552000132 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 999552000133 active site 999552000134 phosphorylation site [posttranslational modification] 999552000135 intermolecular recognition site; other site 999552000136 dimerization interface [polypeptide binding]; other site 999552000137 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 999552000138 DNA binding site [nucleotide binding] 999552000139 PAS fold; Region: PAS_7; pfam12860 999552000140 PAS fold; Region: PAS_4; pfam08448 999552000141 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 999552000142 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 999552000143 ATP binding site [chemical binding]; other site 999552000144 Mg2+ binding site [ion binding]; other site 999552000145 G-X-G motif; other site 999552000146 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 999552000147 Response regulator receiver domain; Region: Response_reg; pfam00072 999552000148 active site 999552000149 phosphorylation site [posttranslational modification] 999552000150 intermolecular recognition site; other site 999552000151 dimerization interface [polypeptide binding]; other site 999552000152 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 999552000153 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552000154 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 999552000155 acyl-activating enzyme (AAE) consensus motif; other site 999552000156 putative AMP binding site [chemical binding]; other site 999552000157 putative active site [active] 999552000158 putative CoA binding site [chemical binding]; other site 999552000159 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 999552000160 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 999552000161 Walker A/P-loop; other site 999552000162 ATP binding site [chemical binding]; other site 999552000163 Q-loop/lid; other site 999552000164 ABC transporter signature motif; other site 999552000165 Walker B; other site 999552000166 D-loop; other site 999552000167 H-loop/switch region; other site 999552000168 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 999552000169 TM-ABC transporter signature motif; other site 999552000170 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 999552000171 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 999552000172 TM-ABC transporter signature motif; other site 999552000173 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 999552000174 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 999552000175 putative ligand binding site [chemical binding]; other site 999552000176 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 999552000177 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 999552000178 Walker A/P-loop; other site 999552000179 ATP binding site [chemical binding]; other site 999552000180 Q-loop/lid; other site 999552000181 ABC transporter signature motif; other site 999552000182 Walker B; other site 999552000183 D-loop; other site 999552000184 H-loop/switch region; other site 999552000185 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552000186 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 999552000187 acyl-activating enzyme (AAE) consensus motif; other site 999552000188 active site 999552000189 AMP binding site [chemical binding]; other site 999552000190 CoA binding site [chemical binding]; other site 999552000191 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 999552000192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552000193 dimer interface [polypeptide binding]; other site 999552000194 conserved gate region; other site 999552000195 putative PBP binding loops; other site 999552000196 ABC-ATPase subunit interface; other site 999552000197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552000198 dimer interface [polypeptide binding]; other site 999552000199 conserved gate region; other site 999552000200 putative PBP binding loops; other site 999552000201 ABC-ATPase subunit interface; other site 999552000202 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 999552000203 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 999552000204 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 999552000205 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 999552000206 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 999552000207 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 999552000208 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 999552000209 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 999552000210 active site 999552000211 DNA polymerase IV; Validated; Region: PRK02406 999552000212 DNA binding site [nucleotide binding] 999552000213 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 999552000214 active site 999552000215 dimer interface [polypeptide binding]; other site 999552000216 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 999552000217 Clp amino terminal domain; Region: Clp_N; pfam02861 999552000218 Clp amino terminal domain; Region: Clp_N; pfam02861 999552000219 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 999552000220 Walker A motif; other site 999552000221 ATP binding site [chemical binding]; other site 999552000222 Walker B motif; other site 999552000223 arginine finger; other site 999552000224 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 999552000225 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 999552000226 Walker A motif; other site 999552000227 ATP binding site [chemical binding]; other site 999552000228 Walker B motif; other site 999552000229 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 999552000230 TMAO/DMSO reductase; Reviewed; Region: PRK05363 999552000231 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 999552000232 Moco binding site; other site 999552000233 metal coordination site [ion binding]; other site 999552000234 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 999552000235 Alcohol dehydrogenase GroES-like domain; Region: ADH_N; pfam08240 999552000236 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 999552000237 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 999552000238 active site residue [active] 999552000239 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 999552000240 active site residue [active] 999552000241 Putative phosphatase (DUF442); Region: DUF442; cl17385 999552000242 Integrase core domain; Region: rve_3; cl15866 999552000243 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 999552000244 C-terminal domain interface [polypeptide binding]; other site 999552000245 GSH binding site (G-site) [chemical binding]; other site 999552000246 putative dimer interface [polypeptide binding]; other site 999552000247 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 999552000248 dimer interface [polypeptide binding]; other site 999552000249 N-terminal domain interface [polypeptide binding]; other site 999552000250 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 999552000251 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 999552000252 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 999552000253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552000254 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552000255 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 999552000256 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 999552000257 fumarylacetoacetase; Region: PLN02856 999552000258 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 999552000259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 999552000260 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 999552000261 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 999552000262 MarR family; Region: MarR_2; pfam12802 999552000263 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552000264 cyclase homology domain; Region: CHD; cd07302 999552000265 nucleotidyl binding site; other site 999552000266 metal binding site [ion binding]; metal-binding site 999552000267 dimer interface [polypeptide binding]; other site 999552000268 ATPase MipZ; Region: MipZ; pfam09140 999552000269 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 999552000270 P-loop; other site 999552000271 Magnesium ion binding site [ion binding]; other site 999552000272 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 999552000273 Magnesium ion binding site [ion binding]; other site 999552000274 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 999552000275 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 999552000276 ATP binding site [chemical binding]; other site 999552000277 putative Mg++ binding site [ion binding]; other site 999552000278 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 999552000279 nucleotide binding region [chemical binding]; other site 999552000280 ATP-binding site [chemical binding]; other site 999552000281 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 999552000282 RNA binding site [nucleotide binding]; other site 999552000283 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 999552000284 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 999552000285 Uncharacterized conserved protein [Function unknown]; Region: COG3422 999552000286 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 999552000287 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 999552000288 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 999552000289 RimM N-terminal domain; Region: RimM; pfam01782 999552000290 PRC-barrel domain; Region: PRC; pfam05239 999552000291 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 999552000292 FMN binding site [chemical binding]; other site 999552000293 dimer interface [polypeptide binding]; other site 999552000294 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 999552000295 chorismate mutase; Provisional; Region: PRK09239 999552000296 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552000297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552000298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 999552000299 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552000300 signal recognition particle protein; Provisional; Region: PRK10867 999552000301 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 999552000302 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 999552000303 P loop; other site 999552000304 GTP binding site [chemical binding]; other site 999552000305 Signal peptide binding domain; Region: SRP_SPB; pfam02978 999552000306 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 999552000307 elongation factor G; Reviewed; Region: PRK12740 999552000308 G1 box; other site 999552000309 putative GEF interaction site [polypeptide binding]; other site 999552000310 GTP/Mg2+ binding site [chemical binding]; other site 999552000311 Switch I region; other site 999552000312 G2 box; other site 999552000313 G3 box; other site 999552000314 Switch II region; other site 999552000315 G4 box; other site 999552000316 G5 box; other site 999552000317 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 999552000318 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 999552000319 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 999552000320 putative deacylase active site [active] 999552000321 aspartate racemase; Region: asp_race; TIGR00035 999552000322 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 999552000323 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 999552000324 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552000325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552000326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552000327 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552000328 dimerization interface [polypeptide binding]; other site 999552000329 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552000330 Ligand Binding Site [chemical binding]; other site 999552000331 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 999552000332 dimerization interface [polypeptide binding]; other site 999552000333 putative DNA binding site [nucleotide binding]; other site 999552000334 putative Zn2+ binding site [ion binding]; other site 999552000335 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552000336 EamA-like transporter family; Region: EamA; pfam00892 999552000337 EamA-like transporter family; Region: EamA; pfam00892 999552000338 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 999552000339 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 999552000340 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 999552000341 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 999552000342 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 999552000343 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 999552000344 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 999552000345 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 999552000346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552000347 DNA-binding site [nucleotide binding]; DNA binding site 999552000348 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 999552000349 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 999552000350 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 999552000351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552000352 homodimer interface [polypeptide binding]; other site 999552000353 catalytic residue [active] 999552000354 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 999552000355 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 999552000356 Walker A/P-loop; other site 999552000357 ATP binding site [chemical binding]; other site 999552000358 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 999552000359 Walker B; other site 999552000360 D-loop; other site 999552000361 H-loop/switch region; other site 999552000362 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 999552000363 Transglycosylase SLT domain; Region: SLT_2; pfam13406 999552000364 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 999552000365 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552000366 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552000367 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 999552000368 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 999552000369 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 999552000370 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552000371 catalytic residue [active] 999552000372 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 999552000373 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 999552000374 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 999552000375 putative dimer interface [polypeptide binding]; other site 999552000376 N-terminal domain interface [polypeptide binding]; other site 999552000377 putative substrate binding pocket (H-site) [chemical binding]; other site 999552000378 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 999552000379 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 999552000380 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 999552000381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552000382 homodimer interface [polypeptide binding]; other site 999552000383 catalytic residue [active] 999552000384 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 999552000385 active site 999552000386 catalytic residues [active] 999552000387 metal binding site [ion binding]; metal-binding site 999552000388 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 999552000389 active site 999552000390 catalytic residues [active] 999552000391 metal binding site [ion binding]; metal-binding site 999552000392 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 999552000393 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 999552000394 putative active site [active] 999552000395 substrate binding site [chemical binding]; other site 999552000396 putative cosubstrate binding site; other site 999552000397 catalytic site [active] 999552000398 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 999552000399 substrate binding site [chemical binding]; other site 999552000400 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552000401 Predicted membrane protein [Function unknown]; Region: COG2860 999552000402 UPF0126 domain; Region: UPF0126; pfam03458 999552000403 UPF0126 domain; Region: UPF0126; pfam03458 999552000404 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 999552000405 RNA/DNA hybrid binding site [nucleotide binding]; other site 999552000406 active site 999552000407 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552000408 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 999552000409 S-adenosylmethionine binding site [chemical binding]; other site 999552000410 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552000411 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 999552000412 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 999552000413 Uncharacterized conserved protein [Function unknown]; Region: COG1432 999552000414 LabA_like proteins; Region: LabA; cd10911 999552000415 putative metal binding site [ion binding]; other site 999552000416 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 999552000417 catalytic center binding site [active] 999552000418 ATP binding site [chemical binding]; other site 999552000419 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 999552000420 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 999552000421 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 999552000422 Zn2+ binding site [ion binding]; other site 999552000423 Mg2+ binding site [ion binding]; other site 999552000424 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 999552000425 synthetase active site [active] 999552000426 NTP binding site [chemical binding]; other site 999552000427 metal binding site [ion binding]; metal-binding site 999552000428 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 999552000429 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 999552000430 ATP binding site [chemical binding]; other site 999552000431 substrate binding site [chemical binding]; other site 999552000432 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 999552000433 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 999552000434 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 999552000435 active site 999552000436 hydrophilic channel; other site 999552000437 dimerization interface [polypeptide binding]; other site 999552000438 catalytic residues [active] 999552000439 active site lid [active] 999552000440 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 999552000441 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 999552000442 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 999552000443 Catalytic site [active] 999552000444 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 999552000445 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 999552000446 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 999552000447 dimerization interface [polypeptide binding]; other site 999552000448 active site 999552000449 metal binding site [ion binding]; metal-binding site 999552000450 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 999552000451 dsRNA binding site [nucleotide binding]; other site 999552000452 GTPase Era; Reviewed; Region: era; PRK00089 999552000453 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 999552000454 G1 box; other site 999552000455 GTP/Mg2+ binding site [chemical binding]; other site 999552000456 Switch I region; other site 999552000457 G2 box; other site 999552000458 Switch II region; other site 999552000459 G3 box; other site 999552000460 G4 box; other site 999552000461 G5 box; other site 999552000462 KH domain; Region: KH_2; pfam07650 999552000463 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 999552000464 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 999552000465 Recombination protein O N terminal; Region: RecO_N; pfam11967 999552000466 Recombination protein O C terminal; Region: RecO_C; pfam02565 999552000467 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 999552000468 active site 999552000469 catalytic triad [active] 999552000470 oxyanion hole [active] 999552000471 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552000472 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552000473 active site 999552000474 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552000475 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 999552000476 Cation efflux family; Region: Cation_efflux; pfam01545 999552000477 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 999552000478 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 999552000479 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552000480 PAS fold; Region: PAS_3; pfam08447 999552000481 putative active site [active] 999552000482 heme pocket [chemical binding]; other site 999552000483 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552000484 putative CheW interface [polypeptide binding]; other site 999552000485 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 999552000486 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 999552000487 active site 999552000488 substrate-binding site [chemical binding]; other site 999552000489 metal-binding site [ion binding] 999552000490 ATP binding site [chemical binding]; other site 999552000491 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552000492 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 999552000493 active site 999552000494 phosphorylation site [posttranslational modification] 999552000495 intermolecular recognition site; other site 999552000496 dimerization interface [polypeptide binding]; other site 999552000497 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 999552000498 DNA binding site [nucleotide binding] 999552000499 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 999552000500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552000501 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 999552000502 dimer interface [polypeptide binding]; other site 999552000503 phosphorylation site [posttranslational modification] 999552000504 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 999552000505 ATP binding site [chemical binding]; other site 999552000506 Mg2+ binding site [ion binding]; other site 999552000507 G-X-G motif; other site 999552000508 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 999552000509 Hpr binding site; other site 999552000510 active site 999552000511 homohexamer subunit interaction site [polypeptide binding]; other site 999552000512 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 999552000513 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 999552000514 active pocket/dimerization site; other site 999552000515 active site 999552000516 phosphorylation site [posttranslational modification] 999552000517 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 999552000518 dimerization domain swap beta strand [polypeptide binding]; other site 999552000519 regulatory protein interface [polypeptide binding]; other site 999552000520 active site 999552000521 regulatory phosphorylation site [posttranslational modification]; other site 999552000522 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 999552000523 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 999552000524 putative acyl-acceptor binding pocket; other site 999552000525 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 999552000526 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 999552000527 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552000528 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 999552000529 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 999552000530 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 999552000531 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 999552000532 Ligand binding site [chemical binding]; other site 999552000533 Electron transfer flavoprotein domain; Region: ETF; pfam01012 999552000534 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 999552000535 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 999552000536 short chain dehydrogenase; Provisional; Region: PRK05993 999552000537 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 999552000538 NADP binding site [chemical binding]; other site 999552000539 active site 999552000540 steroid binding site; other site 999552000541 Bacterial SH3 domain homologues; Region: SH3b; smart00287 999552000542 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 999552000543 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 999552000544 CAP-like domain; other site 999552000545 active site 999552000546 primary dimer interface [polypeptide binding]; other site 999552000547 elongation factor Tu; Reviewed; Region: PRK00049 999552000548 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 999552000549 G1 box; other site 999552000550 GEF interaction site [polypeptide binding]; other site 999552000551 GTP/Mg2+ binding site [chemical binding]; other site 999552000552 Switch I region; other site 999552000553 G2 box; other site 999552000554 G3 box; other site 999552000555 Switch II region; other site 999552000556 G4 box; other site 999552000557 G5 box; other site 999552000558 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 999552000559 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 999552000560 Antibiotic Binding Site [chemical binding]; other site 999552000561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 999552000562 putative acyl-acceptor binding pocket; other site 999552000563 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552000564 binding surface 999552000565 TPR motif; other site 999552000566 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 999552000567 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552000568 binding surface 999552000569 TPR motif; other site 999552000570 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552000571 binding surface 999552000572 TPR motif; other site 999552000573 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 999552000574 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 999552000575 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 999552000576 putative homodimer interface [polypeptide binding]; other site 999552000577 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 999552000578 heterodimer interface [polypeptide binding]; other site 999552000579 homodimer interface [polypeptide binding]; other site 999552000580 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 999552000581 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 999552000582 23S rRNA interface [nucleotide binding]; other site 999552000583 L7/L12 interface [polypeptide binding]; other site 999552000584 putative thiostrepton binding site; other site 999552000585 L25 interface [polypeptide binding]; other site 999552000586 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 999552000587 mRNA/rRNA interface [nucleotide binding]; other site 999552000588 Hint domain; Region: Hint_2; pfam13403 999552000589 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 999552000590 23S rRNA interface [nucleotide binding]; other site 999552000591 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 999552000592 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 999552000593 core dimer interface [polypeptide binding]; other site 999552000594 peripheral dimer interface [polypeptide binding]; other site 999552000595 L10 interface [polypeptide binding]; other site 999552000596 L11 interface [polypeptide binding]; other site 999552000597 putative EF-Tu interaction site [polypeptide binding]; other site 999552000598 putative EF-G interaction site [polypeptide binding]; other site 999552000599 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 999552000600 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 999552000601 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 999552000602 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 999552000603 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 999552000604 RPB3 interaction site [polypeptide binding]; other site 999552000605 RPB1 interaction site [polypeptide binding]; other site 999552000606 RPB11 interaction site [polypeptide binding]; other site 999552000607 RPB10 interaction site [polypeptide binding]; other site 999552000608 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 999552000609 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 999552000610 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 999552000611 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 999552000612 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 999552000613 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 999552000614 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 999552000615 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 999552000616 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 999552000617 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 999552000618 DNA binding site [nucleotide binding] 999552000619 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 999552000620 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 999552000621 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 999552000622 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 999552000623 S17 interaction site [polypeptide binding]; other site 999552000624 S8 interaction site; other site 999552000625 16S rRNA interaction site [nucleotide binding]; other site 999552000626 streptomycin interaction site [chemical binding]; other site 999552000627 23S rRNA interaction site [nucleotide binding]; other site 999552000628 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 999552000629 30S ribosomal protein S7; Validated; Region: PRK05302 999552000630 elongation factor G; Reviewed; Region: PRK00007 999552000631 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 999552000632 G1 box; other site 999552000633 putative GEF interaction site [polypeptide binding]; other site 999552000634 GTP/Mg2+ binding site [chemical binding]; other site 999552000635 Switch I region; other site 999552000636 G2 box; other site 999552000637 G3 box; other site 999552000638 Switch II region; other site 999552000639 G4 box; other site 999552000640 G5 box; other site 999552000641 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 999552000642 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 999552000643 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 999552000644 elongation factor Tu; Reviewed; Region: PRK00049 999552000645 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 999552000646 G1 box; other site 999552000647 GEF interaction site [polypeptide binding]; other site 999552000648 GTP/Mg2+ binding site [chemical binding]; other site 999552000649 Switch I region; other site 999552000650 G2 box; other site 999552000651 G3 box; other site 999552000652 Switch II region; other site 999552000653 G4 box; other site 999552000654 G5 box; other site 999552000655 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 999552000656 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 999552000657 Antibiotic Binding Site [chemical binding]; other site 999552000658 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 999552000659 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 999552000660 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 999552000661 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 999552000662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 999552000663 PRC-barrel domain; Region: PRC; pfam05239 999552000664 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 999552000665 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 999552000666 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 999552000667 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 999552000668 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 999552000669 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 999552000670 putative translocon binding site; other site 999552000671 protein-rRNA interface [nucleotide binding]; other site 999552000672 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 999552000673 23S rRNA interface [nucleotide binding]; other site 999552000674 5S rRNA interface [nucleotide binding]; other site 999552000675 putative antibiotic binding site [chemical binding]; other site 999552000676 L25 interface [polypeptide binding]; other site 999552000677 L27 interface [polypeptide binding]; other site 999552000678 conserved hypothetical protein; Region: TIGR02466 999552000679 Predicted deacylase [General function prediction only]; Region: COG3608 999552000680 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 999552000681 putative active site [active] 999552000682 Zn binding site [ion binding]; other site 999552000683 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 999552000684 23S rRNA interface [nucleotide binding]; other site 999552000685 putative translocon interaction site; other site 999552000686 signal recognition particle (SRP54) interaction site; other site 999552000687 L23 interface [polypeptide binding]; other site 999552000688 trigger factor interaction site; other site 999552000689 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 999552000690 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 999552000691 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 999552000692 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 999552000693 RNA binding site [nucleotide binding]; other site 999552000694 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 999552000695 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 999552000696 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 999552000697 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 999552000698 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 999552000699 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 999552000700 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 999552000701 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 999552000702 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 999552000703 5S rRNA interface [nucleotide binding]; other site 999552000704 23S rRNA interface [nucleotide binding]; other site 999552000705 L5 interface [polypeptide binding]; other site 999552000706 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 999552000707 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 999552000708 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 999552000709 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 999552000710 23S rRNA binding site [nucleotide binding]; other site 999552000711 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 999552000712 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 999552000713 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 999552000714 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 999552000715 SecY translocase; Region: SecY; pfam00344 999552000716 adenylate kinase; Reviewed; Region: adk; PRK00279 999552000717 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 999552000718 AMP-binding site [chemical binding]; other site 999552000719 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 999552000720 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 999552000721 30S ribosomal protein S13; Region: bact_S13; TIGR03631 999552000722 30S ribosomal protein S11; Validated; Region: PRK05309 999552000723 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 999552000724 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 999552000725 alphaNTD - beta interaction site [polypeptide binding]; other site 999552000726 alphaNTD homodimer interface [polypeptide binding]; other site 999552000727 alphaNTD - beta' interaction site [polypeptide binding]; other site 999552000728 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 999552000729 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 999552000730 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 999552000731 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 999552000732 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552000733 dimer interface [polypeptide binding]; other site 999552000734 putative CheW interface [polypeptide binding]; other site 999552000735 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 999552000736 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 999552000737 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 999552000738 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 999552000739 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 999552000740 protein binding site [polypeptide binding]; other site 999552000741 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 999552000742 protein binding site [polypeptide binding]; other site 999552000743 recombination factor protein RarA; Reviewed; Region: PRK13342 999552000744 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 999552000745 Walker A motif; other site 999552000746 ATP binding site [chemical binding]; other site 999552000747 Walker B motif; other site 999552000748 arginine finger; other site 999552000749 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 999552000750 CrcB-like protein; Region: CRCB; cl09114 999552000751 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 999552000752 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 999552000753 RNA binding surface [nucleotide binding]; other site 999552000754 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 999552000755 active site 999552000756 Eukaryotic phosphomannomutase; Region: PMM; cl17107 999552000757 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 999552000758 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 999552000759 motif II; other site 999552000760 ATP12 chaperone protein; Region: ATP12; cl02228 999552000761 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 999552000762 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 999552000763 substrate binding pocket [chemical binding]; other site 999552000764 membrane-bound complex binding site; other site 999552000765 hinge residues; other site 999552000766 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 999552000767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552000768 conserved gate region; other site 999552000769 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552000770 dimer interface [polypeptide binding]; other site 999552000771 conserved gate region; other site 999552000772 putative PBP binding loops; other site 999552000773 ABC-ATPase subunit interface; other site 999552000774 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 999552000775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552000776 dimer interface [polypeptide binding]; other site 999552000777 conserved gate region; other site 999552000778 putative PBP binding loops; other site 999552000779 ABC-ATPase subunit interface; other site 999552000780 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 999552000781 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 999552000782 Walker A/P-loop; other site 999552000783 ATP binding site [chemical binding]; other site 999552000784 Q-loop/lid; other site 999552000785 ABC transporter signature motif; other site 999552000786 Walker B; other site 999552000787 D-loop; other site 999552000788 H-loop/switch region; other site 999552000789 Protein of unknown function, DUF; Region: DUF411; cl01142 999552000790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 999552000791 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 999552000792 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 999552000793 catalytic core [active] 999552000794 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 999552000795 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 999552000796 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 999552000797 GYD domain; Region: GYD; cl01743 999552000798 BCCT family transporter; Region: BCCT; pfam02028 999552000799 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 999552000800 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 999552000801 FAD binding pocket [chemical binding]; other site 999552000802 FAD binding motif [chemical binding]; other site 999552000803 phosphate binding motif [ion binding]; other site 999552000804 beta-alpha-beta structure motif; other site 999552000805 NAD binding pocket [chemical binding]; other site 999552000806 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552000807 catalytic loop [active] 999552000808 iron binding site [ion binding]; other site 999552000809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552000810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552000811 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 999552000812 dimerization interface [polypeptide binding]; other site 999552000813 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 999552000814 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 999552000815 iron-sulfur cluster [ion binding]; other site 999552000816 [2Fe-2S] cluster binding site [ion binding]; other site 999552000817 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 999552000818 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 999552000819 NAD(P) binding site [chemical binding]; other site 999552000820 catalytic residues [active] 999552000821 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 999552000822 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552000823 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 999552000824 active site 999552000825 phosphorylation site [posttranslational modification] 999552000826 intermolecular recognition site; other site 999552000827 PAS domain S-box; Region: sensory_box; TIGR00229 999552000828 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552000829 putative active site [active] 999552000830 heme pocket [chemical binding]; other site 999552000831 PAS fold; Region: PAS_4; pfam08448 999552000832 PAS domain S-box; Region: sensory_box; TIGR00229 999552000833 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552000834 putative active site [active] 999552000835 heme pocket [chemical binding]; other site 999552000836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 999552000837 HWE histidine kinase; Region: HWE_HK; smart00911 999552000838 Predicted transcriptional regulator [Transcription]; Region: COG2345 999552000839 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 999552000840 feedback inhibition sensing region; other site 999552000841 homohexameric interface [polypeptide binding]; other site 999552000842 nucleotide binding site [chemical binding]; other site 999552000843 N-acetyl-L-glutamate binding site [chemical binding]; other site 999552000844 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 999552000845 classical (c) SDRs; Region: SDR_c; cd05233 999552000846 NAD(P) binding site [chemical binding]; other site 999552000847 active site 999552000848 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 999552000849 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 999552000850 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 999552000851 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 999552000852 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 999552000853 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 999552000854 G1 box; other site 999552000855 GTP/Mg2+ binding site [chemical binding]; other site 999552000856 Switch I region; other site 999552000857 G2 box; other site 999552000858 G3 box; other site 999552000859 Switch II region; other site 999552000860 G4 box; other site 999552000861 G5 box; other site 999552000862 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 999552000863 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 999552000864 MOSC domain; Region: MOSC; pfam03473 999552000865 membrane protein insertase; Provisional; Region: PRK01318 999552000866 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 999552000867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 999552000868 metal binding site [ion binding]; metal-binding site 999552000869 active site 999552000870 I-site; other site 999552000871 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 999552000872 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 999552000873 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 999552000874 Ligand Binding Site [chemical binding]; other site 999552000875 Haemolytic domain; Region: Haemolytic; pfam01809 999552000876 Ribonuclease P; Region: Ribonuclease_P; pfam00825 999552000877 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 999552000878 Uncharacterized conserved protein [Function unknown]; Region: COG0398 999552000879 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 999552000880 mercuric reductase; Validated; Region: PRK06370 999552000881 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552000882 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552000883 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552000884 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552000885 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 999552000886 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 999552000887 ATP binding site [chemical binding]; other site 999552000888 Mg2+ binding site [ion binding]; other site 999552000889 G-X-G motif; other site 999552000890 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 999552000891 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 999552000892 heme-binding site [chemical binding]; other site 999552000893 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 999552000894 FAD binding pocket [chemical binding]; other site 999552000895 FAD binding motif [chemical binding]; other site 999552000896 phosphate binding motif [ion binding]; other site 999552000897 beta-alpha-beta structure motif; other site 999552000898 NAD binding pocket [chemical binding]; other site 999552000899 Heme binding pocket [chemical binding]; other site 999552000900 Transcriptional regulator; Region: Rrf2; cl17282 999552000901 Predicted transcriptional regulator [Transcription]; Region: COG1959 999552000902 HPP family; Region: HPP; pfam04982 999552000903 FOG: CBS domain [General function prediction only]; Region: COG0517 999552000904 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 999552000905 Rrf2 family protein; Region: rrf2_super; TIGR00738 999552000906 Transcriptional regulator; Region: Rrf2; cl17282 999552000907 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 999552000908 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 999552000909 FMN binding site [chemical binding]; other site 999552000910 substrate binding site [chemical binding]; other site 999552000911 putative catalytic residue [active] 999552000912 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 999552000913 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 999552000914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552000915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552000916 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 999552000917 dimerization interface [polypeptide binding]; other site 999552000918 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 999552000919 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 999552000920 putative dimer interface [polypeptide binding]; other site 999552000921 [2Fe-2S] cluster binding site [ion binding]; other site 999552000922 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 999552000923 putative dimer interface [polypeptide binding]; other site 999552000924 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 999552000925 SLBB domain; Region: SLBB; pfam10531 999552000926 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 999552000927 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 999552000928 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552000929 catalytic loop [active] 999552000930 iron binding site [ion binding]; other site 999552000931 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 999552000932 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 999552000933 [4Fe-4S] binding site [ion binding]; other site 999552000934 molybdopterin cofactor binding site; other site 999552000935 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 999552000936 molybdopterin cofactor binding site; other site 999552000937 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 999552000938 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 999552000939 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 999552000940 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552000941 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 999552000942 ligand binding site [chemical binding]; other site 999552000943 flexible hinge region; other site 999552000944 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 999552000945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552000946 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 999552000947 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552000948 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 999552000949 PaaX-like protein; Region: PaaX; pfam07848 999552000950 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 999552000951 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 999552000952 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 999552000953 substrate binding site [chemical binding]; other site 999552000954 dimer interface [polypeptide binding]; other site 999552000955 NADP binding site [chemical binding]; other site 999552000956 catalytic residues [active] 999552000957 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 999552000958 active site 2 [active] 999552000959 active site 1 [active] 999552000960 enoyl-CoA hydratase; Provisional; Region: PRK08140 999552000961 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552000962 substrate binding site [chemical binding]; other site 999552000963 oxyanion hole (OAH) forming residues; other site 999552000964 trimer interface [polypeptide binding]; other site 999552000965 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 999552000966 CoenzymeA binding site [chemical binding]; other site 999552000967 subunit interaction site [polypeptide binding]; other site 999552000968 PHB binding site; other site 999552000969 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 999552000970 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 999552000971 active site 999552000972 AMP binding site [chemical binding]; other site 999552000973 homodimer interface [polypeptide binding]; other site 999552000974 acyl-activating enzyme (AAE) consensus motif; other site 999552000975 CoA binding site [chemical binding]; other site 999552000976 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552000977 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552000978 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552000979 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552000980 ligand binding site [chemical binding]; other site 999552000981 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 999552000982 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 999552000983 active site 999552000984 HIGH motif; other site 999552000985 dimer interface [polypeptide binding]; other site 999552000986 KMSKS motif; other site 999552000987 Rhomboid family; Region: Rhomboid; cl11446 999552000988 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 999552000989 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 999552000990 PII uridylyl-transferase; Provisional; Region: PRK05092 999552000991 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 999552000992 metal binding triad; other site 999552000993 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 999552000994 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 999552000995 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 999552000996 Zn2+ binding site [ion binding]; other site 999552000997 Mg2+ binding site [ion binding]; other site 999552000998 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 999552000999 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 999552001000 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 999552001001 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 999552001002 putative ligand binding site [chemical binding]; other site 999552001003 Predicted methyltransferases [General function prediction only]; Region: COG0313 999552001004 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 999552001005 putative SAM binding site [chemical binding]; other site 999552001006 putative homodimer interface [polypeptide binding]; other site 999552001007 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 999552001008 glutathione synthetase; Provisional; Region: PRK05246 999552001009 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 999552001010 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 999552001011 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 999552001012 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 999552001013 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 999552001014 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 999552001015 Walker A motif; other site 999552001016 ATP binding site [chemical binding]; other site 999552001017 Walker B motif; other site 999552001018 arginine finger; other site 999552001019 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 999552001020 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 999552001021 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552001022 putative C-terminal domain interface [polypeptide binding]; other site 999552001023 putative GSH binding site (G-site) [chemical binding]; other site 999552001024 putative dimer interface [polypeptide binding]; other site 999552001025 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 999552001026 putative N-terminal domain interface [polypeptide binding]; other site 999552001027 putative dimer interface [polypeptide binding]; other site 999552001028 putative substrate binding pocket (H-site) [chemical binding]; other site 999552001029 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 999552001030 catalytic core [active] 999552001031 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 999552001032 homotrimer interface [polypeptide binding]; other site 999552001033 Walker A motif; other site 999552001034 GTP binding site [chemical binding]; other site 999552001035 Walker B motif; other site 999552001036 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 999552001037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552001038 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 999552001039 DNA binding residues [nucleotide binding] 999552001040 Protein of unknown function, DUF399; Region: DUF399; cl01139 999552001041 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 999552001042 Flavoprotein; Region: Flavoprotein; pfam02441 999552001043 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 999552001044 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 999552001045 trimer interface [polypeptide binding]; other site 999552001046 active site 999552001047 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 999552001048 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 999552001049 ATP binding site [chemical binding]; other site 999552001050 substrate interface [chemical binding]; other site 999552001051 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 999552001052 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 999552001053 active site 999552001054 Zn binding site [ion binding]; other site 999552001055 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 999552001056 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 999552001057 putative ligand binding site [chemical binding]; other site 999552001058 NAD binding site [chemical binding]; other site 999552001059 dimerization interface [polypeptide binding]; other site 999552001060 catalytic site [active] 999552001061 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 999552001062 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 999552001063 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 999552001064 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 999552001065 rod shape-determining protein MreC; Provisional; Region: PRK13922 999552001066 rod shape-determining protein MreC; Region: MreC; pfam04085 999552001067 rod shape-determining protein MreB; Provisional; Region: PRK13927 999552001068 MreB and similar proteins; Region: MreB_like; cd10225 999552001069 nucleotide binding site [chemical binding]; other site 999552001070 Mg binding site [ion binding]; other site 999552001071 putative protofilament interaction site [polypeptide binding]; other site 999552001072 RodZ interaction site [polypeptide binding]; other site 999552001073 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 999552001074 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 999552001075 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552001076 cyclase homology domain; Region: CHD; cd07302 999552001077 nucleotidyl binding site; other site 999552001078 metal binding site [ion binding]; metal-binding site 999552001079 dimer interface [polypeptide binding]; other site 999552001080 Predicted integral membrane protein [Function unknown]; Region: COG5616 999552001081 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 999552001082 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552001083 TPR motif; other site 999552001084 binding surface 999552001085 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552001086 binding surface 999552001087 TPR motif; other site 999552001088 2-isopropylmalate synthase; Validated; Region: PRK00915 999552001089 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 999552001090 active site 999552001091 catalytic residues [active] 999552001092 metal binding site [ion binding]; metal-binding site 999552001093 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 999552001094 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 999552001095 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552001096 DNA-binding site [nucleotide binding]; DNA binding site 999552001097 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 999552001098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552001099 homodimer interface [polypeptide binding]; other site 999552001100 catalytic residue [active] 999552001101 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 999552001102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 999552001103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 999552001104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 999552001105 NAD synthetase; Provisional; Region: PRK13981 999552001106 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 999552001107 multimer interface [polypeptide binding]; other site 999552001108 active site 999552001109 catalytic triad [active] 999552001110 protein interface 1 [polypeptide binding]; other site 999552001111 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 999552001112 homodimer interface [polypeptide binding]; other site 999552001113 NAD binding pocket [chemical binding]; other site 999552001114 ATP binding pocket [chemical binding]; other site 999552001115 Mg binding site [ion binding]; other site 999552001116 active-site loop [active] 999552001117 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552001118 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 999552001119 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 999552001120 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 999552001121 active site 999552001122 HIGH motif; other site 999552001123 nucleotide binding site [chemical binding]; other site 999552001124 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 999552001125 active site 999552001126 KMSKS motif; other site 999552001127 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 999552001128 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 999552001129 Predicted membrane protein [Function unknown]; Region: COG4325 999552001130 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 999552001131 putative active site pocket [active] 999552001132 dimerization interface [polypeptide binding]; other site 999552001133 putative catalytic residue [active] 999552001134 Predicted transcriptional regulator [Transcription]; Region: COG1959 999552001135 Transcriptional regulator; Region: Rrf2; cl17282 999552001136 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 999552001137 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 999552001138 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 999552001139 Walker A/P-loop; other site 999552001140 ATP binding site [chemical binding]; other site 999552001141 Q-loop/lid; other site 999552001142 ABC transporter signature motif; other site 999552001143 Walker B; other site 999552001144 D-loop; other site 999552001145 H-loop/switch region; other site 999552001146 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 999552001147 active site 999552001148 catalytic triad [active] 999552001149 oxyanion hole [active] 999552001150 switch loop; other site 999552001151 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552001152 DNA-binding site [nucleotide binding]; DNA binding site 999552001153 RNA-binding motif; other site 999552001154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 999552001155 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 999552001156 thioredoxin 2; Provisional; Region: PRK10996 999552001157 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 999552001158 catalytic residues [active] 999552001159 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 999552001160 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 999552001161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552001162 Walker A/P-loop; other site 999552001163 ATP binding site [chemical binding]; other site 999552001164 Q-loop/lid; other site 999552001165 ABC transporter signature motif; other site 999552001166 Walker B; other site 999552001167 D-loop; other site 999552001168 H-loop/switch region; other site 999552001169 ABC transporter; Region: ABC_tran_2; pfam12848 999552001170 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 999552001171 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 999552001172 putative deacylase active site [active] 999552001173 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 999552001174 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552001175 Ligand Binding Site [chemical binding]; other site 999552001176 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 999552001177 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 999552001178 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 999552001179 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 999552001180 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 999552001181 active site 999552001182 nucleotide binding site [chemical binding]; other site 999552001183 HIGH motif; other site 999552001184 KMSKS motif; other site 999552001185 tellurite resistance protein terB; Region: terB; cd07176 999552001186 putative metal binding site [ion binding]; other site 999552001187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552001188 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 999552001189 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 999552001190 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 999552001191 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 999552001192 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 999552001193 active site 999552001194 (T/H)XGH motif; other site 999552001195 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552001196 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552001197 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552001198 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 999552001199 non-specific DNA binding site [nucleotide binding]; other site 999552001200 salt bridge; other site 999552001201 sequence-specific DNA binding site [nucleotide binding]; other site 999552001202 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 999552001203 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 999552001204 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 999552001205 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 999552001206 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 999552001207 Ligand binding site; other site 999552001208 Putative Catalytic site; other site 999552001209 DXD motif; other site 999552001210 GtrA-like protein; Region: GtrA; pfam04138 999552001211 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552001212 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 999552001213 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 999552001214 dimerization interface [polypeptide binding]; other site 999552001215 active site 999552001216 L-aspartate oxidase; Provisional; Region: PRK07512 999552001217 L-aspartate oxidase; Provisional; Region: PRK06175 999552001218 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 999552001219 quinolinate synthetase; Provisional; Region: PRK09375 999552001220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 999552001221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552001222 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 999552001223 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552001224 Walker A/P-loop; other site 999552001225 Walker A/P-loop; other site 999552001226 ATP binding site [chemical binding]; other site 999552001227 ATP binding site [chemical binding]; other site 999552001228 Q-loop/lid; other site 999552001229 ABC transporter signature motif; other site 999552001230 Walker B; other site 999552001231 D-loop; other site 999552001232 H-loop/switch region; other site 999552001233 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 999552001234 PBP superfamily domain; Region: PBP_like_2; pfam12849 999552001235 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 999552001236 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 999552001237 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 999552001238 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 999552001239 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 999552001240 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 999552001241 NodB motif; other site 999552001242 putative active site [active] 999552001243 putative catalytic site [active] 999552001244 putative Zn binding site [ion binding]; other site 999552001245 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 999552001246 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 999552001247 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 999552001248 catalytic core [active] 999552001249 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 999552001250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 999552001251 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 999552001252 putative ADP-binding pocket [chemical binding]; other site 999552001253 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 999552001254 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 999552001255 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 999552001256 Mechanosensitive ion channel; Region: MS_channel; pfam00924 999552001257 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552001258 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552001259 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 999552001260 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552001261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552001262 dimer interface [polypeptide binding]; other site 999552001263 conserved gate region; other site 999552001264 putative PBP binding loops; other site 999552001265 ABC-ATPase subunit interface; other site 999552001266 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552001267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552001268 dimer interface [polypeptide binding]; other site 999552001269 conserved gate region; other site 999552001270 putative PBP binding loops; other site 999552001271 ABC-ATPase subunit interface; other site 999552001272 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552001273 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 999552001274 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 999552001275 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552001276 Walker A/P-loop; other site 999552001277 ATP binding site [chemical binding]; other site 999552001278 Q-loop/lid; other site 999552001279 ABC transporter signature motif; other site 999552001280 Walker B; other site 999552001281 D-loop; other site 999552001282 H-loop/switch region; other site 999552001283 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552001284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552001285 Walker A/P-loop; other site 999552001286 ATP binding site [chemical binding]; other site 999552001287 Q-loop/lid; other site 999552001288 ABC transporter signature motif; other site 999552001289 Walker B; other site 999552001290 D-loop; other site 999552001291 H-loop/switch region; other site 999552001292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552001293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552001294 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552001295 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 999552001296 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 999552001297 dimer interface [polypeptide binding]; other site 999552001298 PYR/PP interface [polypeptide binding]; other site 999552001299 TPP binding site [chemical binding]; other site 999552001300 substrate binding site [chemical binding]; other site 999552001301 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 999552001302 TPP-binding site [chemical binding]; other site 999552001303 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 999552001304 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552001305 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 999552001306 putative DNA binding site [nucleotide binding]; other site 999552001307 putative Zn2+ binding site [ion binding]; other site 999552001308 AsnC family; Region: AsnC_trans_reg; pfam01037 999552001309 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 999552001310 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 999552001311 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552001312 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 999552001313 Walker A/P-loop; other site 999552001314 ATP binding site [chemical binding]; other site 999552001315 Q-loop/lid; other site 999552001316 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 999552001317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552001318 ABC transporter signature motif; other site 999552001319 Walker B; other site 999552001320 D-loop; other site 999552001321 H-loop/switch region; other site 999552001322 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552001323 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 999552001324 ligand binding site [chemical binding]; other site 999552001325 flexible hinge region; other site 999552001326 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 999552001327 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 999552001328 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 999552001329 putative DNA binding site [nucleotide binding]; other site 999552001330 putative Zn2+ binding site [ion binding]; other site 999552001331 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 999552001332 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 999552001333 active site pocket [active] 999552001334 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 999552001335 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 999552001336 NAD binding site [chemical binding]; other site 999552001337 catalytic Zn binding site [ion binding]; other site 999552001338 substrate binding site [chemical binding]; other site 999552001339 structural Zn binding site [ion binding]; other site 999552001340 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 999552001341 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552001342 putative substrate translocation pore; other site 999552001343 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 999552001344 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 999552001345 tetramer interface [polypeptide binding]; other site 999552001346 active site 999552001347 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552001348 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 999552001349 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 999552001350 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 999552001351 putative phosphate binding site [ion binding]; other site 999552001352 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 999552001353 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 999552001354 tetramer interface [polypeptide binding]; other site 999552001355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552001356 catalytic residue [active] 999552001357 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552001358 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 999552001359 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 999552001360 motif II; other site 999552001361 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 999552001362 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 999552001363 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 999552001364 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 999552001365 NAD binding site [chemical binding]; other site 999552001366 homotetramer interface [polypeptide binding]; other site 999552001367 homodimer interface [polypeptide binding]; other site 999552001368 substrate binding site [chemical binding]; other site 999552001369 active site 999552001370 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 999552001371 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 999552001372 dimer interface [polypeptide binding]; other site 999552001373 active site 999552001374 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 999552001375 active site 1 [active] 999552001376 dimer interface [polypeptide binding]; other site 999552001377 active site 2 [active] 999552001378 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 999552001379 metal binding site 2 [ion binding]; metal-binding site 999552001380 putative DNA binding helix; other site 999552001381 metal binding site 1 [ion binding]; metal-binding site 999552001382 dimer interface [polypeptide binding]; other site 999552001383 structural Zn2+ binding site [ion binding]; other site 999552001384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552001385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552001386 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 999552001387 dimerization interface [polypeptide binding]; other site 999552001388 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 999552001389 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 999552001390 Radical SAM superfamily; Region: Radical_SAM; pfam04055 999552001391 FeS/SAM binding site; other site 999552001392 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 999552001393 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 999552001394 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 999552001395 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 999552001396 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 999552001397 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 999552001398 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 999552001399 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 999552001400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552001401 HAMP domain; Region: HAMP; pfam00672 999552001402 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 999552001403 dimer interface [polypeptide binding]; other site 999552001404 phosphorylation site [posttranslational modification] 999552001405 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 999552001406 ATP binding site [chemical binding]; other site 999552001407 Mg2+ binding site [ion binding]; other site 999552001408 G-X-G motif; other site 999552001409 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552001410 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 999552001411 active site 999552001412 phosphorylation site [posttranslational modification] 999552001413 intermolecular recognition site; other site 999552001414 dimerization interface [polypeptide binding]; other site 999552001415 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 999552001416 DNA binding site [nucleotide binding] 999552001417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 999552001418 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 999552001419 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 999552001420 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 999552001421 EamA-like transporter family; Region: EamA; pfam00892 999552001422 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 999552001423 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 999552001424 active site 999552001425 metal binding site [ion binding]; metal-binding site 999552001426 hexamer interface [polypeptide binding]; other site 999552001427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 999552001428 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 999552001429 Protein of unknown function DUF45; Region: DUF45; pfam01863 999552001430 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552001431 cyclase homology domain; Region: CHD; cd07302 999552001432 nucleotidyl binding site; other site 999552001433 metal binding site [ion binding]; metal-binding site 999552001434 dimer interface [polypeptide binding]; other site 999552001435 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552001436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552001437 DNA-binding site [nucleotide binding]; DNA binding site 999552001438 FCD domain; Region: FCD; pfam07729 999552001439 Predicted transcriptional regulators [Transcription]; Region: COG1733 999552001440 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 999552001441 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 999552001442 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 999552001443 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552001444 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552001445 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 999552001446 putative DNA binding site [nucleotide binding]; other site 999552001447 putative Zn2+ binding site [ion binding]; other site 999552001448 AsnC family; Region: AsnC_trans_reg; pfam01037 999552001449 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 999552001450 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 999552001451 putative substrate translocation pore; other site 999552001452 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 999552001453 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 999552001454 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 999552001455 active site 999552001456 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 999552001457 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 999552001458 homodimer interface [polypeptide binding]; other site 999552001459 substrate-cofactor binding pocket; other site 999552001460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552001461 catalytic residue [active] 999552001462 replication factor-a protein 1 (rpa1); Region: rpa1; TIGR00617 999552001463 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 999552001464 N-formylglutamate amidohydrolase; Region: FGase; cl01522 999552001465 pyruvate kinase; Provisional; Region: PRK06247 999552001466 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 999552001467 domain interfaces; other site 999552001468 active site 999552001469 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 999552001470 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 999552001471 23S rRNA binding site [nucleotide binding]; other site 999552001472 L21 binding site [polypeptide binding]; other site 999552001473 L13 binding site [polypeptide binding]; other site 999552001474 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 999552001475 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552001476 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 999552001477 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 999552001478 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 999552001479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552001480 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 999552001481 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 999552001482 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 999552001483 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 999552001484 dimer interface [polypeptide binding]; other site 999552001485 motif 1; other site 999552001486 active site 999552001487 motif 2; other site 999552001488 motif 3; other site 999552001489 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 999552001490 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 999552001491 putative tRNA-binding site [nucleotide binding]; other site 999552001492 B3/4 domain; Region: B3_4; pfam03483 999552001493 tRNA synthetase B5 domain; Region: B5; smart00874 999552001494 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 999552001495 dimer interface [polypeptide binding]; other site 999552001496 motif 1; other site 999552001497 motif 3; other site 999552001498 motif 2; other site 999552001499 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 999552001500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552001501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552001502 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 999552001503 dimerization interface [polypeptide binding]; other site 999552001504 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552001505 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 999552001506 S-adenosylmethionine binding site [chemical binding]; other site 999552001507 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552001508 active site 999552001509 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 999552001510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552001511 Mechanosensitive ion channel; Region: MS_channel; pfam00924 999552001512 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 999552001513 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 999552001514 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 999552001515 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 999552001516 hexamer interface [polypeptide binding]; other site 999552001517 ligand binding site [chemical binding]; other site 999552001518 putative active site [active] 999552001519 NAD(P) binding site [chemical binding]; other site 999552001520 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552001521 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 999552001522 putative DNA binding site [nucleotide binding]; other site 999552001523 putative Zn2+ binding site [ion binding]; other site 999552001524 AsnC family; Region: AsnC_trans_reg; pfam01037 999552001525 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 999552001526 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 999552001527 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 999552001528 COQ9; Region: COQ9; pfam08511 999552001529 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 999552001530 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 999552001531 NAD(P) binding site [chemical binding]; other site 999552001532 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 999552001533 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 999552001534 B1 nucleotide binding pocket [chemical binding]; other site 999552001535 B2 nucleotide binding pocket [chemical binding]; other site 999552001536 CAS motifs; other site 999552001537 active site 999552001538 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 999552001539 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 999552001540 ATP binding site [chemical binding]; other site 999552001541 Mg2+ binding site [ion binding]; other site 999552001542 G-X-G motif; other site 999552001543 Response regulator receiver domain; Region: Response_reg; pfam00072 999552001544 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 999552001545 active site 999552001546 phosphorylation site [posttranslational modification] 999552001547 intermolecular recognition site; other site 999552001548 dimerization interface [polypeptide binding]; other site 999552001549 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552001550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552001551 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 999552001552 dimerization interface [polypeptide binding]; other site 999552001553 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 999552001554 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 999552001555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552001556 catalytic residue [active] 999552001557 recombination protein RecR; Reviewed; Region: recR; PRK00076 999552001558 RecR protein; Region: RecR; pfam02132 999552001559 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 999552001560 putative active site [active] 999552001561 putative metal-binding site [ion binding]; other site 999552001562 tetramer interface [polypeptide binding]; other site 999552001563 hypothetical protein; Validated; Region: PRK00153 999552001564 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 999552001565 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 999552001566 Walker A motif; other site 999552001567 ATP binding site [chemical binding]; other site 999552001568 Walker B motif; other site 999552001569 arginine finger; other site 999552001570 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 999552001571 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 999552001572 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 999552001573 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 999552001574 active site 999552001575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552001576 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552001577 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 999552001578 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 999552001579 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 999552001580 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 999552001581 putative NADH binding site [chemical binding]; other site 999552001582 putative active site [active] 999552001583 nudix motif; other site 999552001584 putative metal binding site [ion binding]; other site 999552001585 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 999552001586 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 999552001587 active site 999552001588 metal binding site [ion binding]; metal-binding site 999552001589 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 999552001590 prephenate dehydratase; Provisional; Region: PRK11899 999552001591 Prephenate dehydratase; Region: PDT; pfam00800 999552001592 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 999552001593 putative L-Phe binding site [chemical binding]; other site 999552001594 Cytochrome c2 [Energy production and conversion]; Region: COG3474 999552001595 Domain of unknown function (DUF333); Region: DUF333; pfam03891 999552001596 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 999552001597 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 999552001598 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 999552001599 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552001600 dimer interface [polypeptide binding]; other site 999552001601 conserved gate region; other site 999552001602 putative PBP binding loops; other site 999552001603 ABC-ATPase subunit interface; other site 999552001604 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 999552001605 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 999552001606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552001607 dimer interface [polypeptide binding]; other site 999552001608 conserved gate region; other site 999552001609 putative PBP binding loops; other site 999552001610 ABC-ATPase subunit interface; other site 999552001611 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 999552001612 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552001613 Walker A/P-loop; other site 999552001614 ATP binding site [chemical binding]; other site 999552001615 Q-loop/lid; other site 999552001616 ABC transporter signature motif; other site 999552001617 Walker B; other site 999552001618 D-loop; other site 999552001619 H-loop/switch region; other site 999552001620 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 999552001621 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552001622 Walker A/P-loop; other site 999552001623 ATP binding site [chemical binding]; other site 999552001624 Q-loop/lid; other site 999552001625 ABC transporter signature motif; other site 999552001626 Walker B; other site 999552001627 D-loop; other site 999552001628 H-loop/switch region; other site 999552001629 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552001630 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 999552001631 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 999552001632 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 999552001633 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 999552001634 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552001635 ligand binding site [chemical binding]; other site 999552001636 flexible hinge region; other site 999552001637 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 999552001638 putative switch regulator; other site 999552001639 non-specific DNA interactions [nucleotide binding]; other site 999552001640 DNA binding site [nucleotide binding] 999552001641 sequence specific DNA binding site [nucleotide binding]; other site 999552001642 putative cAMP binding site [chemical binding]; other site 999552001643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552001644 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 999552001645 dimerization interface [polypeptide binding]; other site 999552001646 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 999552001647 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 999552001648 catalytic residue [active] 999552001649 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 999552001650 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552001651 Ligand Binding Site [chemical binding]; other site 999552001652 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 999552001653 Low-spin heme binding site [chemical binding]; other site 999552001654 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 999552001655 Putative water exit pathway; other site 999552001656 Binuclear center (active site) [active] 999552001657 Putative proton exit pathway; other site 999552001658 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 999552001659 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 999552001660 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 999552001661 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 999552001662 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 999552001663 Cytochrome c; Region: Cytochrom_C; pfam00034 999552001664 Methyltransferase domain; Region: Methyltransf_31; pfam13847 999552001665 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 999552001666 S-adenosylmethionine binding site [chemical binding]; other site 999552001667 Predicted integral membrane protein (DUF2270); Region: DUF2270; pfam10028 999552001668 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552001669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552001670 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 999552001671 dimerization interface [polypeptide binding]; other site 999552001672 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 999552001673 4Fe-4S binding domain; Region: Fer4_5; pfam12801 999552001674 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 999552001675 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 999552001676 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 999552001677 FixH; Region: FixH; pfam05751 999552001678 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 999552001679 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 999552001680 metal-binding site [ion binding] 999552001681 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 999552001682 Soluble P-type ATPase [General function prediction only]; Region: COG4087 999552001683 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 999552001684 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 999552001685 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 999552001686 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 999552001687 Uncharacterized conserved protein [Function unknown]; Region: COG2127 999552001688 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 999552001689 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 999552001690 S-adenosylmethionine binding site [chemical binding]; other site 999552001691 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 999552001692 classical (c) SDRs; Region: SDR_c; cd05233 999552001693 NAD(P) binding site [chemical binding]; other site 999552001694 active site 999552001695 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 999552001696 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 999552001697 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 999552001698 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 999552001699 active site 999552001700 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 999552001701 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 999552001702 domain interfaces; other site 999552001703 active site 999552001704 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 999552001705 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 999552001706 substrate binding site [chemical binding]; other site 999552001707 active site 999552001708 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552001709 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552001710 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 999552001711 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 999552001712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552001713 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 999552001714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552001715 NADH(P)-binding; Region: NAD_binding_10; pfam13460 999552001716 NAD(P) binding site [chemical binding]; other site 999552001717 active site 999552001718 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 999552001719 putative hydrophobic ligand binding site [chemical binding]; other site 999552001720 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 999552001721 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 999552001722 Walker A/P-loop; other site 999552001723 ATP binding site [chemical binding]; other site 999552001724 Q-loop/lid; other site 999552001725 ABC transporter signature motif; other site 999552001726 Walker B; other site 999552001727 D-loop; other site 999552001728 H-loop/switch region; other site 999552001729 ABC-2 type transporter; Region: ABC2_membrane; cl17235 999552001730 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 999552001731 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 999552001732 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 999552001733 tandem repeat interface [polypeptide binding]; other site 999552001734 oligomer interface [polypeptide binding]; other site 999552001735 active site residues [active] 999552001736 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 999552001737 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 999552001738 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 999552001739 short chain dehydrogenase; Provisional; Region: PRK09134 999552001740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552001741 NAD(P) binding site [chemical binding]; other site 999552001742 active site 999552001743 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 999552001744 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 999552001745 GIY-YIG motif/motif A; other site 999552001746 active site 999552001747 catalytic site [active] 999552001748 putative DNA binding site [nucleotide binding]; other site 999552001749 metal binding site [ion binding]; metal-binding site 999552001750 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 999552001751 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 999552001752 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 999552001753 MoaE interaction surface [polypeptide binding]; other site 999552001754 MoeB interaction surface [polypeptide binding]; other site 999552001755 thiocarboxylated glycine; other site 999552001756 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 999552001757 MoaE homodimer interface [polypeptide binding]; other site 999552001758 MoaD interaction [polypeptide binding]; other site 999552001759 active site residues [active] 999552001760 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 999552001761 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552001762 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552001763 ligand binding site [chemical binding]; other site 999552001764 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 999552001765 UbiA prenyltransferase family; Region: UbiA; pfam01040 999552001766 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 999552001767 RNA methyltransferase, RsmE family; Region: TIGR00046 999552001768 glutamate--cysteine ligase; Region: PLN02611 999552001769 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 999552001770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 999552001771 metal binding site [ion binding]; metal-binding site 999552001772 active site 999552001773 I-site; other site 999552001774 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 999552001775 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 999552001776 dihydroorotase; Validated; Region: PRK09059 999552001777 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 999552001778 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 999552001779 active site 999552001780 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 999552001781 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 999552001782 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 999552001783 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 999552001784 Fe-S cluster binding site [ion binding]; other site 999552001785 active site 999552001786 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 999552001787 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 999552001788 active site 999552001789 metal binding site [ion binding]; metal-binding site 999552001790 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552001791 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 999552001792 MPT binding site; other site 999552001793 trimer interface [polypeptide binding]; other site 999552001794 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 999552001795 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552001796 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552001797 Protein export membrane protein; Region: SecD_SecF; cl14618 999552001798 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 999552001799 nudix motif; other site 999552001800 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 999552001801 hypothetical protein; Validated; Region: PRK00228 999552001802 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 999552001803 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 999552001804 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552001805 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552001806 active site 999552001807 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 999552001808 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 999552001809 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 999552001810 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 999552001811 AzlC protein; Region: AzlC; pfam03591 999552001812 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 999552001813 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 999552001814 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 999552001815 GTP binding site; other site 999552001816 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 999552001817 Walker A motif; other site 999552001818 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 999552001819 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 999552001820 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 999552001821 dimer interface [polypeptide binding]; other site 999552001822 putative functional site; other site 999552001823 putative MPT binding site; other site 999552001824 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 999552001825 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 999552001826 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 999552001827 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552001828 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 999552001829 active site 999552001830 metal binding site [ion binding]; metal-binding site 999552001831 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 999552001832 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 999552001833 DNA binding residues [nucleotide binding] 999552001834 dimer interface [polypeptide binding]; other site 999552001835 [2Fe-2S] cluster binding site [ion binding]; other site 999552001836 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 999552001837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552001838 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 999552001839 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 999552001840 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552001841 TPR motif; other site 999552001842 binding surface 999552001843 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552001844 binding surface 999552001845 TPR motif; other site 999552001846 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552001847 binding surface 999552001848 TPR motif; other site 999552001849 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 999552001850 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 999552001851 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 999552001852 substrate binding pocket [chemical binding]; other site 999552001853 chain length determination region; other site 999552001854 substrate-Mg2+ binding site; other site 999552001855 catalytic residues [active] 999552001856 aspartate-rich region 1; other site 999552001857 active site lid residues [active] 999552001858 aspartate-rich region 2; other site 999552001859 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 999552001860 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 999552001861 Methyltransferase domain; Region: Methyltransf_26; pfam13659 999552001862 Protein of unknown function (DUF465); Region: DUF465; cl01070 999552001863 aromatic amino acid exporter; Provisional; Region: PRK11689 999552001864 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552001865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552001866 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 999552001867 dimerization interface [polypeptide binding]; other site 999552001868 substrate binding pocket [chemical binding]; other site 999552001869 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 999552001870 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 999552001871 NAD(P) binding site [chemical binding]; other site 999552001872 homotetramer interface [polypeptide binding]; other site 999552001873 homodimer interface [polypeptide binding]; other site 999552001874 active site 999552001875 putative acyltransferase; Provisional; Region: PRK05790 999552001876 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 999552001877 dimer interface [polypeptide binding]; other site 999552001878 active site 999552001879 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 999552001880 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 999552001881 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 999552001882 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 999552001883 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 999552001884 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 999552001885 catalytic residues [active] 999552001886 argininosuccinate lyase; Provisional; Region: PRK00855 999552001887 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 999552001888 active sites [active] 999552001889 tetramer interface [polypeptide binding]; other site 999552001890 diaminopimelate decarboxylase; Region: lysA; TIGR01048 999552001891 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 999552001892 active site 999552001893 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 999552001894 substrate binding site [chemical binding]; other site 999552001895 catalytic residues [active] 999552001896 dimer interface [polypeptide binding]; other site 999552001897 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 999552001898 Cytochrome b562; Region: Cytochrom_B562; cl01546 999552001899 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 999552001900 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 999552001901 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 999552001902 Walker A/P-loop; other site 999552001903 ATP binding site [chemical binding]; other site 999552001904 Q-loop/lid; other site 999552001905 ABC transporter signature motif; other site 999552001906 Walker B; other site 999552001907 D-loop; other site 999552001908 H-loop/switch region; other site 999552001909 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 999552001910 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 999552001911 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 999552001912 putative acyl-acceptor binding pocket; other site 999552001913 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 999552001914 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 999552001915 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552001916 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552001917 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 999552001918 E3 interaction surface; other site 999552001919 lipoyl attachment site [posttranslational modification]; other site 999552001920 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 999552001921 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 999552001922 E3 interaction surface; other site 999552001923 lipoyl attachment site [posttranslational modification]; other site 999552001924 e3 binding domain; Region: E3_binding; pfam02817 999552001925 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 999552001926 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 999552001927 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 999552001928 TPP-binding site [chemical binding]; other site 999552001929 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 999552001930 Protein of unknown function (DUF805); Region: DUF805; cl01224 999552001931 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 999552001932 CoA binding domain; Region: CoA_binding; pfam02629 999552001933 CoA-ligase; Region: Ligase_CoA; pfam00549 999552001934 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 999552001935 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 999552001936 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 999552001937 CoA-ligase; Region: Ligase_CoA; pfam00549 999552001938 malate dehydrogenase; Reviewed; Region: PRK06223 999552001939 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 999552001940 NAD(P) binding site [chemical binding]; other site 999552001941 dimer interface [polypeptide binding]; other site 999552001942 tetramer (dimer of dimers) interface [polypeptide binding]; other site 999552001943 substrate binding site [chemical binding]; other site 999552001944 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552001945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552001946 Coenzyme A binding pocket [chemical binding]; other site 999552001947 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 999552001948 NnrU protein; Region: NnrU; pfam07298 999552001949 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 999552001950 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 999552001951 putative active site [active] 999552001952 putative catalytic site [active] 999552001953 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 999552001954 active site 2 [active] 999552001955 active site 1 [active] 999552001956 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 999552001957 metal ion-dependent adhesion site (MIDAS); other site 999552001958 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 999552001959 Iron-sulfur protein interface; other site 999552001960 proximal quinone binding site [chemical binding]; other site 999552001961 SdhD (CybS) interface [polypeptide binding]; other site 999552001962 proximal heme binding site [chemical binding]; other site 999552001963 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 999552001964 putative SdhC subunit interface [polypeptide binding]; other site 999552001965 putative proximal heme binding site [chemical binding]; other site 999552001966 putative Iron-sulfur protein interface [polypeptide binding]; other site 999552001967 putative proximal quinone binding site; other site 999552001968 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 999552001969 L-aspartate oxidase; Provisional; Region: PRK06175 999552001970 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 999552001971 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 999552001972 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 999552001973 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 999552001974 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 999552001975 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 999552001976 dimer interface [polypeptide binding]; other site 999552001977 active site 999552001978 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 999552001979 catalytic residues [active] 999552001980 substrate binding site [chemical binding]; other site 999552001981 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 999552001982 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 999552001983 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 999552001984 H-NS histone family; Region: Histone_HNS; pfam00816 999552001985 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 999552001986 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 999552001987 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 999552001988 B12 binding site [chemical binding]; other site 999552001989 cobalt ligand [ion binding]; other site 999552001990 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 999552001991 putative acyl-acceptor binding pocket; other site 999552001992 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 999552001993 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 999552001994 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 999552001995 putative NAD(P) binding site [chemical binding]; other site 999552001996 Autoinducer binding domain; Region: Autoind_bind; pfam03472 999552001997 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 999552001998 DNA binding residues [nucleotide binding] 999552001999 dimerization interface [polypeptide binding]; other site 999552002000 Autoinducer synthetase; Region: Autoind_synth; cl17404 999552002001 AAA domain; Region: AAA_30; pfam13604 999552002002 Family description; Region: UvrD_C_2; pfam13538 999552002003 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 999552002004 classical (c) SDRs; Region: SDR_c; cd05233 999552002005 NAD(P) binding site [chemical binding]; other site 999552002006 active site 999552002007 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 999552002008 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552002009 hypothetical protein; Provisional; Region: PRK10621 999552002010 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552002011 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 999552002012 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 999552002013 TM-ABC transporter signature motif; other site 999552002014 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 999552002015 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 999552002016 TM-ABC transporter signature motif; other site 999552002017 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 999552002018 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 999552002019 Walker A/P-loop; other site 999552002020 ATP binding site [chemical binding]; other site 999552002021 Q-loop/lid; other site 999552002022 ABC transporter signature motif; other site 999552002023 Walker B; other site 999552002024 D-loop; other site 999552002025 H-loop/switch region; other site 999552002026 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 999552002027 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 999552002028 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 999552002029 ligand binding site [chemical binding]; other site 999552002030 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 999552002031 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552002032 Coenzyme A binding pocket [chemical binding]; other site 999552002033 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 999552002034 Glycoprotease family; Region: Peptidase_M22; pfam00814 999552002035 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 999552002036 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 999552002037 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 999552002038 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 999552002039 putative catalytic residue [active] 999552002040 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552002041 Ligand Binding Site [chemical binding]; other site 999552002042 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 999552002043 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 999552002044 homodimer interface [polypeptide binding]; other site 999552002045 substrate-cofactor binding pocket; other site 999552002046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002047 catalytic residue [active] 999552002048 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 999552002049 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552002050 catalytic loop [active] 999552002051 iron binding site [ion binding]; other site 999552002052 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 999552002053 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 999552002054 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 999552002055 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 999552002056 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 999552002057 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 999552002058 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 999552002059 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 999552002060 dimer interface [polypeptide binding]; other site 999552002061 active site 999552002062 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 999552002063 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 999552002064 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 999552002065 Sulfatase; Region: Sulfatase; cl17466 999552002066 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552002067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552002068 DNA-binding site [nucleotide binding]; DNA binding site 999552002069 FCD domain; Region: FCD; pfam07729 999552002070 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 999552002071 catalytic triad [active] 999552002072 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 999552002073 Cytochrome P450; Region: p450; cl12078 999552002074 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 999552002075 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552002076 hypothetical protein; Provisional; Region: PRK07481 999552002077 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 999552002078 inhibitor-cofactor binding pocket; inhibition site 999552002079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002080 catalytic residue [active] 999552002081 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 999552002082 Transcriptional regulator [Transcription]; Region: IclR; COG1414 999552002083 Bacterial transcriptional regulator; Region: IclR; pfam01614 999552002084 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 999552002085 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 999552002086 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 999552002087 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 999552002088 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552002089 NAD(P) binding site [chemical binding]; other site 999552002090 catalytic residues [active] 999552002091 hypothetical protein; Provisional; Region: PRK02399 999552002092 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 999552002093 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552002094 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 999552002095 substrate binding site [chemical binding]; other site 999552002096 oxyanion hole (OAH) forming residues; other site 999552002097 trimer interface [polypeptide binding]; other site 999552002098 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 999552002099 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552002100 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552002101 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 999552002102 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 999552002103 substrate binding site [chemical binding]; other site 999552002104 hexamer interface [polypeptide binding]; other site 999552002105 metal binding site [ion binding]; metal-binding site 999552002106 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 999552002107 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 999552002108 Walker A/P-loop; other site 999552002109 ATP binding site [chemical binding]; other site 999552002110 Q-loop/lid; other site 999552002111 ABC transporter signature motif; other site 999552002112 Walker B; other site 999552002113 D-loop; other site 999552002114 H-loop/switch region; other site 999552002115 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 999552002116 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552002117 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 999552002118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552002119 dimer interface [polypeptide binding]; other site 999552002120 conserved gate region; other site 999552002121 putative PBP binding loops; other site 999552002122 ABC-ATPase subunit interface; other site 999552002123 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 999552002124 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552002125 ABC-ATPase subunit interface; other site 999552002126 Domain of unknown function DUF59; Region: DUF59; pfam01883 999552002127 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 999552002128 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 999552002129 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 999552002130 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 999552002131 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 999552002132 Transcriptional regulators [Transcription]; Region: PurR; COG1609 999552002133 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 999552002134 DNA binding site [nucleotide binding] 999552002135 domain linker motif; other site 999552002136 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 999552002137 putative dimerization interface [polypeptide binding]; other site 999552002138 putative ligand binding site [chemical binding]; other site 999552002139 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 999552002140 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 999552002141 putative active site [active] 999552002142 metal binding site [ion binding]; metal-binding site 999552002143 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 999552002144 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 999552002145 NAD(P) binding site [chemical binding]; other site 999552002146 catalytic residues [active] 999552002147 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 999552002148 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552002149 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 999552002150 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552002151 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552002152 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552002153 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 999552002154 N-formylglutamate amidohydrolase; Region: FGase; cl01522 999552002155 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 999552002156 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 999552002157 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 999552002158 putative active site [active] 999552002159 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 999552002160 homotrimer interaction site [polypeptide binding]; other site 999552002161 putative active site [active] 999552002162 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 999552002163 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 999552002164 inhibitor-cofactor binding pocket; inhibition site 999552002165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002166 catalytic residue [active] 999552002167 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 999552002168 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cd00308 999552002169 metal binding site [ion binding]; metal-binding site 999552002170 substrate binding pocket [chemical binding]; other site 999552002171 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 999552002172 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 999552002173 metal binding site [ion binding]; metal-binding site 999552002174 Enolase C-terminal domain-like; Region: MR_MLE_C; pfam13378 999552002175 substrate binding pocket [chemical binding]; other site 999552002176 Cupin domain; Region: Cupin_2; cl17218 999552002177 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 999552002178 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 999552002179 putative NAD(P) binding site [chemical binding]; other site 999552002180 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552002181 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552002182 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552002183 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552002184 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 999552002185 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 999552002186 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 999552002187 putative active site [active] 999552002188 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 999552002189 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 999552002190 [2Fe-2S] cluster binding site [ion binding]; other site 999552002191 Ring hydroxylating alpha subunit (catalytic domain); Region: Ring_hydroxyl_A; pfam00848 999552002192 hydrophobic ligand binding site; other site 999552002193 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552002194 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 999552002195 NAD(P) binding site [chemical binding]; other site 999552002196 catalytic residues [active] 999552002197 catalytic residues [active] 999552002198 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 999552002199 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 999552002200 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 999552002201 Walker A motif; other site 999552002202 ATP binding site [chemical binding]; other site 999552002203 Walker B motif; other site 999552002204 arginine finger; other site 999552002205 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 999552002206 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 999552002207 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552002208 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552002209 ABC-ATPase subunit interface; other site 999552002210 putative PBP binding loops; other site 999552002211 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552002212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552002213 dimer interface [polypeptide binding]; other site 999552002214 conserved gate region; other site 999552002215 ABC-ATPase subunit interface; other site 999552002216 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552002217 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 999552002218 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552002219 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 999552002220 NAD(P) binding site [chemical binding]; other site 999552002221 catalytic residues [active] 999552002222 catalytic residues [active] 999552002223 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 999552002224 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 999552002225 active site pocket [active] 999552002226 choline dehydrogenase; Validated; Region: PRK02106 999552002227 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552002228 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 999552002229 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552002230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552002231 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 999552002232 dimerization interface [polypeptide binding]; other site 999552002233 substrate binding pocket [chemical binding]; other site 999552002234 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 999552002235 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552002236 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552002237 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552002238 Cache domain; Region: Cache_2; pfam08269 999552002239 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 999552002240 dimerization interface [polypeptide binding]; other site 999552002241 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 999552002242 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552002243 dimer interface [polypeptide binding]; other site 999552002244 putative CheW interface [polypeptide binding]; other site 999552002245 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 999552002246 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 999552002247 Bacterial SH3 domain; Region: SH3_4; pfam06347 999552002248 Bacterial SH3 domain; Region: SH3_4; pfam06347 999552002249 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 999552002250 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 999552002251 dimerization interface [polypeptide binding]; other site 999552002252 ligand binding site [chemical binding]; other site 999552002253 NADP binding site [chemical binding]; other site 999552002254 catalytic site [active] 999552002255 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 999552002256 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 999552002257 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 999552002258 FAD binding domain; Region: FAD_binding_4; pfam01565 999552002259 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552002260 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552002261 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552002262 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552002263 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552002264 PAS domain; Region: PAS_9; pfam13426 999552002265 putative active site [active] 999552002266 heme pocket [chemical binding]; other site 999552002267 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 999552002268 HWE histidine kinase; Region: HWE_HK; cl06527 999552002269 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 999552002270 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 999552002271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552002272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552002273 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552002274 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552002275 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 999552002276 S-adenosylmethionine binding site [chemical binding]; other site 999552002277 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552002278 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552002279 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 999552002280 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 999552002281 active site 999552002282 catalytic tetrad [active] 999552002283 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 999552002284 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 999552002285 putative ligand binding site [chemical binding]; other site 999552002286 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 999552002287 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 999552002288 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 999552002289 TM-ABC transporter signature motif; other site 999552002290 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 999552002291 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 999552002292 TM-ABC transporter signature motif; other site 999552002293 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 999552002294 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 999552002295 Walker A/P-loop; other site 999552002296 ATP binding site [chemical binding]; other site 999552002297 Q-loop/lid; other site 999552002298 ABC transporter signature motif; other site 999552002299 Walker B; other site 999552002300 D-loop; other site 999552002301 H-loop/switch region; other site 999552002302 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 999552002303 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 999552002304 XdhC Rossmann domain; Region: XdhC_C; pfam13478 999552002305 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 999552002306 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 999552002307 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552002308 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 999552002309 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552002310 catalytic loop [active] 999552002311 iron binding site [ion binding]; other site 999552002312 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 999552002313 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 999552002314 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 999552002315 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 999552002316 putative active site [active] 999552002317 putative PHP Thumb interface [polypeptide binding]; other site 999552002318 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 999552002319 generic binding surface II; other site 999552002320 generic binding surface I; other site 999552002321 SnoaL-like domain; Region: SnoaL_2; pfam12680 999552002322 SlyX; Region: SlyX; pfam04102 999552002323 histidyl-tRNA synthetase; Region: hisS; TIGR00442 999552002324 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 999552002325 dimer interface [polypeptide binding]; other site 999552002326 motif 1; other site 999552002327 motif 2; other site 999552002328 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 999552002329 active site 999552002330 motif 3; other site 999552002331 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 999552002332 anticodon binding site; other site 999552002333 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 999552002334 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 999552002335 motif 1; other site 999552002336 dimer interface [polypeptide binding]; other site 999552002337 active site 999552002338 motif 2; other site 999552002339 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 999552002340 motif 3; other site 999552002341 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 999552002342 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 999552002343 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 999552002344 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 999552002345 potential catalytic triad [active] 999552002346 conserved cys residue [active] 999552002347 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 999552002348 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 999552002349 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 999552002350 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 999552002351 active site 999552002352 dimer interface [polypeptide binding]; other site 999552002353 effector binding site; other site 999552002354 TSCPD domain; Region: TSCPD; pfam12637 999552002355 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 999552002356 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552002357 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552002358 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552002359 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 999552002360 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 999552002361 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552002362 DNA-binding site [nucleotide binding]; DNA binding site 999552002363 RNA-binding motif; other site 999552002364 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 999552002365 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 999552002366 ATP binding site [chemical binding]; other site 999552002367 Mg++ binding site [ion binding]; other site 999552002368 motif III; other site 999552002369 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 999552002370 nucleotide binding region [chemical binding]; other site 999552002371 ATP-binding site [chemical binding]; other site 999552002372 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 999552002373 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 999552002374 active site 999552002375 homodimer interface [polypeptide binding]; other site 999552002376 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 999552002377 D-mannose binding lectin; Region: B_lectin; pfam01453 999552002378 mannose binding site [chemical binding]; other site 999552002379 dimerization interface [polypeptide binding]; other site 999552002380 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552002381 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552002382 aminotransferase; Provisional; Region: PRK06105 999552002383 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 999552002384 active site 999552002385 SAM binding site [chemical binding]; other site 999552002386 homodimer interface [polypeptide binding]; other site 999552002387 Probable cobalt transporter subunit (CbtA); Region: CbtA; pfam09490 999552002388 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 999552002389 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 999552002390 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 999552002391 active site 999552002392 SAM binding site [chemical binding]; other site 999552002393 homodimer interface [polypeptide binding]; other site 999552002394 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 999552002395 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 999552002396 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 999552002397 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 999552002398 active site 999552002399 SAM binding site [chemical binding]; other site 999552002400 homodimer interface [polypeptide binding]; other site 999552002401 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 999552002402 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 999552002403 putative homodimer interface [polypeptide binding]; other site 999552002404 active site 999552002405 SAM binding site [chemical binding]; other site 999552002406 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 999552002407 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 999552002408 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 999552002409 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 999552002410 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 999552002411 active site 999552002412 SAM binding site [chemical binding]; other site 999552002413 homodimer interface [polypeptide binding]; other site 999552002414 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 999552002415 active site 999552002416 SAM binding site [chemical binding]; other site 999552002417 homodimer interface [polypeptide binding]; other site 999552002418 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 999552002419 Precorrin-8X methylmutase; Region: CbiC; pfam02570 999552002420 precorrin-3B synthase; Region: CobG; TIGR02435 999552002421 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 999552002422 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 999552002423 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 999552002424 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 999552002425 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 999552002426 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 999552002427 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 999552002428 dimer interface [polypeptide binding]; other site 999552002429 [2Fe-2S] cluster binding site [ion binding]; other site 999552002430 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 999552002431 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 999552002432 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 999552002433 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 999552002434 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 999552002435 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 999552002436 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 999552002437 Imelysin; Region: Peptidase_M75; pfam09375 999552002438 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 999552002439 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 999552002440 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 999552002441 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 999552002442 heme binding site [chemical binding]; other site 999552002443 ferroxidase pore; other site 999552002444 ferroxidase diiron center [ion binding]; other site 999552002445 Imelysin; Region: Peptidase_M75; cl09159 999552002446 Hemin uptake protein hemP; Region: hemP; pfam10636 999552002447 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 999552002448 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 999552002449 active site 999552002450 HIGH motif; other site 999552002451 KMSKS motif; other site 999552002452 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 999552002453 tRNA binding surface [nucleotide binding]; other site 999552002454 anticodon binding site; other site 999552002455 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 999552002456 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552002457 putative substrate translocation pore; other site 999552002458 YceI-like domain; Region: YceI; pfam04264 999552002459 Uncharacterized conserved protein [Function unknown]; Region: COG4544 999552002460 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 999552002461 active site 999552002462 catalytic residue [active] 999552002463 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 999552002464 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 999552002465 active site 999552002466 catalytic tetrad [active] 999552002467 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 999552002468 dimer interface [polypeptide binding]; other site 999552002469 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552002470 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 999552002471 sequence-specific DNA binding site [nucleotide binding]; other site 999552002472 salt bridge; other site 999552002473 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 999552002474 dimerization interface [polypeptide binding]; other site 999552002475 putative DNA binding site [nucleotide binding]; other site 999552002476 putative Zn2+ binding site [ion binding]; other site 999552002477 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 999552002478 hydrophobic ligand binding site; other site 999552002479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552002480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552002481 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 999552002482 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 999552002483 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 999552002484 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 999552002485 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 999552002486 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 999552002487 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 999552002488 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 999552002489 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 999552002490 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 999552002491 phosphate binding site [ion binding]; other site 999552002492 dimer interface [polypeptide binding]; other site 999552002493 substrate binding site [chemical binding]; other site 999552002494 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 999552002495 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 999552002496 FeS/SAM binding site; other site 999552002497 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 999552002498 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 999552002499 FeS/SAM binding site; other site 999552002500 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 999552002501 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 999552002502 ligand binding site [chemical binding]; other site 999552002503 homodimer interface [polypeptide binding]; other site 999552002504 NAD(P) binding site [chemical binding]; other site 999552002505 trimer interface B [polypeptide binding]; other site 999552002506 trimer interface A [polypeptide binding]; other site 999552002507 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 999552002508 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 999552002509 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 999552002510 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 999552002511 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 999552002512 inhibitor-cofactor binding pocket; inhibition site 999552002513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002514 catalytic residue [active] 999552002515 allantoate amidohydrolase; Reviewed; Region: PRK12893 999552002516 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 999552002517 active site 999552002518 metal binding site [ion binding]; metal-binding site 999552002519 dimer interface [polypeptide binding]; other site 999552002520 phenylhydantoinase; Validated; Region: PRK08323 999552002521 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 999552002522 tetramer interface [polypeptide binding]; other site 999552002523 active site 999552002524 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 999552002525 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 999552002526 Na binding site [ion binding]; other site 999552002527 putative substrate binding site [chemical binding]; other site 999552002528 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 999552002529 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 999552002530 non-specific DNA binding site [nucleotide binding]; other site 999552002531 salt bridge; other site 999552002532 sequence-specific DNA binding site [nucleotide binding]; other site 999552002533 Cupin domain; Region: Cupin_2; pfam07883 999552002534 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 999552002535 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 999552002536 putative active site [active] 999552002537 putative FMN binding site [chemical binding]; other site 999552002538 putative substrate binding site [chemical binding]; other site 999552002539 putative catalytic residue [active] 999552002540 tyrosine/nicotianamine aminotransferase; Provisional; Region: PLN00145 999552002541 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 999552002542 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552002543 active site 999552002544 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 999552002545 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 999552002546 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552002547 substrate binding site [chemical binding]; other site 999552002548 oxyanion hole (OAH) forming residues; other site 999552002549 trimer interface [polypeptide binding]; other site 999552002550 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 999552002551 dimerization interface [polypeptide binding]; other site 999552002552 putative DNA binding site [nucleotide binding]; other site 999552002553 putative Zn2+ binding site [ion binding]; other site 999552002554 Predicted permease; Region: DUF318; cl17795 999552002555 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 999552002556 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 999552002557 intersubunit interface [polypeptide binding]; other site 999552002558 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 999552002559 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 999552002560 ABC-ATPase subunit interface; other site 999552002561 dimer interface [polypeptide binding]; other site 999552002562 putative PBP binding regions; other site 999552002563 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 999552002564 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 999552002565 Walker A/P-loop; other site 999552002566 ATP binding site [chemical binding]; other site 999552002567 Q-loop/lid; other site 999552002568 ABC transporter signature motif; other site 999552002569 Walker B; other site 999552002570 D-loop; other site 999552002571 H-loop/switch region; other site 999552002572 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 999552002573 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552002574 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 999552002575 acyl-activating enzyme (AAE) consensus motif; other site 999552002576 acyl-activating enzyme (AAE) consensus motif; other site 999552002577 putative AMP binding site [chemical binding]; other site 999552002578 putative active site [active] 999552002579 putative CoA binding site [chemical binding]; other site 999552002580 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 999552002581 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 999552002582 putative catalytic cysteine [active] 999552002583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 999552002584 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 999552002585 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 999552002586 Transcriptional regulators [Transcription]; Region: PurR; COG1609 999552002587 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 999552002588 DNA binding site [nucleotide binding] 999552002589 domain linker motif; other site 999552002590 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 999552002591 putative dimerization interface [polypeptide binding]; other site 999552002592 putative ligand binding site [chemical binding]; other site 999552002593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552002594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552002595 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552002596 dimerization interface [polypeptide binding]; other site 999552002597 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 999552002598 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552002599 NAD(P) binding site [chemical binding]; other site 999552002600 catalytic residues [active] 999552002601 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 999552002602 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 999552002603 active site 999552002604 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 999552002605 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 999552002606 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 999552002607 BCCT family transporter; Region: BCCT; pfam02028 999552002608 BCCT family transporter; Region: BCCT; pfam02028 999552002609 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 999552002610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552002611 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 999552002612 dimerization interface [polypeptide binding]; other site 999552002613 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552002614 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552002615 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552002616 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552002617 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 999552002618 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 999552002619 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 999552002620 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 999552002621 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 999552002622 Subunit I/III interface [polypeptide binding]; other site 999552002623 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 999552002624 Subunit I/III interface [polypeptide binding]; other site 999552002625 Predicted small integral membrane protein [Function unknown]; Region: COG5605 999552002626 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 999552002627 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 999552002628 dimer interface [polypeptide binding]; other site 999552002629 active site 999552002630 heme binding site [chemical binding]; other site 999552002631 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 999552002632 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 999552002633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552002634 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 999552002635 dimerization interface [polypeptide binding]; other site 999552002636 Hint domain; Region: Hint_2; pfam13403 999552002637 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 999552002638 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 999552002639 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 999552002640 RNA binding surface [nucleotide binding]; other site 999552002641 PA14 domain; Region: PA14; cl08459 999552002642 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552002643 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 999552002644 putative DNA binding site [nucleotide binding]; other site 999552002645 putative Zn2+ binding site [ion binding]; other site 999552002646 AsnC family; Region: AsnC_trans_reg; pfam01037 999552002647 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 999552002648 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 999552002649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552002650 catalytic residue [active] 999552002651 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 999552002652 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 999552002653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002654 homodimer interface [polypeptide binding]; other site 999552002655 catalytic residue [active] 999552002656 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 999552002657 prephenate dehydrogenase; Validated; Region: PRK08507 999552002658 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 999552002659 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 999552002660 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 999552002661 putative active site pocket [active] 999552002662 dimerization interface [polypeptide binding]; other site 999552002663 putative catalytic residue [active] 999552002664 hypothetical protein; Validated; Region: PRK09039 999552002665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552002666 ligand binding site [chemical binding]; other site 999552002667 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 999552002668 Peptidase family M23; Region: Peptidase_M23; pfam01551 999552002669 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 999552002670 Clp amino terminal domain; Region: Clp_N; pfam02861 999552002671 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 999552002672 Walker A motif; other site 999552002673 ATP binding site [chemical binding]; other site 999552002674 Walker B motif; other site 999552002675 arginine finger; other site 999552002676 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 999552002677 Walker A motif; other site 999552002678 ATP binding site [chemical binding]; other site 999552002679 Walker B motif; other site 999552002680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 999552002681 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 999552002682 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552002683 Methyltransferase domain; Region: Methyltransf_11; pfam08241 999552002684 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 999552002685 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 999552002686 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 999552002687 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 999552002688 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 999552002689 beta subunit interaction interface [polypeptide binding]; other site 999552002690 Walker A motif; other site 999552002691 ATP binding site [chemical binding]; other site 999552002692 Walker B motif; other site 999552002693 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 999552002694 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 999552002695 core domain interface [polypeptide binding]; other site 999552002696 delta subunit interface [polypeptide binding]; other site 999552002697 epsilon subunit interface [polypeptide binding]; other site 999552002698 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 999552002699 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 999552002700 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 999552002701 alpha subunit interaction interface [polypeptide binding]; other site 999552002702 Walker A motif; other site 999552002703 ATP binding site [chemical binding]; other site 999552002704 Walker B motif; other site 999552002705 inhibitor binding site; inhibition site 999552002706 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 999552002707 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 999552002708 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 999552002709 gamma subunit interface [polypeptide binding]; other site 999552002710 epsilon subunit interface [polypeptide binding]; other site 999552002711 LBP interface [polypeptide binding]; other site 999552002712 YodA lipocalin-like domain; Region: YodA; pfam09223 999552002713 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 999552002714 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 999552002715 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 999552002716 Methyltransferase domain; Region: Methyltransf_31; pfam13847 999552002717 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 999552002718 S-adenosylmethionine binding site [chemical binding]; other site 999552002719 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 999552002720 PAS domain; Region: PAS_9; pfam13426 999552002721 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 999552002722 H-type lectin domain; Region: H_lectin; pfam09458 999552002723 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 999552002724 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 999552002725 DNA binding residues [nucleotide binding] 999552002726 putative dimer interface [polypeptide binding]; other site 999552002727 putative metal binding residues [ion binding]; other site 999552002728 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 999552002729 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 999552002730 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 999552002731 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552002732 active site 999552002733 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 999552002734 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 999552002735 putative catalytic residue [active] 999552002736 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552002737 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 999552002738 catalytic site [active] 999552002739 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 999552002740 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 999552002741 putative catalytic residue [active] 999552002742 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 999552002743 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 999552002744 tetramer interface [polypeptide binding]; other site 999552002745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002746 catalytic residue [active] 999552002747 hypothetical protein; Provisional; Region: PRK05170 999552002748 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 999552002749 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 999552002750 active site 999552002751 Riboflavin kinase; Region: Flavokinase; pfam01687 999552002752 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 999552002753 dimer interaction site [polypeptide binding]; other site 999552002754 substrate-binding tunnel; other site 999552002755 active site 999552002756 catalytic site [active] 999552002757 substrate binding site [chemical binding]; other site 999552002758 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 999552002759 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 999552002760 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 999552002761 active site 999552002762 nucleophile elbow; other site 999552002763 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 999552002764 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 999552002765 DHHA2 domain; Region: DHHA2; pfam02833 999552002766 TraB family; Region: TraB; pfam01963 999552002767 TraB family; Region: TraB; pfam01963 999552002768 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 999552002769 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 999552002770 oligomerisation interface [polypeptide binding]; other site 999552002771 mobile loop; other site 999552002772 roof hairpin; other site 999552002773 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 999552002774 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 999552002775 ring oligomerisation interface [polypeptide binding]; other site 999552002776 ATP/Mg binding site [chemical binding]; other site 999552002777 stacking interactions; other site 999552002778 hinge regions; other site 999552002779 Predicted acetyltransferase [General function prediction only]; Region: COG3153 999552002780 Coenzyme A binding pocket [chemical binding]; other site 999552002781 EamA-like transporter family; Region: EamA; pfam00892 999552002782 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 999552002783 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 999552002784 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 999552002785 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 999552002786 active site 999552002787 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 999552002788 ATP-grasp domain; Region: ATP-grasp; pfam02222 999552002789 AIR carboxylase; Region: AIRC; pfam00731 999552002790 uracil-xanthine permease; Region: ncs2; TIGR00801 999552002791 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 999552002792 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 999552002793 putative active site [active] 999552002794 putative FMN binding site [chemical binding]; other site 999552002795 putative substrate binding site [chemical binding]; other site 999552002796 putative catalytic residue [active] 999552002797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552002798 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 999552002799 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 999552002800 putative dimer interface [polypeptide binding]; other site 999552002801 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 999552002802 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 999552002803 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 999552002804 S-adenosylmethionine binding site [chemical binding]; other site 999552002805 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 999552002806 Transcriptional regulators [Transcription]; Region: MarR; COG1846 999552002807 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 999552002808 ATP-sulfurylase; Region: ATPS; cd00517 999552002809 active site 999552002810 HXXH motif; other site 999552002811 flexible loop; other site 999552002812 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 999552002813 ligand-binding site [chemical binding]; other site 999552002814 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552002815 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 999552002816 catalytic loop [active] 999552002817 iron binding site [ion binding]; other site 999552002818 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552002819 cyclase homology domain; Region: CHD; cd07302 999552002820 nucleotidyl binding site; other site 999552002821 metal binding site [ion binding]; metal-binding site 999552002822 dimer interface [polypeptide binding]; other site 999552002823 Hint domain; Region: Hint_2; pfam13403 999552002824 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 999552002825 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552002826 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552002827 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552002828 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 999552002829 putative DNA binding site [nucleotide binding]; other site 999552002830 putative Zn2+ binding site [ion binding]; other site 999552002831 AsnC family; Region: AsnC_trans_reg; pfam01037 999552002832 Hint domain; Region: Hint_2; pfam13403 999552002833 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 999552002834 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 999552002835 Uncharacterized conserved protein [Function unknown]; Region: COG1565 999552002836 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 999552002837 Membrane fusogenic activity; Region: BMFP; pfam04380 999552002838 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 999552002839 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 999552002840 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 999552002841 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 999552002842 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 999552002843 dimer interface [polypeptide binding]; other site 999552002844 putative tRNA-binding site [nucleotide binding]; other site 999552002845 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 999552002846 dimerization interface [polypeptide binding]; other site 999552002847 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 999552002848 ligand binding site [chemical binding]; other site 999552002849 NADP binding site [chemical binding]; other site 999552002850 catalytic site [active] 999552002851 thymidine kinase; Provisional; Region: PRK04296 999552002852 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 999552002853 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552002854 Trypsin; Region: Trypsin; pfam00089 999552002855 active site 999552002856 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 999552002857 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 999552002858 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 999552002859 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 999552002860 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 999552002861 ATP-grasp domain; Region: ATP-grasp_4; cl17255 999552002862 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 999552002863 IMP binding site; other site 999552002864 dimer interface [polypeptide binding]; other site 999552002865 partial ornithine binding site; other site 999552002866 aminodeoxychorismate synthase; Provisional; Region: PRK07508 999552002867 chorismate binding enzyme; Region: Chorismate_bind; cl10555 999552002868 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 999552002869 hypothetical protein; Provisional; Region: PRK07546 999552002870 homodimer interface [polypeptide binding]; other site 999552002871 substrate-cofactor binding pocket; other site 999552002872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002873 catalytic residue [active] 999552002874 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 999552002875 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 999552002876 dimer interface [polypeptide binding]; other site 999552002877 anticodon binding site; other site 999552002878 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 999552002879 motif 1; other site 999552002880 dimer interface [polypeptide binding]; other site 999552002881 active site 999552002882 motif 2; other site 999552002883 GAD domain; Region: GAD; pfam02938 999552002884 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 999552002885 active site 999552002886 motif 3; other site 999552002887 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 999552002888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 999552002889 Response regulator receiver domain; Region: Response_reg; pfam00072 999552002890 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 999552002891 active site 999552002892 phosphorylation site [posttranslational modification] 999552002893 intermolecular recognition site; other site 999552002894 dimerization interface [polypeptide binding]; other site 999552002895 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552002896 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 999552002897 dimer interface [polypeptide binding]; other site 999552002898 substrate binding site [chemical binding]; other site 999552002899 metal binding site [ion binding]; metal-binding site 999552002900 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 999552002901 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 999552002902 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 999552002903 putative FMN binding site [chemical binding]; other site 999552002904 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 999552002905 Peptidase family M48; Region: Peptidase_M48; cl12018 999552002906 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 999552002907 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 999552002908 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 999552002909 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 999552002910 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 999552002911 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 999552002912 FeS/SAM binding site; other site 999552002913 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 999552002914 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 999552002915 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 999552002916 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 999552002917 active site 999552002918 substrate binding site [chemical binding]; other site 999552002919 metal binding site [ion binding]; metal-binding site 999552002920 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 999552002921 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 999552002922 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 999552002923 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 999552002924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552002925 Walker A/P-loop; other site 999552002926 ATP binding site [chemical binding]; other site 999552002927 Q-loop/lid; other site 999552002928 ABC transporter signature motif; other site 999552002929 Walker B; other site 999552002930 D-loop; other site 999552002931 H-loop/switch region; other site 999552002932 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 999552002933 putative uracil binding site [chemical binding]; other site 999552002934 putative active site [active] 999552002935 putative S-transferase; Provisional; Region: PRK11752 999552002936 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 999552002937 C-terminal domain interface [polypeptide binding]; other site 999552002938 GSH binding site (G-site) [chemical binding]; other site 999552002939 dimer interface [polypeptide binding]; other site 999552002940 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 999552002941 dimer interface [polypeptide binding]; other site 999552002942 N-terminal domain interface [polypeptide binding]; other site 999552002943 active site 999552002944 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 999552002945 GcrA cell cycle regulator; Region: GcrA; cl11564 999552002946 GcrA cell cycle regulator; Region: GcrA; cl11564 999552002947 ABC-2 type transporter; Region: ABC2_membrane; cl17235 999552002948 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 999552002949 EamA-like transporter family; Region: EamA; pfam00892 999552002950 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 999552002951 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 999552002952 inhibitor-cofactor binding pocket; inhibition site 999552002953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552002954 catalytic residue [active] 999552002955 ornithine carbamoyltransferase; Provisional; Region: PRK00779 999552002956 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 999552002957 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 999552002958 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 999552002959 Phosphate transporter family; Region: PHO4; pfam01384 999552002960 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 999552002961 nudix motif; other site 999552002962 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 999552002963 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 999552002964 ATP binding site [chemical binding]; other site 999552002965 putative Mg++ binding site [ion binding]; other site 999552002966 helicase superfamily c-terminal domain; Region: HELICc; smart00490 999552002967 Helicase associated domain (HA2); Region: HA2; pfam04408 999552002968 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 999552002969 membrane ATPase/protein kinase; Provisional; Region: PRK09435 999552002970 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 999552002971 Walker A; other site 999552002972 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 999552002973 Protein of unknown function (DUF461); Region: DUF461; pfam04314 999552002974 NAD-dependent deacetylase; Provisional; Region: PRK00481 999552002975 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 999552002976 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 999552002977 Low molecular weight phosphatase family; Region: LMWPc; cd00115 999552002978 active site 999552002979 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12680 999552002980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552002981 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552002982 dimerization interface [polypeptide binding]; other site 999552002983 GTP-binding protein LepA; Provisional; Region: PRK05433 999552002984 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 999552002985 G1 box; other site 999552002986 putative GEF interaction site [polypeptide binding]; other site 999552002987 GTP/Mg2+ binding site [chemical binding]; other site 999552002988 Switch I region; other site 999552002989 G2 box; other site 999552002990 G3 box; other site 999552002991 Switch II region; other site 999552002992 G4 box; other site 999552002993 G5 box; other site 999552002994 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 999552002995 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 999552002996 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 999552002997 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 999552002998 Entericidin EcnA/B family; Region: Entericidin; cl02322 999552002999 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 999552003000 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 999552003001 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 999552003002 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 999552003003 S-adenosylmethionine binding site [chemical binding]; other site 999552003004 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 999552003005 cobyric acid synthase; Provisional; Region: PRK00784 999552003006 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 999552003007 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 999552003008 catalytic triad [active] 999552003009 elongation factor P; Validated; Region: PRK00529 999552003010 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 999552003011 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 999552003012 RNA binding site [nucleotide binding]; other site 999552003013 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 999552003014 RNA binding site [nucleotide binding]; other site 999552003015 Putative transposase; Region: Y2_Tnp; pfam04986 999552003016 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 999552003017 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 999552003018 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 999552003019 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552003020 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 999552003021 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 999552003022 Probable Catalytic site; other site 999552003023 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 999552003024 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552003025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552003026 Walker A/P-loop; other site 999552003027 ATP binding site [chemical binding]; other site 999552003028 Q-loop/lid; other site 999552003029 ABC transporter signature motif; other site 999552003030 Walker B; other site 999552003031 D-loop; other site 999552003032 H-loop/switch region; other site 999552003033 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 999552003034 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 999552003035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552003036 homodimer interface [polypeptide binding]; other site 999552003037 catalytic residue [active] 999552003038 enoyl-CoA hydratase; Provisional; Region: PRK07509 999552003039 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552003040 substrate binding site [chemical binding]; other site 999552003041 oxyanion hole (OAH) forming residues; other site 999552003042 trimer interface [polypeptide binding]; other site 999552003043 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 999552003044 catalytic residue [active] 999552003045 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 999552003046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552003047 DNA-binding site [nucleotide binding]; DNA binding site 999552003048 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 999552003049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552003050 homodimer interface [polypeptide binding]; other site 999552003051 catalytic residue [active] 999552003052 Protein of unknown function (DUF983); Region: DUF983; cl02211 999552003053 CTP synthetase; Validated; Region: pyrG; PRK05380 999552003054 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 999552003055 Catalytic site [active] 999552003056 active site 999552003057 UTP binding site [chemical binding]; other site 999552003058 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 999552003059 active site 999552003060 putative oxyanion hole; other site 999552003061 catalytic triad [active] 999552003062 Preprotein translocase SecG subunit; Region: SecG; cl09123 999552003063 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 999552003064 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 999552003065 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 999552003066 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 999552003067 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 999552003068 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 999552003069 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 999552003070 GDP-binding site [chemical binding]; other site 999552003071 ACT binding site; other site 999552003072 IMP binding site; other site 999552003073 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 999552003074 Thiamine pyrophosphokinase; Region: TPK; cd07995 999552003075 active site 999552003076 thiamine binding site [chemical binding]; other site 999552003077 dimerization interface [polypeptide binding]; other site 999552003078 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 999552003079 EamA-like transporter family; Region: EamA; pfam00892 999552003080 EamA-like transporter family; Region: EamA; pfam00892 999552003081 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 999552003082 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 999552003083 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 999552003084 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 999552003085 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552003086 C-terminal domain interface [polypeptide binding]; other site 999552003087 GSH binding site (G-site) [chemical binding]; other site 999552003088 dimer interface [polypeptide binding]; other site 999552003089 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 999552003090 N-terminal domain interface [polypeptide binding]; other site 999552003091 dimer interface [polypeptide binding]; other site 999552003092 substrate binding pocket (H-site) [chemical binding]; other site 999552003093 hypothetical protein; Provisional; Region: PRK08317 999552003094 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 999552003095 S-adenosylmethionine binding site [chemical binding]; other site 999552003096 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 999552003097 tetramer (dimer of dimers) interface [polypeptide binding]; other site 999552003098 active site 999552003099 dimer interface [polypeptide binding]; other site 999552003100 glutathione reductase; Validated; Region: PRK06116 999552003101 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552003102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552003103 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552003104 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 999552003105 HflK protein; Region: hflK; TIGR01933 999552003106 FtsH protease regulator HflC; Provisional; Region: PRK11029 999552003107 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 999552003108 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 999552003109 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 999552003110 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 999552003111 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 999552003112 protein binding site [polypeptide binding]; other site 999552003113 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 999552003114 protein binding site [polypeptide binding]; other site 999552003115 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552003116 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 999552003117 ligand binding site [chemical binding]; other site 999552003118 flexible hinge region; other site 999552003119 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 999552003120 putative switch regulator; other site 999552003121 non-specific DNA interactions [nucleotide binding]; other site 999552003122 DNA binding site [nucleotide binding] 999552003123 sequence specific DNA binding site [nucleotide binding]; other site 999552003124 putative cAMP binding site [chemical binding]; other site 999552003125 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552003126 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 999552003127 generic binding surface II; other site 999552003128 generic binding surface I; other site 999552003129 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 999552003130 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552003131 catalytic loop [active] 999552003132 iron binding site [ion binding]; other site 999552003133 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 999552003134 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 999552003135 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 999552003136 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 999552003137 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 999552003138 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 999552003139 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552003140 Coenzyme A binding pocket [chemical binding]; other site 999552003141 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 999552003142 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 999552003143 ATP-grasp domain; Region: ATP-grasp_4; cl17255 999552003144 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 999552003145 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 999552003146 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 999552003147 generic binding surface II; other site 999552003148 generic binding surface I; other site 999552003149 YhhN-like protein; Region: YhhN; pfam07947 999552003150 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 999552003151 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 999552003152 P loop; other site 999552003153 GTP binding site [chemical binding]; other site 999552003154 MgtC family; Region: MgtC; pfam02308 999552003155 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 999552003156 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 999552003157 EamA-like transporter family; Region: EamA; pfam00892 999552003158 Intracellular septation protein A; Region: IspA; pfam04279 999552003159 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 999552003160 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 999552003161 C-terminal domain interface [polypeptide binding]; other site 999552003162 GSH binding site (G-site) [chemical binding]; other site 999552003163 dimer interface [polypeptide binding]; other site 999552003164 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 999552003165 putative dimer interface [polypeptide binding]; other site 999552003166 N-terminal domain interface [polypeptide binding]; other site 999552003167 active site 999552003168 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552003169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 999552003170 DNA-binding site [nucleotide binding]; DNA binding site 999552003171 FCD domain; Region: FCD; pfam07729 999552003172 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 999552003173 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 999552003174 Na binding site [ion binding]; other site 999552003175 putative substrate binding site [chemical binding]; other site 999552003176 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 999552003177 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 999552003178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552003179 catalytic residue [active] 999552003180 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 999552003181 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 999552003182 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 999552003183 active site 999552003184 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 999552003185 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552003186 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552003187 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 999552003188 dimerization interface [polypeptide binding]; other site 999552003189 putative GTP cyclohydrolase; Provisional; Region: PRK13674 999552003190 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 999552003191 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 999552003192 aspartate kinase; Reviewed; Region: PRK06635 999552003193 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 999552003194 putative nucleotide binding site [chemical binding]; other site 999552003195 putative catalytic residues [active] 999552003196 putative Mg ion binding site [ion binding]; other site 999552003197 putative aspartate binding site [chemical binding]; other site 999552003198 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 999552003199 putative allosteric regulatory site; other site 999552003200 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 999552003201 putative allosteric regulatory residue; other site 999552003202 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 999552003203 GAF domain; Region: GAF; pfam01590 999552003204 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 999552003205 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 999552003206 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 999552003207 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 999552003208 hypothetical protein; Provisional; Region: PRK07236 999552003209 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 999552003210 active site 999552003211 FMN binding site [chemical binding]; other site 999552003212 substrate binding site [chemical binding]; other site 999552003213 homotetramer interface [polypeptide binding]; other site 999552003214 catalytic residue [active] 999552003215 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 999552003216 classical (c) SDRs; Region: SDR_c; cd05233 999552003217 NAD(P) binding site [chemical binding]; other site 999552003218 active site 999552003219 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 999552003220 MarR family; Region: MarR; pfam01047 999552003221 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 999552003222 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552003223 substrate binding site [chemical binding]; other site 999552003224 oxyanion hole (OAH) forming residues; other site 999552003225 trimer interface [polypeptide binding]; other site 999552003226 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552003227 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552003228 active site 999552003229 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552003230 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 999552003231 acyl-activating enzyme (AAE) consensus motif; other site 999552003232 AMP binding site [chemical binding]; other site 999552003233 active site 999552003234 CoA binding site [chemical binding]; other site 999552003235 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 999552003236 putative active site [active] 999552003237 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 999552003238 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552003239 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 999552003240 Walker A/P-loop; other site 999552003241 ATP binding site [chemical binding]; other site 999552003242 Q-loop/lid; other site 999552003243 ABC transporter signature motif; other site 999552003244 Walker B; other site 999552003245 D-loop; other site 999552003246 H-loop/switch region; other site 999552003247 AMP-binding domain protein; Validated; Region: PRK07529 999552003248 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552003249 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 999552003250 acyl-activating enzyme (AAE) consensus motif; other site 999552003251 putative AMP binding site [chemical binding]; other site 999552003252 putative active site [active] 999552003253 putative CoA binding site [chemical binding]; other site 999552003254 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 999552003255 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 999552003256 substrate binding pocket [chemical binding]; other site 999552003257 Uncharacterized conserved protein [Function unknown]; Region: COG3379 999552003258 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 999552003259 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 999552003260 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 999552003261 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 999552003262 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 999552003263 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552003264 Walker A/P-loop; other site 999552003265 ATP binding site [chemical binding]; other site 999552003266 Q-loop/lid; other site 999552003267 ABC transporter signature motif; other site 999552003268 Walker B; other site 999552003269 D-loop; other site 999552003270 H-loop/switch region; other site 999552003271 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552003272 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552003273 Walker A/P-loop; other site 999552003274 ATP binding site [chemical binding]; other site 999552003275 Q-loop/lid; other site 999552003276 ABC transporter signature motif; other site 999552003277 Walker B; other site 999552003278 D-loop; other site 999552003279 H-loop/switch region; other site 999552003280 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552003281 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552003282 dimer interface [polypeptide binding]; other site 999552003283 conserved gate region; other site 999552003284 putative PBP binding loops; other site 999552003285 ABC-ATPase subunit interface; other site 999552003286 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552003287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552003288 dimer interface [polypeptide binding]; other site 999552003289 conserved gate region; other site 999552003290 ABC-ATPase subunit interface; other site 999552003291 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552003292 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 999552003293 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 999552003294 putative active site [active] 999552003295 dimerization interface [polypeptide binding]; other site 999552003296 putative tRNAtyr binding site [nucleotide binding]; other site 999552003297 Adenylate kinase, active site lid; Region: ADK_lid; pfam05191 999552003298 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 999552003299 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 999552003300 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 999552003301 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 999552003302 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 999552003303 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 999552003304 RNA binding surface [nucleotide binding]; other site 999552003305 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 999552003306 active site 999552003307 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 999552003308 nucleoside/Zn binding site; other site 999552003309 dimer interface [polypeptide binding]; other site 999552003310 catalytic motif [active] 999552003311 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552003312 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552003313 YCII-related domain; Region: YCII; cl00999 999552003314 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 999552003315 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 999552003316 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 999552003317 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 999552003318 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 999552003319 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 999552003320 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 999552003321 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 999552003322 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 999552003323 amidase catalytic site [active] 999552003324 Zn binding residues [ion binding]; other site 999552003325 substrate binding site [chemical binding]; other site 999552003326 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 999552003327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552003328 Coenzyme A binding pocket [chemical binding]; other site 999552003329 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 999552003330 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 999552003331 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 999552003332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552003333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552003334 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 999552003335 dimerization interface [polypeptide binding]; other site 999552003336 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 999552003337 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 999552003338 NAD(P) binding site [chemical binding]; other site 999552003339 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552003340 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 999552003341 non-specific DNA binding site [nucleotide binding]; other site 999552003342 salt bridge; other site 999552003343 sequence-specific DNA binding site [nucleotide binding]; other site 999552003344 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 999552003345 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 999552003346 active site 999552003347 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 999552003348 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 999552003349 active site 999552003350 putative substrate binding pocket [chemical binding]; other site 999552003351 guanine deaminase; Provisional; Region: PRK09228 999552003352 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 999552003353 active site 999552003354 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 999552003355 MgtE intracellular N domain; Region: MgtE_N; smart00924 999552003356 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 999552003357 Divalent cation transporter; Region: MgtE; cl00786 999552003358 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 999552003359 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 999552003360 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 999552003361 putative active site [active] 999552003362 metal binding site [ion binding]; metal-binding site 999552003363 homodimer binding site [polypeptide binding]; other site 999552003364 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 999552003365 transmembrane helices; other site 999552003366 TrkA-C domain; Region: TrkA_C; pfam02080 999552003367 TrkA-C domain; Region: TrkA_C; pfam02080 999552003368 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 999552003369 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 999552003370 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 999552003371 TrkA-C domain; Region: TrkA_C; pfam02080 999552003372 TrkA-C domain; Region: TrkA_C; pfam02080 999552003373 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 999552003374 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 999552003375 hypothetical protein; Validated; Region: PRK00110 999552003376 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 999552003377 Predicted periplasmic protein [Function unknown]; Region: COG3904 999552003378 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 999552003379 putative FMN binding site [chemical binding]; other site 999552003380 putative dimer interface [polypeptide binding]; other site 999552003381 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 999552003382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552003383 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 999552003384 dimerization interface [polypeptide binding]; other site 999552003385 Lysine efflux permease [General function prediction only]; Region: COG1279 999552003386 EamA-like transporter family; Region: EamA; pfam00892 999552003387 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552003388 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 999552003389 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 999552003390 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 999552003391 BCCT family transporter; Region: BCCT; cl00569 999552003392 Sulfatase; Region: Sulfatase; cl17466 999552003393 choline-sulfatase; Region: chol_sulfatase; TIGR03417 999552003394 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 999552003395 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 999552003396 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 999552003397 NAD(P) binding site [chemical binding]; other site 999552003398 catalytic residues [active] 999552003399 choline dehydrogenase; Validated; Region: PRK02106 999552003400 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552003401 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 999552003402 Patatin-like phospholipase; Region: Patatin; pfam01734 999552003403 active site 999552003404 nucleophile elbow; other site 999552003405 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552003406 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 999552003407 non-specific DNA binding site [nucleotide binding]; other site 999552003408 salt bridge; other site 999552003409 sequence-specific DNA binding site [nucleotide binding]; other site 999552003410 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 999552003411 Domain of unknown function (DUF955); Region: DUF955; pfam06114 999552003412 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 999552003413 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 999552003414 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 999552003415 putative substrate translocation pore; other site 999552003416 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 999552003417 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 999552003418 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 999552003419 Porin subfamily; Region: Porin_2; pfam02530 999552003420 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 999552003421 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 999552003422 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 999552003423 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 999552003424 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 999552003425 carboxyltransferase (CT) interaction site; other site 999552003426 biotinylation site [posttranslational modification]; other site 999552003427 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 999552003428 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 999552003429 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 999552003430 active site 999552003431 substrate binding site [chemical binding]; other site 999552003432 coenzyme B12 binding site [chemical binding]; other site 999552003433 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 999552003434 B12 binding site [chemical binding]; other site 999552003435 cobalt ligand [ion binding]; other site 999552003436 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 999552003437 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 999552003438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552003439 Coenzyme A binding pocket [chemical binding]; other site 999552003440 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 999552003441 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 999552003442 putative metal binding site [ion binding]; other site 999552003443 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 999552003444 HSP70 interaction site [polypeptide binding]; other site 999552003445 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 999552003446 putative catalytic site [active] 999552003447 putative metal binding site [ion binding]; other site 999552003448 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 999552003449 putative catalytic site [active] 999552003450 putative phosphate binding site [ion binding]; other site 999552003451 putative phosphate binding site [ion binding]; other site 999552003452 putative metal binding site [ion binding]; other site 999552003453 exopolyphosphatase; Region: exo_poly_only; TIGR03706 999552003454 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 999552003455 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 999552003456 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 999552003457 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 999552003458 Domain of unknown function DUF20; Region: UPF0118; pfam01594 999552003459 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 999552003460 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 999552003461 agmatinase; Region: agmatinase; TIGR01230 999552003462 oligomer interface [polypeptide binding]; other site 999552003463 putative active site [active] 999552003464 Mn binding site [ion binding]; other site 999552003465 prolyl-tRNA synthetase; Provisional; Region: PRK12325 999552003466 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 999552003467 dimer interface [polypeptide binding]; other site 999552003468 motif 1; other site 999552003469 active site 999552003470 motif 2; other site 999552003471 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 999552003472 active site 999552003473 motif 3; other site 999552003474 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 999552003475 anticodon binding site; other site 999552003476 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 999552003477 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 999552003478 FtsX-like permease family; Region: FtsX; pfam02687 999552003479 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 999552003480 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 999552003481 Walker A/P-loop; other site 999552003482 ATP binding site [chemical binding]; other site 999552003483 Q-loop/lid; other site 999552003484 ABC transporter signature motif; other site 999552003485 Walker B; other site 999552003486 D-loop; other site 999552003487 H-loop/switch region; other site 999552003488 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 999552003489 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 999552003490 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 999552003491 PhnA protein; Region: PhnA; pfam03831 999552003492 Protein of unknown function, DUF606; Region: DUF606; pfam04657 999552003493 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 999552003494 HEPN domain; Region: HEPN; cl00824 999552003495 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 999552003496 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 999552003497 Mg2+ binding site [ion binding]; other site 999552003498 G-X-G motif; other site 999552003499 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 999552003500 anchoring element; other site 999552003501 dimer interface [polypeptide binding]; other site 999552003502 ATP binding site [chemical binding]; other site 999552003503 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 999552003504 active site 999552003505 metal binding site [ion binding]; metal-binding site 999552003506 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 999552003507 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 999552003508 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552003509 catalytic residue [active] 999552003510 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 999552003511 High-affinity nickel-transport protein; Region: NicO; cl00964 999552003512 High-affinity nickel-transport protein; Region: NicO; cl00964 999552003513 multidrug efflux protein; Reviewed; Region: PRK01766 999552003514 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 999552003515 cation binding site [ion binding]; other site 999552003516 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 999552003517 nucleoside/Zn binding site; other site 999552003518 dimer interface [polypeptide binding]; other site 999552003519 catalytic motif [active] 999552003520 NADH(P)-binding; Region: NAD_binding_10; pfam13460 999552003521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552003522 NAD(P) binding site [chemical binding]; other site 999552003523 active site 999552003524 aspartate aminotransferase; Provisional; Region: PRK05764 999552003525 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 999552003526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552003527 homodimer interface [polypeptide binding]; other site 999552003528 catalytic residue [active] 999552003529 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 999552003530 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 999552003531 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 999552003532 dimer interface [polypeptide binding]; other site 999552003533 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552003534 active site 999552003535 metal binding site [ion binding]; metal-binding site 999552003536 glutathione binding site [chemical binding]; other site 999552003537 thymidylate synthase; Reviewed; Region: thyA; PRK01827 999552003538 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 999552003539 dimerization interface [polypeptide binding]; other site 999552003540 active site 999552003541 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 999552003542 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 999552003543 folate binding site [chemical binding]; other site 999552003544 NADP+ binding site [chemical binding]; other site 999552003545 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552003546 DNA-binding site [nucleotide binding]; DNA binding site 999552003547 RNA-binding motif; other site 999552003548 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 999552003549 ArsC family; Region: ArsC; pfam03960 999552003550 Predicted membrane protein [Function unknown]; Region: COG2259 999552003551 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 999552003552 hypothetical protein; Provisional; Region: PRK05409 999552003553 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 999552003554 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 999552003555 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 999552003556 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 999552003557 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 999552003558 active site 999552003559 dimer interface [polypeptide binding]; other site 999552003560 motif 1; other site 999552003561 motif 2; other site 999552003562 motif 3; other site 999552003563 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 999552003564 anticodon binding site; other site 999552003565 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 999552003566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552003567 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 999552003568 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 999552003569 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552003570 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 999552003571 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 999552003572 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 999552003573 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 999552003574 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 999552003575 cyclase homology domain; Region: CHD; cd07302 999552003576 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552003577 nucleotidyl binding site; other site 999552003578 dimer interface [polypeptide binding]; other site 999552003579 metal binding site [ion binding]; metal-binding site 999552003580 Predicted integral membrane protein [Function unknown]; Region: COG5616 999552003581 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552003582 TPR motif; other site 999552003583 TPR repeat; Region: TPR_11; pfam13414 999552003584 binding surface 999552003585 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552003586 TPR motif; other site 999552003587 binding surface 999552003588 TPR repeat; Region: TPR_11; pfam13414 999552003589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552003590 NAD(P) binding site [chemical binding]; other site 999552003591 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 999552003592 active site 999552003593 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 999552003594 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 999552003595 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 999552003596 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 999552003597 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552003598 catalytic residue [active] 999552003599 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 999552003600 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552003601 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 999552003602 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552003603 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 999552003604 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 999552003605 catalytic triad [active] 999552003606 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 999552003607 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552003608 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552003609 dimer interface [polypeptide binding]; other site 999552003610 conserved gate region; other site 999552003611 putative PBP binding loops; other site 999552003612 ABC-ATPase subunit interface; other site 999552003613 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 999552003614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552003615 ABC-ATPase subunit interface; other site 999552003616 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 999552003617 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 999552003618 substrate binding pocket [chemical binding]; other site 999552003619 membrane-bound complex binding site; other site 999552003620 hinge residues; other site 999552003621 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 999552003622 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 999552003623 Walker A/P-loop; other site 999552003624 ATP binding site [chemical binding]; other site 999552003625 Q-loop/lid; other site 999552003626 ABC transporter signature motif; other site 999552003627 Walker B; other site 999552003628 D-loop; other site 999552003629 H-loop/switch region; other site 999552003630 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 999552003631 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 999552003632 putative metal binding site [ion binding]; other site 999552003633 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 999552003634 putative metal binding site [ion binding]; other site 999552003635 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 999552003636 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 999552003637 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 999552003638 HIGH motif; other site 999552003639 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 999552003640 active site 999552003641 KMSKS motif; other site 999552003642 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 999552003643 tRNA binding surface [nucleotide binding]; other site 999552003644 anticodon binding site; other site 999552003645 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 999552003646 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 999552003647 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 999552003648 putative DNA binding site [nucleotide binding]; other site 999552003649 putative Zn2+ binding site [ion binding]; other site 999552003650 AsnC family; Region: AsnC_trans_reg; pfam01037 999552003651 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 999552003652 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 999552003653 catalytic residue [active] 999552003654 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 999552003655 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 999552003656 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552003657 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 999552003658 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 999552003659 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 999552003660 CoenzymeA binding site [chemical binding]; other site 999552003661 subunit interaction site [polypeptide binding]; other site 999552003662 PHB binding site; other site 999552003663 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 999552003664 FAD binding site [chemical binding]; other site 999552003665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 999552003666 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 999552003667 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 999552003668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552003669 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 999552003670 putative dimerization interface [polypeptide binding]; other site 999552003671 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 999552003672 Prostaglandin dehydrogenases; Region: PGDH; cd05288 999552003673 NAD(P) binding site [chemical binding]; other site 999552003674 substrate binding site [chemical binding]; other site 999552003675 dimer interface [polypeptide binding]; other site 999552003676 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 999552003677 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 999552003678 active site 999552003679 dimerization interface [polypeptide binding]; other site 999552003680 Uncharacterized conserved protein [Function unknown]; Region: COG3791 999552003681 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 999552003682 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 999552003683 Proline dehydrogenase; Region: Pro_dh; pfam01619 999552003684 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 999552003685 Glutamate binding site [chemical binding]; other site 999552003686 NAD binding site [chemical binding]; other site 999552003687 catalytic residues [active] 999552003688 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 999552003689 NAD(P) binding site [chemical binding]; other site 999552003690 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552003691 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 999552003692 dimerization interface [polypeptide binding]; other site 999552003693 putative DNA binding site [nucleotide binding]; other site 999552003694 putative Zn2+ binding site [ion binding]; other site 999552003695 AsnC family; Region: AsnC_trans_reg; pfam01037 999552003696 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 999552003697 binding surface 999552003698 TPR motif; other site 999552003699 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 999552003700 active site 999552003701 catalytic residues [active] 999552003702 Int/Topo IB signature motif; other site 999552003703 DNA binding site [nucleotide binding] 999552003704 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 999552003705 active site 999552003706 RecT family; Region: RecT; cl04285 999552003707 Predicted transcriptional regulator [Transcription]; Region: COG2932 999552003708 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 999552003709 Catalytic site [active] 999552003710 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552003711 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 999552003712 non-specific DNA binding site [nucleotide binding]; other site 999552003713 salt bridge; other site 999552003714 sequence-specific DNA binding site [nucleotide binding]; other site 999552003715 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 999552003716 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 999552003717 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 999552003718 Phage terminase large subunit; Region: Terminase_3; cl12054 999552003719 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 999552003720 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 999552003721 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 999552003722 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 999552003723 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 999552003724 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 999552003725 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 999552003726 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 999552003727 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 999552003728 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 999552003729 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552003730 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 999552003731 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 999552003732 active site 999552003733 AAA domain; Region: AAA_21; pfam13304 999552003734 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 999552003735 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 999552003736 active site 999552003737 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 999552003738 iron-sulfur cluster [ion binding]; other site 999552003739 [2Fe-2S] cluster binding site [ion binding]; other site 999552003740 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 999552003741 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 999552003742 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 999552003743 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 999552003744 active site 999552003745 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 999552003746 Ligand Binding Site [chemical binding]; other site 999552003747 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552003748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552003749 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 999552003750 dimerization interface [polypeptide binding]; other site 999552003751 hypothetical protein; Provisional; Region: PRK07490 999552003752 intersubunit interface [polypeptide binding]; other site 999552003753 active site 999552003754 Zn2+ binding site [ion binding]; other site 999552003755 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 999552003756 Fatty acid desaturase; Region: FA_desaturase; pfam00487 999552003757 putative di-iron ligands [ion binding]; other site 999552003758 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 999552003759 [2Fe-2S] cluster binding site [ion binding]; other site 999552003760 acyl-CoA esterase; Provisional; Region: PRK10673 999552003761 PGAP1-like protein; Region: PGAP1; pfam07819 999552003762 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 999552003763 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 999552003764 dimer interface [polypeptide binding]; other site 999552003765 active site 999552003766 glycine-pyridoxal phosphate binding site [chemical binding]; other site 999552003767 folate binding site [chemical binding]; other site 999552003768 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 999552003769 ATP-NAD kinase; Region: NAD_kinase; pfam01513 999552003770 amidase; Provisional; Region: PRK07487 999552003771 Amidase; Region: Amidase; cl11426 999552003772 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 999552003773 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552003774 acyl-activating enzyme (AAE) consensus motif; other site 999552003775 AMP binding site [chemical binding]; other site 999552003776 active site 999552003777 CoA binding site [chemical binding]; other site 999552003778 Uncharacterized conserved protein [Function unknown]; Region: COG3791 999552003779 malic enzyme; Reviewed; Region: PRK12862 999552003780 Malic enzyme, N-terminal domain; Region: malic; pfam00390 999552003781 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 999552003782 putative NAD(P) binding site [chemical binding]; other site 999552003783 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 999552003784 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 999552003785 active site 999552003786 catalytic motif [active] 999552003787 Zn binding site [ion binding]; other site 999552003788 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 999552003789 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 999552003790 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 999552003791 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 999552003792 phosphopentomutase; Provisional; Region: PRK05362 999552003793 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 999552003794 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552003795 active site 999552003796 Predicted membrane protein [Function unknown]; Region: COG4125 999552003797 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 999552003798 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 999552003799 acyl-CoA synthetase; Validated; Region: PRK08162 999552003800 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 999552003801 acyl-activating enzyme (AAE) consensus motif; other site 999552003802 putative active site [active] 999552003803 AMP binding site [chemical binding]; other site 999552003804 putative CoA binding site [chemical binding]; other site 999552003805 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 999552003806 Hint domain; Region: Hint_2; pfam13403 999552003807 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 999552003808 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552003809 substrate binding site [chemical binding]; other site 999552003810 oxyanion hole (OAH) forming residues; other site 999552003811 trimer interface [polypeptide binding]; other site 999552003812 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 999552003813 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552003814 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552003815 Cupin domain; Region: Cupin_2; cl17218 999552003816 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 999552003817 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 999552003818 dimer interface [polypeptide binding]; other site 999552003819 active site 999552003820 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 999552003821 maleylacetoacetate isomerase; Region: maiA; TIGR01262 999552003822 putative C-terminal domain interface [polypeptide binding]; other site 999552003823 putative GSH binding site (G-site) [chemical binding]; other site 999552003824 putative dimer interface [polypeptide binding]; other site 999552003825 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 999552003826 N-terminal domain interface [polypeptide binding]; other site 999552003827 dimer interface [polypeptide binding]; other site 999552003828 substrate binding pocket (H-site) [chemical binding]; other site 999552003829 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552003830 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552003831 active site 999552003832 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 999552003833 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 999552003834 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 999552003835 FAD binding site [chemical binding]; other site 999552003836 substrate binding site [chemical binding]; other site 999552003837 catalytic residues [active] 999552003838 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 999552003839 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 999552003840 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 999552003841 DNA binding residues [nucleotide binding] 999552003842 putative dimer interface [polypeptide binding]; other site 999552003843 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 999552003844 DNA binding residues [nucleotide binding] 999552003845 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 999552003846 putative dimer interface [polypeptide binding]; other site 999552003847 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 999552003848 CoenzymeA binding site [chemical binding]; other site 999552003849 subunit interaction site [polypeptide binding]; other site 999552003850 PHB binding site; other site 999552003851 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 999552003852 CoenzymeA binding site [chemical binding]; other site 999552003853 subunit interaction site [polypeptide binding]; other site 999552003854 PHB binding site; other site 999552003855 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 999552003856 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 999552003857 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 999552003858 ArsC family; Region: ArsC; pfam03960 999552003859 catalytic residues [active] 999552003860 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 999552003861 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 999552003862 quinone interaction residues [chemical binding]; other site 999552003863 active site 999552003864 catalytic residues [active] 999552003865 FMN binding site [chemical binding]; other site 999552003866 substrate binding site [chemical binding]; other site 999552003867 Protein of unknown function (DUF952); Region: DUF952; pfam06108 999552003868 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 999552003869 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 999552003870 active site 999552003871 metal binding site [ion binding]; metal-binding site 999552003872 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 999552003873 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552003874 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 999552003875 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 999552003876 N-terminal domain interface [polypeptide binding]; other site 999552003877 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 999552003878 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552003879 TPR motif; other site 999552003880 binding surface 999552003881 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 999552003882 TPR repeat; Region: TPR_11; pfam13414 999552003883 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552003884 binding surface 999552003885 TPR motif; other site 999552003886 sulfotransferase; Region: PLN02164 999552003887 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 999552003888 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 999552003889 MarR family; Region: MarR; pfam01047 999552003890 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 999552003891 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 999552003892 active site residue [active] 999552003893 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 999552003894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552003895 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 999552003896 dimerization interface [polypeptide binding]; other site 999552003897 putative ATP binding site [chemical binding]; other site 999552003898 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 999552003899 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 999552003900 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 999552003901 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 999552003902 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 999552003903 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 999552003904 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 999552003905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 999552003906 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 999552003907 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 999552003908 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 999552003909 active site residue [active] 999552003910 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 999552003911 glucosyltransferase MdoH; Provisional; Region: PRK05454 999552003912 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 999552003913 active site 999552003914 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 999552003915 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 999552003916 OpgC protein; Region: OpgC_C; pfam10129 999552003917 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 999552003918 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552003919 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552003920 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 999552003921 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552003922 PYR/PP interface [polypeptide binding]; other site 999552003923 dimer interface [polypeptide binding]; other site 999552003924 TPP binding site [chemical binding]; other site 999552003925 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552003926 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 999552003927 TPP-binding site [chemical binding]; other site 999552003928 Domain of unknown function DUF302; Region: DUF302; pfam03625 999552003929 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 999552003930 Predicted transporter component [General function prediction only]; Region: COG2391 999552003931 Sulphur transport; Region: Sulf_transp; pfam04143 999552003932 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 999552003933 dimerization interface [polypeptide binding]; other site 999552003934 putative DNA binding site [nucleotide binding]; other site 999552003935 putative Zn2+ binding site [ion binding]; other site 999552003936 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 999552003937 catalytic residues [active] 999552003938 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 999552003939 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 999552003940 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 999552003941 catalytic residues [active] 999552003942 Cytochrome c; Region: Cytochrom_C; pfam00034 999552003943 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 999552003944 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 999552003945 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 999552003946 Cytochrome c [Energy production and conversion]; Region: COG3258 999552003947 Cytochrome c [Energy production and conversion]; Region: COG3258 999552003948 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 999552003949 active site 999552003950 metal binding site [ion binding]; metal-binding site 999552003951 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 999552003952 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 999552003953 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 999552003954 Moco binding site; other site 999552003955 metal coordination site [ion binding]; other site 999552003956 Cytochrome c; Region: Cytochrom_C; pfam00034 999552003957 Cytochrome c2 [Energy production and conversion]; Region: COG3474 999552003958 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552003959 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552003960 conserved cys residue [active] 999552003961 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552003962 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552003963 Clp protease; Region: CLP_protease; pfam00574 999552003964 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 999552003965 oligomer interface [polypeptide binding]; other site 999552003966 active site residues [active] 999552003967 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 999552003968 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 999552003969 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 999552003970 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 999552003971 Walker A motif; other site 999552003972 ATP binding site [chemical binding]; other site 999552003973 Walker B motif; other site 999552003974 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 999552003975 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 999552003976 homotrimer interaction site [polypeptide binding]; other site 999552003977 putative active site [active] 999552003978 NADH dehydrogenase; Validated; Region: PRK08183 999552003979 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 999552003980 mce related protein; Region: MCE; pfam02470 999552003981 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 999552003982 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 999552003983 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 999552003984 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 999552003985 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 999552003986 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 999552003987 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 999552003988 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 999552003989 carboxyltransferase (CT) interaction site; other site 999552003990 biotinylation site [posttranslational modification]; other site 999552003991 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552003992 PAS domain; Region: PAS_9; pfam13426 999552003993 putative active site [active] 999552003994 heme pocket [chemical binding]; other site 999552003995 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 999552003996 DNA binding residues [nucleotide binding] 999552003997 dimerization interface [polypeptide binding]; other site 999552003998 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 999552003999 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552004000 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 999552004001 acyl-activating enzyme (AAE) consensus motif; other site 999552004002 acyl-activating enzyme (AAE) consensus motif; other site 999552004003 putative AMP binding site [chemical binding]; other site 999552004004 putative active site [active] 999552004005 putative CoA binding site [chemical binding]; other site 999552004006 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 999552004007 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 999552004008 Walker A/P-loop; other site 999552004009 ATP binding site [chemical binding]; other site 999552004010 Q-loop/lid; other site 999552004011 ABC transporter signature motif; other site 999552004012 Walker B; other site 999552004013 D-loop; other site 999552004014 H-loop/switch region; other site 999552004015 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 999552004016 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 999552004017 Walker A/P-loop; other site 999552004018 ATP binding site [chemical binding]; other site 999552004019 Q-loop/lid; other site 999552004020 ABC transporter signature motif; other site 999552004021 Walker B; other site 999552004022 D-loop; other site 999552004023 H-loop/switch region; other site 999552004024 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 999552004025 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 999552004026 TM-ABC transporter signature motif; other site 999552004027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 999552004028 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 999552004029 TM-ABC transporter signature motif; other site 999552004030 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 999552004031 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 999552004032 putative ligand binding site [chemical binding]; other site 999552004033 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552004034 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 999552004035 non-specific DNA binding site [nucleotide binding]; other site 999552004036 salt bridge; other site 999552004037 sequence-specific DNA binding site [nucleotide binding]; other site 999552004038 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 999552004039 Response regulator receiver domain; Region: Response_reg; pfam00072 999552004040 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 999552004041 active site 999552004042 phosphorylation site [posttranslational modification] 999552004043 intermolecular recognition site; other site 999552004044 dimerization interface [polypeptide binding]; other site 999552004045 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 999552004046 Na binding site [ion binding]; other site 999552004047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552004048 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 999552004049 dimer interface [polypeptide binding]; other site 999552004050 phosphorylation site [posttranslational modification] 999552004051 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 999552004052 ATP binding site [chemical binding]; other site 999552004053 Mg2+ binding site [ion binding]; other site 999552004054 G-X-G motif; other site 999552004055 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 999552004056 Putative phosphatase (DUF442); Region: DUF442; cl17385 999552004057 Predicted transporter component [General function prediction only]; Region: COG2391 999552004058 Sulphur transport; Region: Sulf_transp; pfam04143 999552004059 Predicted transporter component [General function prediction only]; Region: COG2391 999552004060 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 999552004061 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 999552004062 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 999552004063 homotrimer interaction site [polypeptide binding]; other site 999552004064 putative active site [active] 999552004065 Transcriptional activator [Transcription]; Region: ChrR; COG3806 999552004066 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 999552004067 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 999552004068 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 999552004069 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552004070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552004071 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 999552004072 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 999552004073 homodimer interface [polypeptide binding]; other site 999552004074 active site 999552004075 FMN binding site [chemical binding]; other site 999552004076 substrate binding site [chemical binding]; other site 999552004077 4Fe-4S binding domain; Region: Fer4; cl02805 999552004078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552004079 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 999552004080 allantoate amidohydrolase; Reviewed; Region: PRK12893 999552004081 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 999552004082 active site 999552004083 metal binding site [ion binding]; metal-binding site 999552004084 dimer interface [polypeptide binding]; other site 999552004085 phenylhydantoinase; Validated; Region: PRK08323 999552004086 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 999552004087 tetramer interface [polypeptide binding]; other site 999552004088 active site 999552004089 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 999552004090 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 999552004091 Walker A/P-loop; other site 999552004092 ATP binding site [chemical binding]; other site 999552004093 Q-loop/lid; other site 999552004094 ABC transporter signature motif; other site 999552004095 Walker B; other site 999552004096 D-loop; other site 999552004097 H-loop/switch region; other site 999552004098 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 999552004099 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552004100 dimer interface [polypeptide binding]; other site 999552004101 conserved gate region; other site 999552004102 putative PBP binding loops; other site 999552004103 ABC-ATPase subunit interface; other site 999552004104 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 999552004105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552004106 dimer interface [polypeptide binding]; other site 999552004107 conserved gate region; other site 999552004108 putative PBP binding loops; other site 999552004109 ABC-ATPase subunit interface; other site 999552004110 NMT1/THI5 like; Region: NMT1; pfam09084 999552004111 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 999552004112 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 999552004113 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 999552004114 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 999552004115 active site 999552004116 catalytic site [active] 999552004117 substrate binding site [chemical binding]; other site 999552004118 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 999552004119 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 999552004120 ligand binding site [chemical binding]; other site 999552004121 flexible hinge region; other site 999552004122 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 999552004123 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 999552004124 metal binding triad; other site 999552004125 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 999552004126 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 999552004127 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 999552004128 Na binding site [ion binding]; other site 999552004129 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 999552004130 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 999552004131 adenylate kinase; Reviewed; Region: adk; PRK00279 999552004132 AMP-binding site [chemical binding]; other site 999552004133 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 999552004134 acetyl-CoA synthetase; Provisional; Region: PRK00174 999552004135 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 999552004136 active site 999552004137 CoA binding site [chemical binding]; other site 999552004138 acyl-activating enzyme (AAE) consensus motif; other site 999552004139 AMP binding site [chemical binding]; other site 999552004140 acetate binding site [chemical binding]; other site 999552004141 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552004142 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 999552004143 DctM-like transporters; Region: DctM; pfam06808 999552004144 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552004145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 999552004146 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 999552004147 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 999552004148 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 999552004149 putative catalytic site [active] 999552004150 putative metal binding site [ion binding]; other site 999552004151 putative phosphate binding site [ion binding]; other site 999552004152 putative catalytic site [active] 999552004153 putative phosphate binding site [ion binding]; other site 999552004154 putative metal binding site [ion binding]; other site 999552004155 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552004156 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552004157 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 999552004158 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 999552004159 active site 999552004160 DNA binding site [nucleotide binding] 999552004161 Int/Topo IB signature motif; other site 999552004162 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 999552004163 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 999552004164 FMN binding site [chemical binding]; other site 999552004165 active site 999552004166 catalytic residues [active] 999552004167 substrate binding site [chemical binding]; other site 999552004168 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552004169 Transposase, Mutator family; Region: Transposase_mut; pfam00872 999552004170 Transposase, Mutator family; Region: Transposase_mut; pfam00872 999552004171 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 999552004172 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 999552004173 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 999552004174 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 999552004175 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 999552004176 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552004177 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 999552004178 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 999552004179 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 999552004180 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552004181 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552004182 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552004183 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 999552004184 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 999552004185 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 999552004186 Predicted permeases [General function prediction only]; Region: RarD; COG2962 999552004187 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 999552004188 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 999552004189 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552004190 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 999552004191 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 999552004192 Walker A/P-loop; other site 999552004193 ATP binding site [chemical binding]; other site 999552004194 Q-loop/lid; other site 999552004195 ABC transporter signature motif; other site 999552004196 Walker B; other site 999552004197 D-loop; other site 999552004198 H-loop/switch region; other site 999552004199 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 999552004200 Protein export membrane protein; Region: SecD_SecF; cl14618 999552004201 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 999552004202 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552004203 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 999552004204 Trp docking motif [polypeptide binding]; other site 999552004205 active site 999552004206 PQQ-like domain; Region: PQQ_2; pfam13360 999552004207 PQQ-like domain; Region: PQQ_2; pfam13360 999552004208 GTP-binding protein Der; Reviewed; Region: PRK00093 999552004209 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 999552004210 G1 box; other site 999552004211 GTP/Mg2+ binding site [chemical binding]; other site 999552004212 Switch I region; other site 999552004213 G2 box; other site 999552004214 Switch II region; other site 999552004215 G3 box; other site 999552004216 G4 box; other site 999552004217 G5 box; other site 999552004218 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 999552004219 G1 box; other site 999552004220 GTP/Mg2+ binding site [chemical binding]; other site 999552004221 Switch I region; other site 999552004222 G2 box; other site 999552004223 G3 box; other site 999552004224 Switch II region; other site 999552004225 G4 box; other site 999552004226 G5 box; other site 999552004227 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 999552004228 Fatty acid desaturase; Region: FA_desaturase; pfam00487 999552004229 putative di-iron ligands [ion binding]; other site 999552004230 seryl-tRNA synthetase; Provisional; Region: PRK05431 999552004231 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 999552004232 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 999552004233 dimer interface [polypeptide binding]; other site 999552004234 active site 999552004235 motif 1; other site 999552004236 motif 2; other site 999552004237 motif 3; other site 999552004238 Preprotein translocase subunit; Region: YajC; pfam02699 999552004239 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 999552004240 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 999552004241 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 999552004242 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 999552004243 Protein export membrane protein; Region: SecD_SecF; pfam02355 999552004244 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 999552004245 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 999552004246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552004247 Walker A/P-loop; other site 999552004248 ATP binding site [chemical binding]; other site 999552004249 Q-loop/lid; other site 999552004250 ABC transporter signature motif; other site 999552004251 Walker B; other site 999552004252 D-loop; other site 999552004253 H-loop/switch region; other site 999552004254 heme exporter protein CcmB; Region: ccmB; TIGR01190 999552004255 heme exporter protein CcmC; Region: ccmC; TIGR01191 999552004256 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 999552004257 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 999552004258 catalytic residues [active] 999552004259 central insert; other site 999552004260 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 999552004261 aconitate hydratase; Validated; Region: PRK09277 999552004262 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 999552004263 substrate binding site [chemical binding]; other site 999552004264 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 999552004265 ligand binding site [chemical binding]; other site 999552004266 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 999552004267 substrate binding site [chemical binding]; other site 999552004268 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 999552004269 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 999552004270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 999552004271 putative acyl-acceptor binding pocket; other site 999552004272 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 999552004273 FliG C-terminal domain; Region: FliG_C; pfam01706 999552004274 Tetratricopeptide repeat; Region: TPR_16; pfam13432 999552004275 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552004276 binding surface 999552004277 TPR motif; other site 999552004278 adenylosuccinate lyase; Provisional; Region: PRK07492 999552004279 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 999552004280 tetramer interface [polypeptide binding]; other site 999552004281 active site 999552004282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552004283 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 999552004284 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 999552004285 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 999552004286 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 999552004287 active site 999552004288 Transglycosylase SLT domain; Region: SLT_2; pfam13406 999552004289 murein hydrolase B; Provisional; Region: PRK10760; cl17906 999552004290 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 999552004291 putative chaperone; Provisional; Region: PRK11678 999552004292 nucleotide binding site [chemical binding]; other site 999552004293 putative NEF/HSP70 interaction site [polypeptide binding]; other site 999552004294 SBD interface [polypeptide binding]; other site 999552004295 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 999552004296 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 999552004297 putative ligand binding site [chemical binding]; other site 999552004298 glutamine synthetase; Provisional; Region: glnA; PRK09469 999552004299 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 999552004300 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552004301 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 999552004302 Nitrogen regulatory protein P-II; Region: P-II; smart00938 999552004303 Hint domain; Region: Hint_2; pfam13403 999552004304 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 999552004305 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552004306 catalytic loop [active] 999552004307 iron binding site [ion binding]; other site 999552004308 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552004309 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552004310 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 999552004311 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 999552004312 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 999552004313 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 999552004314 active site 999552004315 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 999552004316 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 999552004317 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 999552004318 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 999552004319 dimer interface [polypeptide binding]; other site 999552004320 phosphorylation site [posttranslational modification] 999552004321 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 999552004322 ATP binding site [chemical binding]; other site 999552004323 Mg2+ binding site [ion binding]; other site 999552004324 G-X-G motif; other site 999552004325 Response regulator receiver domain; Region: Response_reg; pfam00072 999552004326 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 999552004327 active site 999552004328 phosphorylation site [posttranslational modification] 999552004329 intermolecular recognition site; other site 999552004330 dimerization interface [polypeptide binding]; other site 999552004331 recombinase A; Provisional; Region: recA; PRK09354 999552004332 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 999552004333 hexamer interface [polypeptide binding]; other site 999552004334 Walker A motif; other site 999552004335 ATP binding site [chemical binding]; other site 999552004336 Walker B motif; other site 999552004337 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 999552004338 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 999552004339 motif 1; other site 999552004340 active site 999552004341 motif 2; other site 999552004342 motif 3; other site 999552004343 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 999552004344 DHHA1 domain; Region: DHHA1; pfam02272 999552004345 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 999552004346 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 999552004347 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 999552004348 G1 box; other site 999552004349 putative GEF interaction site [polypeptide binding]; other site 999552004350 GTP/Mg2+ binding site [chemical binding]; other site 999552004351 Switch I region; other site 999552004352 G2 box; other site 999552004353 G3 box; other site 999552004354 Switch II region; other site 999552004355 G4 box; other site 999552004356 G5 box; other site 999552004357 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 999552004358 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 999552004359 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 999552004360 HD domain; Region: HD_3; pfam13023 999552004361 HD domain; Region: HD_3; pfam13023 999552004362 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 999552004363 Transcriptional regulator; Region: Rrf2; cl17282 999552004364 Rrf2 family protein; Region: rrf2_super; TIGR00738 999552004365 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 999552004366 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 999552004367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552004368 catalytic residue [active] 999552004369 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 999552004370 putative ABC transporter; Region: ycf24; CHL00085 999552004371 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 999552004372 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 999552004373 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 999552004374 Walker A/P-loop; other site 999552004375 ATP binding site [chemical binding]; other site 999552004376 Q-loop/lid; other site 999552004377 ABC transporter signature motif; other site 999552004378 Walker B; other site 999552004379 D-loop; other site 999552004380 H-loop/switch region; other site 999552004381 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 999552004382 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 999552004383 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 999552004384 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 999552004385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552004386 catalytic residue [active] 999552004387 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 999552004388 Zn2+ binding site [ion binding]; other site 999552004389 Mg2+ binding site [ion binding]; other site 999552004390 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 999552004391 Protein of unknown function (DUF971); Region: DUF971; cl01414 999552004392 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 999552004393 substrate binding pocket [chemical binding]; other site 999552004394 active site 999552004395 iron coordination sites [ion binding]; other site 999552004396 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552004397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552004398 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 999552004399 dimerization interface [polypeptide binding]; other site 999552004400 Peptidase M15; Region: Peptidase_M15_3; cl01194 999552004401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 999552004402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 999552004403 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552004404 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 999552004405 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 999552004406 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 999552004407 trimer interface [polypeptide binding]; other site 999552004408 active site 999552004409 UDP-GlcNAc binding site [chemical binding]; other site 999552004410 lipid binding site [chemical binding]; lipid-binding site 999552004411 acyl carrier protein; Provisional; Region: acpP; PRK00982 999552004412 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 999552004413 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 999552004414 dimer interface [polypeptide binding]; other site 999552004415 active site 999552004416 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 999552004417 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 999552004418 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 999552004419 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 999552004420 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 999552004421 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 999552004422 TM-ABC transporter signature motif; other site 999552004423 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 999552004424 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 999552004425 TM-ABC transporter signature motif; other site 999552004426 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 999552004427 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 999552004428 Walker A/P-loop; other site 999552004429 ATP binding site [chemical binding]; other site 999552004430 Q-loop/lid; other site 999552004431 ABC transporter signature motif; other site 999552004432 Walker B; other site 999552004433 D-loop; other site 999552004434 H-loop/switch region; other site 999552004435 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 999552004436 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 999552004437 Walker A/P-loop; other site 999552004438 ATP binding site [chemical binding]; other site 999552004439 Q-loop/lid; other site 999552004440 ABC transporter signature motif; other site 999552004441 Walker B; other site 999552004442 D-loop; other site 999552004443 H-loop/switch region; other site 999552004444 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 999552004445 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 999552004446 putative ligand binding site [chemical binding]; other site 999552004447 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 999552004448 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 999552004449 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552004450 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552004451 conserved cys residue [active] 999552004452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552004453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552004454 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 999552004455 PAS domain; Region: PAS_5; pfam07310 999552004456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 999552004457 hypothetical protein; Provisional; Region: PRK11820 999552004458 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 999552004459 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 999552004460 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 999552004461 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 999552004462 catalytic site [active] 999552004463 G-X2-G-X-G-K; other site 999552004464 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 999552004465 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 999552004466 trimer interface [polypeptide binding]; other site 999552004467 putative metal binding site [ion binding]; other site 999552004468 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 999552004469 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 999552004470 dimer interface [polypeptide binding]; other site 999552004471 phosphorylation site [posttranslational modification] 999552004472 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 999552004473 ATP binding site [chemical binding]; other site 999552004474 Mg2+ binding site [ion binding]; other site 999552004475 G-X-G motif; other site 999552004476 PBP superfamily domain; Region: PBP_like_2; pfam12849 999552004477 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 999552004478 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 999552004479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552004480 dimer interface [polypeptide binding]; other site 999552004481 conserved gate region; other site 999552004482 putative PBP binding loops; other site 999552004483 ABC-ATPase subunit interface; other site 999552004484 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 999552004485 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 999552004486 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552004487 dimer interface [polypeptide binding]; other site 999552004488 conserved gate region; other site 999552004489 putative PBP binding loops; other site 999552004490 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 999552004491 ABC-ATPase subunit interface; other site 999552004492 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 999552004493 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 999552004494 Walker A/P-loop; other site 999552004495 ATP binding site [chemical binding]; other site 999552004496 Q-loop/lid; other site 999552004497 ABC transporter signature motif; other site 999552004498 Walker B; other site 999552004499 D-loop; other site 999552004500 H-loop/switch region; other site 999552004501 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 999552004502 PhoU domain; Region: PhoU; pfam01895 999552004503 PhoU domain; Region: PhoU; pfam01895 999552004504 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 999552004505 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 999552004506 active site 999552004507 phosphorylation site [posttranslational modification] 999552004508 intermolecular recognition site; other site 999552004509 dimerization interface [polypeptide binding]; other site 999552004510 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 999552004511 DNA binding site [nucleotide binding] 999552004512 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552004513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552004514 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 999552004515 dimerization interface [polypeptide binding]; other site 999552004516 substrate binding pocket [chemical binding]; other site 999552004517 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 999552004518 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552004519 FAD binding site [chemical binding]; other site 999552004520 substrate binding pocket [chemical binding]; other site 999552004521 catalytic base [active] 999552004522 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 999552004523 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 999552004524 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 999552004525 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 999552004526 active site 999552004527 HIGH motif; other site 999552004528 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 999552004529 KMSKS motif; other site 999552004530 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 999552004531 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 999552004532 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 999552004533 active site 999552004534 catalytic residues [active] 999552004535 metal binding site [ion binding]; metal-binding site 999552004536 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 999552004537 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 999552004538 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 999552004539 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 999552004540 helix-hairpin-helix signature motif; other site 999552004541 substrate binding pocket [chemical binding]; other site 999552004542 active site 999552004543 Predicted esterase [General function prediction only]; Region: COG0400 999552004544 putative hydrolase; Provisional; Region: PRK11460 999552004545 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 999552004546 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552004547 putative metal binding site [ion binding]; other site 999552004548 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 999552004549 pseudouridine synthase; Region: TIGR00093 999552004550 active site 999552004551 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 999552004552 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 999552004553 active site 999552004554 ornithine cyclodeaminase; Validated; Region: PRK07589 999552004555 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 999552004556 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 999552004557 Amidinotransferase; Region: Amidinotransf; pfam02274 999552004558 Arginase family; Region: Arginase; cd09989 999552004559 active site 999552004560 Mn binding site [ion binding]; other site 999552004561 oligomer interface [polypeptide binding]; other site 999552004562 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552004563 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 999552004564 AsnC family; Region: AsnC_trans_reg; pfam01037 999552004565 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 999552004566 Predicted membrane protein [Function unknown]; Region: COG1238 999552004567 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 999552004568 intersubunit interface [polypeptide binding]; other site 999552004569 active site 999552004570 Zn2+ binding site [ion binding]; other site 999552004571 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 999552004572 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 999552004573 Predicted metalloprotease [General function prediction only]; Region: COG2321 999552004574 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 999552004575 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 999552004576 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 999552004577 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552004578 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552004579 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552004580 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552004581 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 999552004582 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552004583 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 999552004584 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 999552004585 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 999552004586 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552004587 Ligand Binding Site [chemical binding]; other site 999552004588 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 999552004589 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 999552004590 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 999552004591 Walker A/P-loop; other site 999552004592 ATP binding site [chemical binding]; other site 999552004593 Q-loop/lid; other site 999552004594 ABC transporter signature motif; other site 999552004595 Walker B; other site 999552004596 D-loop; other site 999552004597 H-loop/switch region; other site 999552004598 Ion channel; Region: Ion_trans_2; pfam07885 999552004599 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 999552004600 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 999552004601 putative active site [active] 999552004602 catalytic site [active] 999552004603 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 999552004604 putative active site [active] 999552004605 catalytic site [active] 999552004606 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 999552004607 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 999552004608 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 999552004609 S-adenosylmethionine binding site [chemical binding]; other site 999552004610 exopolyphosphatase; Region: exo_poly_only; TIGR03706 999552004611 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 999552004612 Virulence factor; Region: Virulence_fact; pfam13769 999552004613 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; cl00246 999552004614 FAD binding site [chemical binding]; other site 999552004615 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 999552004616 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 999552004617 substrate binding pocket [chemical binding]; other site 999552004618 dimer interface [polypeptide binding]; other site 999552004619 inhibitor binding site; inhibition site 999552004620 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 999552004621 G1 box; other site 999552004622 GTP/Mg2+ binding site [chemical binding]; other site 999552004623 G2 box; other site 999552004624 G3 box; other site 999552004625 Switch II region; other site 999552004626 G4 box; other site 999552004627 Winged helix-turn helix; Region: HTH_29; pfam13551 999552004628 Homeodomain-like domain; Region: HTH_32; pfam13565 999552004629 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 999552004630 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 999552004631 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 999552004632 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 999552004633 putative active site [active] 999552004634 putative NTP binding site [chemical binding]; other site 999552004635 putative nucleic acid binding site [nucleotide binding]; other site 999552004636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 999552004637 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 999552004638 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 999552004639 active site 999552004640 DNA binding site [nucleotide binding] 999552004641 Int/Topo IB signature motif; other site 999552004642 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 999552004643 active site 999552004644 catalytic site [active] 999552004645 substrate binding site [chemical binding]; other site 999552004646 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 999552004647 nudix motif; other site 999552004648 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 999552004649 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 999552004650 active site 999552004651 catalytic residues [active] 999552004652 DNA binding site [nucleotide binding] 999552004653 Int/Topo IB signature motif; other site 999552004654 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 999552004655 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 999552004656 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 999552004657 Uncharacterized conserved protein [Function unknown]; Region: COG3743 999552004658 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 999552004659 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552004660 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 999552004661 GTPase CgtA; Reviewed; Region: obgE; PRK12299 999552004662 GTP1/OBG; Region: GTP1_OBG; pfam01018 999552004663 Obg GTPase; Region: Obg; cd01898 999552004664 G1 box; other site 999552004665 GTP/Mg2+ binding site [chemical binding]; other site 999552004666 Switch I region; other site 999552004667 G2 box; other site 999552004668 G3 box; other site 999552004669 Switch II region; other site 999552004670 G4 box; other site 999552004671 G5 box; other site 999552004672 gamma-glutamyl kinase; Provisional; Region: PRK05429 999552004673 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 999552004674 nucleotide binding site [chemical binding]; other site 999552004675 homotetrameric interface [polypeptide binding]; other site 999552004676 putative phosphate binding site [ion binding]; other site 999552004677 putative allosteric binding site; other site 999552004678 PUA domain; Region: PUA; pfam01472 999552004679 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 999552004680 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 999552004681 putative catalytic cysteine [active] 999552004682 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 999552004683 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 999552004684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 999552004685 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 999552004686 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 999552004687 putative acyl-acceptor binding pocket; other site 999552004688 elongation factor Ts; Provisional; Region: tsf; PRK09377 999552004689 UBA/TS-N domain; Region: UBA; pfam00627 999552004690 Elongation factor TS; Region: EF_TS; pfam00889 999552004691 Elongation factor TS; Region: EF_TS; pfam00889 999552004692 Autoinducer binding domain; Region: Autoind_bind; pfam03472 999552004693 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 999552004694 DNA binding residues [nucleotide binding] 999552004695 dimerization interface [polypeptide binding]; other site 999552004696 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 999552004697 Dehydroquinase class II; Region: DHquinase_II; pfam01220 999552004698 active site 999552004699 trimer interface [polypeptide binding]; other site 999552004700 dimer interface [polypeptide binding]; other site 999552004701 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 999552004702 Beta-lactamase; Region: Beta-lactamase; pfam00144 999552004703 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 999552004704 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 999552004705 active site 999552004706 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 999552004707 catalytic triad [active] 999552004708 dimer interface [polypeptide binding]; other site 999552004709 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 999552004710 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 999552004711 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 999552004712 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 999552004713 active site 999552004714 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 999552004715 TSCPD domain; Region: TSCPD; pfam12637 999552004716 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 999552004717 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552004718 DNA-binding site [nucleotide binding]; DNA binding site 999552004719 RNA-binding motif; other site 999552004720 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552004721 DNA-binding site [nucleotide binding]; DNA binding site 999552004722 RNA-binding motif; other site 999552004723 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 999552004724 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 999552004725 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 999552004726 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 999552004727 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 999552004728 NAD binding site [chemical binding]; other site 999552004729 homotetramer interface [polypeptide binding]; other site 999552004730 homodimer interface [polypeptide binding]; other site 999552004731 substrate binding site [chemical binding]; other site 999552004732 active site 999552004733 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552004734 active site 999552004735 hypothetical protein; Provisional; Region: PRK07550 999552004736 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 999552004737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552004738 homodimer interface [polypeptide binding]; other site 999552004739 catalytic residue [active] 999552004740 SurA N-terminal domain; Region: SurA_N_3; cl07813 999552004741 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 999552004742 anthranilate synthase component I; Provisional; Region: PRK13573 999552004743 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 999552004744 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 999552004745 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 999552004746 putative active site [active] 999552004747 NodB motif; other site 999552004748 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 999552004749 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 999552004750 glutamine binding [chemical binding]; other site 999552004751 catalytic triad [active] 999552004752 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 999552004753 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 999552004754 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 999552004755 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 999552004756 ligand binding site [chemical binding]; other site 999552004757 active site 999552004758 UGI interface [polypeptide binding]; other site 999552004759 catalytic site [active] 999552004760 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 999552004761 active site 999552004762 ribulose/triose binding site [chemical binding]; other site 999552004763 phosphate binding site [ion binding]; other site 999552004764 substrate (anthranilate) binding pocket [chemical binding]; other site 999552004765 product (indole) binding pocket [chemical binding]; other site 999552004766 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 999552004767 trimer interface [polypeptide binding]; other site 999552004768 dimer interface [polypeptide binding]; other site 999552004769 putative active site [active] 999552004770 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 999552004771 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 999552004772 dimer interface [polypeptide binding]; other site 999552004773 putative functional site; other site 999552004774 putative MPT binding site; other site 999552004775 LexA repressor; Validated; Region: PRK00215 999552004776 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 999552004777 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 999552004778 Catalytic site [active] 999552004779 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 999552004780 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 999552004781 Competence protein; Region: Competence; pfam03772 999552004782 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 999552004783 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 999552004784 HIGH motif; other site 999552004785 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 999552004786 active site 999552004787 KMSKS motif; other site 999552004788 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 999552004789 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 999552004790 dimer interface [polypeptide binding]; other site 999552004791 active site 999552004792 citrylCoA binding site [chemical binding]; other site 999552004793 NADH binding [chemical binding]; other site 999552004794 cationic pore residues; other site 999552004795 oxalacetate/citrate binding site [chemical binding]; other site 999552004796 coenzyme A binding site [chemical binding]; other site 999552004797 catalytic triad [active] 999552004798 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 999552004799 enoyl-CoA hydratase; Provisional; Region: PRK08140 999552004800 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552004801 substrate binding site [chemical binding]; other site 999552004802 oxyanion hole (OAH) forming residues; other site 999552004803 trimer interface [polypeptide binding]; other site 999552004804 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 999552004805 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 999552004806 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 999552004807 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 999552004808 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 999552004809 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 999552004810 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 999552004811 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 999552004812 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 999552004813 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 999552004814 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 999552004815 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 999552004816 dimer interface [polypeptide binding]; other site 999552004817 PYR/PP interface [polypeptide binding]; other site 999552004818 TPP binding site [chemical binding]; other site 999552004819 substrate binding site [chemical binding]; other site 999552004820 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 999552004821 TPP-binding site [chemical binding]; other site 999552004822 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 999552004823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552004824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552004825 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552004826 putative effector binding pocket; other site 999552004827 dimerization interface [polypeptide binding]; other site 999552004828 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 999552004829 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 999552004830 dimerization interface [polypeptide binding]; other site 999552004831 ATP binding site [chemical binding]; other site 999552004832 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 999552004833 dimerization interface [polypeptide binding]; other site 999552004834 ATP binding site [chemical binding]; other site 999552004835 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 999552004836 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 999552004837 putative GSH binding site [chemical binding]; other site 999552004838 catalytic residues [active] 999552004839 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 999552004840 Cell division protein ZapA; Region: ZapA; pfam05164 999552004841 hypothetical protein; Provisional; Region: PRK11281 999552004842 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 999552004843 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 999552004844 TPP-binding site [chemical binding]; other site 999552004845 dimer interface [polypeptide binding]; other site 999552004846 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 999552004847 PYR/PP interface [polypeptide binding]; other site 999552004848 dimer interface [polypeptide binding]; other site 999552004849 TPP binding site [chemical binding]; other site 999552004850 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 999552004851 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 999552004852 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 999552004853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 999552004854 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 999552004855 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 999552004856 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 999552004857 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 999552004858 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 999552004859 active site 999552004860 (T/H)XGH motif; other site 999552004861 FOG: CBS domain [General function prediction only]; Region: COG0517 999552004862 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 999552004863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552004864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552004865 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 999552004866 dimerization interface [polypeptide binding]; other site 999552004867 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 999552004868 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 999552004869 tetrameric interface [polypeptide binding]; other site 999552004870 NAD binding site [chemical binding]; other site 999552004871 catalytic residues [active] 999552004872 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 999552004873 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 999552004874 putative di-iron ligands [ion binding]; other site 999552004875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 999552004876 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 999552004877 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 999552004878 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 999552004879 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552004880 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552004881 active site 999552004882 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 999552004883 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552004884 substrate binding site [chemical binding]; other site 999552004885 oxyanion hole (OAH) forming residues; other site 999552004886 trimer interface [polypeptide binding]; other site 999552004887 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 999552004888 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 999552004889 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 999552004890 Hint domain; Region: Hint_2; pfam13403 999552004891 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 999552004892 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 999552004893 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 999552004894 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 999552004895 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552004896 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 999552004897 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 999552004898 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552004899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552004900 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552004901 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 999552004902 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 999552004903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552004904 putative substrate translocation pore; other site 999552004905 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 999552004906 Protein of unknown function; Region: DUF3971; pfam13116 999552004907 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 999552004908 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 999552004909 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 999552004910 catalytic triad [active] 999552004911 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 999552004912 dinuclear metal binding motif [ion binding]; other site 999552004913 Mrr N-terminal domain; Region: Mrr_N; pfam14338 999552004914 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 999552004915 Peptidase family M23; Region: Peptidase_M23; pfam01551 999552004916 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 999552004917 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 999552004918 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 999552004919 active site 999552004920 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 999552004921 active site 999552004922 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 999552004923 Phosphoglycerate kinase; Region: PGK; pfam00162 999552004924 substrate binding site [chemical binding]; other site 999552004925 hinge regions; other site 999552004926 ADP binding site [chemical binding]; other site 999552004927 catalytic site [active] 999552004928 Septum formation initiator; Region: DivIC; cl17659 999552004929 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 999552004930 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 999552004931 tetramer interface [polypeptide binding]; other site 999552004932 TPP-binding site [chemical binding]; other site 999552004933 heterodimer interface [polypeptide binding]; other site 999552004934 phosphorylation loop region [posttranslational modification] 999552004935 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 999552004936 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 999552004937 E3 interaction surface; other site 999552004938 lipoyl attachment site [posttranslational modification]; other site 999552004939 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 999552004940 alpha subunit interface [polypeptide binding]; other site 999552004941 TPP binding site [chemical binding]; other site 999552004942 heterodimer interface [polypeptide binding]; other site 999552004943 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 999552004944 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 999552004945 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 999552004946 E3 interaction surface; other site 999552004947 lipoyl attachment site [posttranslational modification]; other site 999552004948 e3 binding domain; Region: E3_binding; pfam02817 999552004949 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 999552004950 serine acetyltransferase; Provisional; Region: cysE; PRK11132 999552004951 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 999552004952 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 999552004953 trimer interface [polypeptide binding]; other site 999552004954 active site 999552004955 substrate binding site [chemical binding]; other site 999552004956 CoA binding site [chemical binding]; other site 999552004957 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 999552004958 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 999552004959 Putative phage tail protein; Region: Phage-tail_3; pfam13550 999552004960 NlpC/P60 family; Region: NLPC_P60; cl17555 999552004961 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 999552004962 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 999552004963 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 999552004964 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 999552004965 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 999552004966 Phage-related minor tail protein [Function unknown]; Region: COG5281 999552004967 phage conserved hypothetical protein; Region: phage_TIGR02216 999552004968 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 999552004969 Phage major tail protein 2; Region: Phage_tail_2; cl11463 999552004970 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 999552004971 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 999552004972 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 999552004973 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 999552004974 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 999552004975 oligomerization interface [polypeptide binding]; other site 999552004976 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 999552004977 Phage capsid family; Region: Phage_capsid; pfam05065 999552004978 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 999552004979 Phage-related protein [Function unknown]; Region: COG4695 999552004980 Phage portal protein; Region: Phage_portal; pfam04860 999552004981 Uncharacterized conserved protein [Function unknown]; Region: COG5323 999552004982 Terminase-like family; Region: Terminase_6; pfam03237 999552004983 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 999552004984 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 999552004985 active site 999552004986 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 999552004987 DNA binding residues [nucleotide binding] 999552004988 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 999552004989 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 999552004990 HSP70 interaction site [polypeptide binding]; other site 999552004991 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 999552004992 substrate binding site [polypeptide binding]; other site 999552004993 dimer interface [polypeptide binding]; other site 999552004994 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 999552004995 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 999552004996 putative dimer interface [polypeptide binding]; other site 999552004997 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 999552004998 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 999552004999 putative dimer interface [polypeptide binding]; other site 999552005000 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 999552005001 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 999552005002 putative dimer interface [polypeptide binding]; other site 999552005003 YceG-like family; Region: YceG; pfam02618 999552005004 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 999552005005 dimerization interface [polypeptide binding]; other site 999552005006 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 999552005007 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 999552005008 dimer interface [polypeptide binding]; other site 999552005009 active site 999552005010 PilZ domain; Region: PilZ; pfam07238 999552005011 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 999552005012 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 999552005013 catalytic residues [active] 999552005014 acyl carrier protein; Provisional; Region: acpP; PRK00982 999552005015 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 999552005016 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 999552005017 NAD(P) binding site [chemical binding]; other site 999552005018 homotetramer interface [polypeptide binding]; other site 999552005019 homodimer interface [polypeptide binding]; other site 999552005020 active site 999552005021 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 999552005022 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 999552005023 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 999552005024 YceI-like domain; Region: YceI; smart00867 999552005025 Uncharacterized conserved protein [Function unknown]; Region: COG2353 999552005026 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 999552005027 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 999552005028 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 999552005029 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 999552005030 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 999552005031 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 999552005032 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 999552005033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552005034 catalytic residue [active] 999552005035 trigger factor; Provisional; Region: tig; PRK01490 999552005036 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 999552005037 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 999552005038 Gram-negative porin; Region: Porin_4; pfam13609 999552005039 SnoaL-like domain; Region: SnoaL_2; pfam12680 999552005040 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552005041 Ligand Binding Site [chemical binding]; other site 999552005042 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 999552005043 ATP-grasp domain; Region: ATP-grasp_4; cl17255 999552005044 Predicted deacylase [General function prediction only]; Region: COG3608 999552005045 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 999552005046 putative active site [active] 999552005047 Zn binding site [ion binding]; other site 999552005048 Protein of unknown function (DUF330); Region: DUF330; cl01135 999552005049 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 999552005050 mce related protein; Region: MCE; pfam02470 999552005051 mce related protein; Region: MCE; pfam02470 999552005052 mce related protein; Region: MCE; pfam02470 999552005053 Paraquat-inducible protein A; Region: PqiA; pfam04403 999552005054 Ribosomal protein S27; Region: Ribosomal_S27e; cl00897 999552005055 Paraquat-inducible protein A; Region: PqiA; pfam04403 999552005056 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 999552005057 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 999552005058 ligand binding site [chemical binding]; other site 999552005059 flexible hinge region; other site 999552005060 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 999552005061 putative switch regulator; other site 999552005062 non-specific DNA interactions [nucleotide binding]; other site 999552005063 DNA binding site [nucleotide binding] 999552005064 sequence specific DNA binding site [nucleotide binding]; other site 999552005065 putative cAMP binding site [chemical binding]; other site 999552005066 transcriptional regulator HdfR; Provisional; Region: PRK03601 999552005067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552005068 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552005069 dimerization interface [polypeptide binding]; other site 999552005070 Protein of unknown function, DUF481; Region: DUF481; pfam04338 999552005071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 999552005072 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 999552005073 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 999552005074 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 999552005075 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 999552005076 active site 999552005077 dimer interface [polypeptide binding]; other site 999552005078 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 999552005079 dimer interface [polypeptide binding]; other site 999552005080 active site 999552005081 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 999552005082 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 999552005083 putative active site [active] 999552005084 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 999552005085 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 999552005086 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 999552005087 Radical SAM superfamily; Region: Radical_SAM; pfam04055 999552005088 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 999552005089 FeS/SAM binding site; other site 999552005090 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 999552005091 Usg-like family; Region: Usg; pfam06233 999552005092 DNA gyrase subunit A; Validated; Region: PRK05560 999552005093 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 999552005094 CAP-like domain; other site 999552005095 active site 999552005096 primary dimer interface [polypeptide binding]; other site 999552005097 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 999552005098 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 999552005099 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 999552005100 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 999552005101 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 999552005102 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 999552005103 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 999552005104 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 999552005105 active site 999552005106 Zn binding site [ion binding]; other site 999552005107 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 999552005108 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 999552005109 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 999552005110 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 999552005111 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 999552005112 thiamine phosphate binding site [chemical binding]; other site 999552005113 active site 999552005114 pyrophosphate binding site [ion binding]; other site 999552005115 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 999552005116 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 999552005117 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 999552005118 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 999552005119 substrate binding site [chemical binding]; other site 999552005120 ATP binding site [chemical binding]; other site 999552005121 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 999552005122 Uncharacterized conserved protein [Function unknown]; Region: COG2928 999552005123 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 999552005124 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 999552005125 active site 999552005126 nucleophile elbow; other site 999552005127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552005128 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 999552005129 NAD(P) binding site [chemical binding]; other site 999552005130 active site 999552005131 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 999552005132 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 999552005133 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 999552005134 dimerization interface [polypeptide binding]; other site 999552005135 putative DNA binding site [nucleotide binding]; other site 999552005136 putative Zn2+ binding site [ion binding]; other site 999552005137 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 999552005138 Low molecular weight phosphatase family; Region: LMWPc; cd00115 999552005139 active site 999552005140 Low molecular weight phosphatase family; Region: LMWPc; cd00115 999552005141 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 999552005142 active site 999552005143 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 999552005144 amphipathic channel; other site 999552005145 Asn-Pro-Ala signature motifs; other site 999552005146 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552005147 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 999552005148 non-specific DNA binding site [nucleotide binding]; other site 999552005149 salt bridge; other site 999552005150 sequence-specific DNA binding site [nucleotide binding]; other site 999552005151 Cupin domain; Region: Cupin_2; pfam07883 999552005152 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 999552005153 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552005154 acyl-activating enzyme (AAE) consensus motif; other site 999552005155 AMP binding site [chemical binding]; other site 999552005156 active site 999552005157 CoA binding site [chemical binding]; other site 999552005158 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 999552005159 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 999552005160 catalytic residues [active] 999552005161 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 999552005162 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 999552005163 putative substrate translocation pore; other site 999552005164 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 999552005165 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 999552005166 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 999552005167 ATP binding site [chemical binding]; other site 999552005168 putative Mg++ binding site [ion binding]; other site 999552005169 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 999552005170 nucleotide binding region [chemical binding]; other site 999552005171 ATP-binding site [chemical binding]; other site 999552005172 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 999552005173 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 999552005174 dimer interface [polypeptide binding]; other site 999552005175 allosteric magnesium binding site [ion binding]; other site 999552005176 active site 999552005177 aspartate-rich active site metal binding site; other site 999552005178 Schiff base residues; other site 999552005179 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 999552005180 putative amphipathic alpha helix; other site 999552005181 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 999552005182 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 999552005183 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 999552005184 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 999552005185 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 999552005186 active site 999552005187 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 999552005188 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 999552005189 HflX GTPase family; Region: HflX; cd01878 999552005190 G1 box; other site 999552005191 GTP/Mg2+ binding site [chemical binding]; other site 999552005192 Switch I region; other site 999552005193 G2 box; other site 999552005194 G3 box; other site 999552005195 Switch II region; other site 999552005196 G4 box; other site 999552005197 G5 box; other site 999552005198 bacterial Hfq-like; Region: Hfq; cd01716 999552005199 hexamer interface [polypeptide binding]; other site 999552005200 Sm1 motif; other site 999552005201 RNA binding site [nucleotide binding]; other site 999552005202 Sm2 motif; other site 999552005203 Cation transport protein; Region: TrkH; cl17365 999552005204 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 999552005205 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 999552005206 TrkA-N domain; Region: TrkA_N; pfam02254 999552005207 TrkA-C domain; Region: TrkA_C; pfam02080 999552005208 TrkA-N domain; Region: TrkA_N; pfam02254 999552005209 TrkA-C domain; Region: TrkA_C; pfam02080 999552005210 Caspase domain; Region: Peptidase_C14; pfam00656 999552005211 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552005212 TPR repeat; Region: TPR_11; pfam13414 999552005213 TPR motif; other site 999552005214 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 999552005215 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 999552005216 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 999552005217 active site 999552005218 phosphorylation site [posttranslational modification] 999552005219 intermolecular recognition site; other site 999552005220 dimerization interface [polypeptide binding]; other site 999552005221 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 999552005222 Walker A motif; other site 999552005223 ATP binding site [chemical binding]; other site 999552005224 Walker B motif; other site 999552005225 arginine finger; other site 999552005226 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 999552005227 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 999552005228 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 999552005229 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 999552005230 dimerization interface [polypeptide binding]; other site 999552005231 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 999552005232 putative active site [active] 999552005233 heme pocket [chemical binding]; other site 999552005234 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 999552005235 dimer interface [polypeptide binding]; other site 999552005236 phosphorylation site [posttranslational modification] 999552005237 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 999552005238 ATP binding site [chemical binding]; other site 999552005239 Mg2+ binding site [ion binding]; other site 999552005240 G-X-G motif; other site 999552005241 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 999552005242 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 999552005243 active site 999552005244 phosphorylation site [posttranslational modification] 999552005245 intermolecular recognition site; other site 999552005246 dimerization interface [polypeptide binding]; other site 999552005247 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 999552005248 Walker A motif; other site 999552005249 ATP binding site [chemical binding]; other site 999552005250 Walker B motif; other site 999552005251 arginine finger; other site 999552005252 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 999552005253 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 999552005254 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 999552005255 dimer interface [polypeptide binding]; other site 999552005256 phosphorylation site [posttranslational modification] 999552005257 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 999552005258 ATP binding site [chemical binding]; other site 999552005259 G-X-G motif; other site 999552005260 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 999552005261 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 999552005262 FMN binding site [chemical binding]; other site 999552005263 active site 999552005264 catalytic residues [active] 999552005265 substrate binding site [chemical binding]; other site 999552005266 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 999552005267 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 999552005268 substrate binding site; other site 999552005269 dimer interface; other site 999552005270 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 999552005271 homotrimer interaction site [polypeptide binding]; other site 999552005272 zinc binding site [ion binding]; other site 999552005273 CDP-binding sites; other site 999552005274 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 999552005275 tetramer interfaces [polypeptide binding]; other site 999552005276 binuclear metal-binding site [ion binding]; other site 999552005277 Competence-damaged protein; Region: CinA; pfam02464 999552005278 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 999552005279 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 999552005280 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 999552005281 putative coenzyme Q binding site [chemical binding]; other site 999552005282 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 999552005283 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552005284 active site 999552005285 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 999552005286 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 999552005287 metal binding site [ion binding]; metal-binding site 999552005288 putative dimer interface [polypeptide binding]; other site 999552005289 lipoyl synthase; Provisional; Region: PRK05481 999552005290 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 999552005291 FeS/SAM binding site; other site 999552005292 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 999552005293 catalytic triad [active] 999552005294 dimer interface [polypeptide binding]; other site 999552005295 Helix-turn-helix domain; Region: HTH_38; pfam13936 999552005296 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552005297 GMP synthase; Reviewed; Region: guaA; PRK00074 999552005298 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 999552005299 AMP/PPi binding site [chemical binding]; other site 999552005300 candidate oxyanion hole; other site 999552005301 catalytic triad [active] 999552005302 potential glutamine specificity residues [chemical binding]; other site 999552005303 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 999552005304 ATP Binding subdomain [chemical binding]; other site 999552005305 Ligand Binding sites [chemical binding]; other site 999552005306 Dimerization subdomain; other site 999552005307 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552005308 EamA-like transporter family; Region: EamA; pfam00892 999552005309 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 999552005310 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552005311 EamA-like transporter family; Region: EamA; pfam00892 999552005312 Homoserine O-succinyltransferase; Region: HTS; pfam04204 999552005313 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 999552005314 proposed active site lysine [active] 999552005315 conserved cys residue [active] 999552005316 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552005317 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 999552005318 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 999552005319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552005320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552005321 WHG domain; Region: WHG; pfam13305 999552005322 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 999552005323 cyclase homology domain; Region: CHD; cd07302 999552005324 nucleotidyl binding site; other site 999552005325 metal binding site [ion binding]; metal-binding site 999552005326 dimer interface [polypeptide binding]; other site 999552005327 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 999552005328 heme-binding site [chemical binding]; other site 999552005329 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 999552005330 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 999552005331 23S rRNA interface [nucleotide binding]; other site 999552005332 L3 interface [polypeptide binding]; other site 999552005333 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 999552005334 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552005335 DNA-binding site [nucleotide binding]; DNA binding site 999552005336 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 999552005337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552005338 homodimer interface [polypeptide binding]; other site 999552005339 catalytic residue [active] 999552005340 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 999552005341 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 999552005342 spermidine synthase; Provisional; Region: PRK00811 999552005343 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 999552005344 S-adenosylmethionine binding site [chemical binding]; other site 999552005345 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 999552005346 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 999552005347 CoenzymeA binding site [chemical binding]; other site 999552005348 subunit interaction site [polypeptide binding]; other site 999552005349 PHB binding site; other site 999552005350 enoyl-CoA hydratase; Validated; Region: PRK08139 999552005351 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552005352 substrate binding site [chemical binding]; other site 999552005353 oxyanion hole (OAH) forming residues; other site 999552005354 trimer interface [polypeptide binding]; other site 999552005355 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 999552005356 Glucose inhibited division protein A; Region: GIDA; pfam01134 999552005357 Methyltransferase domain; Region: Methyltransf_31; pfam13847 999552005358 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 999552005359 S-adenosylmethionine binding site [chemical binding]; other site 999552005360 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 999552005361 active site 999552005362 HIGH motif; other site 999552005363 nucleotide binding site [chemical binding]; other site 999552005364 active site 999552005365 KMSKS motif; other site 999552005366 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 999552005367 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 999552005368 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 999552005369 trimerization site [polypeptide binding]; other site 999552005370 active site 999552005371 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 999552005372 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 999552005373 generic binding surface II; other site 999552005374 ssDNA binding site; other site 999552005375 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 999552005376 ATP binding site [chemical binding]; other site 999552005377 putative Mg++ binding site [ion binding]; other site 999552005378 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 999552005379 nucleotide binding region [chemical binding]; other site 999552005380 ATP-binding site [chemical binding]; other site 999552005381 Ligase N family; Region: LIGANc; smart00532 999552005382 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 999552005383 nucleotide binding pocket [chemical binding]; other site 999552005384 K-X-D-G motif; other site 999552005385 catalytic site [active] 999552005386 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 999552005387 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 999552005388 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552005389 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 999552005390 active site 999552005391 phosphorylation site [posttranslational modification] 999552005392 intermolecular recognition site; other site 999552005393 dimerization interface [polypeptide binding]; other site 999552005394 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 999552005395 DNA binding site [nucleotide binding] 999552005396 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 999552005397 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 999552005398 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 999552005399 Ligand Binding Site [chemical binding]; other site 999552005400 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 999552005401 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 999552005402 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 999552005403 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 999552005404 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 999552005405 active site 999552005406 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 999552005407 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 999552005408 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 999552005409 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 999552005410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 999552005411 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 999552005412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 999552005413 Surface antigen; Region: Bac_surface_Ag; pfam01103 999552005414 RIP metalloprotease RseP; Region: TIGR00054 999552005415 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 999552005416 active site 999552005417 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 999552005418 protein binding site [polypeptide binding]; other site 999552005419 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 999552005420 protein binding site [polypeptide binding]; other site 999552005421 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 999552005422 putative substrate binding region [chemical binding]; other site 999552005423 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 999552005424 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 999552005425 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 999552005426 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 999552005427 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 999552005428 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 999552005429 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 999552005430 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 999552005431 catalytic residue [active] 999552005432 putative FPP diphosphate binding site; other site 999552005433 putative FPP binding hydrophobic cleft; other site 999552005434 dimer interface [polypeptide binding]; other site 999552005435 putative IPP diphosphate binding site; other site 999552005436 ribosome recycling factor; Reviewed; Region: frr; PRK00083 999552005437 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 999552005438 hinge region; other site 999552005439 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 999552005440 putative nucleotide binding site [chemical binding]; other site 999552005441 uridine monophosphate binding site [chemical binding]; other site 999552005442 homohexameric interface [polypeptide binding]; other site 999552005443 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 999552005444 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 999552005445 Helix-turn-helix domain; Region: HTH_18; pfam12833 999552005446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552005447 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552005448 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 999552005449 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552005450 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552005451 dimer interface [polypeptide binding]; other site 999552005452 conserved gate region; other site 999552005453 putative PBP binding loops; other site 999552005454 ABC-ATPase subunit interface; other site 999552005455 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552005456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552005457 conserved gate region; other site 999552005458 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 999552005459 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552005460 Walker A/P-loop; other site 999552005461 ATP binding site [chemical binding]; other site 999552005462 Q-loop/lid; other site 999552005463 ABC transporter signature motif; other site 999552005464 Walker B; other site 999552005465 D-loop; other site 999552005466 H-loop/switch region; other site 999552005467 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552005468 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552005469 Walker A/P-loop; other site 999552005470 ATP binding site [chemical binding]; other site 999552005471 Q-loop/lid; other site 999552005472 ABC transporter signature motif; other site 999552005473 Walker B; other site 999552005474 D-loop; other site 999552005475 H-loop/switch region; other site 999552005476 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552005477 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 999552005478 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 999552005479 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552005480 catalytic residue [active] 999552005481 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 999552005482 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 999552005483 dimer interface [polypeptide binding]; other site 999552005484 ssDNA binding site [nucleotide binding]; other site 999552005485 tetramer (dimer of dimers) interface [polypeptide binding]; other site 999552005486 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 999552005487 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 999552005488 active site 999552005489 dimer interface [polypeptide binding]; other site 999552005490 metal binding site [ion binding]; metal-binding site 999552005491 shikimate kinase; Provisional; Region: PRK13946 999552005492 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 999552005493 ADP binding site [chemical binding]; other site 999552005494 magnesium binding site [ion binding]; other site 999552005495 putative shikimate binding site; other site 999552005496 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 999552005497 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 999552005498 active site 999552005499 DNA binding site [nucleotide binding] 999552005500 Int/Topo IB signature motif; other site 999552005501 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 999552005502 Domain of unknown function DUF21; Region: DUF21; pfam01595 999552005503 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 999552005504 Transporter associated domain; Region: CorC_HlyC; smart01091 999552005505 folate/biopterin transporter; Region: fbt; TIGR00788 999552005506 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552005507 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552005508 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552005509 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552005510 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552005511 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552005512 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 999552005513 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 999552005514 metal-binding site 999552005515 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 999552005516 Hint domain; Region: Hint_2; pfam13403 999552005517 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 999552005518 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 999552005519 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 999552005520 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 999552005521 Mechanosensitive ion channel; Region: MS_channel; pfam00924 999552005522 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 999552005523 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 999552005524 dimer interface [polypeptide binding]; other site 999552005525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552005526 catalytic residue [active] 999552005527 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 999552005528 putative active site pocket [active] 999552005529 dimerization interface [polypeptide binding]; other site 999552005530 putative catalytic residue [active] 999552005531 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 999552005532 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 999552005533 dimer interface [polypeptide binding]; other site 999552005534 ADP-ribose binding site [chemical binding]; other site 999552005535 active site 999552005536 nudix motif; other site 999552005537 metal binding site [ion binding]; metal-binding site 999552005538 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 999552005539 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 999552005540 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 999552005541 S-adenosylmethionine binding site [chemical binding]; other site 999552005542 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 999552005543 DNA photolyase; Region: DNA_photolyase; pfam00875 999552005544 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 999552005545 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 999552005546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552005547 catalytic residue [active] 999552005548 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 999552005549 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552005550 BCCT family transporter; Region: BCCT; pfam02028 999552005551 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 999552005552 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 999552005553 NADP binding site [chemical binding]; other site 999552005554 dimer interface [polypeptide binding]; other site 999552005555 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 999552005556 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552005557 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552005558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552005559 DNA-binding site [nucleotide binding]; DNA binding site 999552005560 FCD domain; Region: FCD; pfam07729 999552005561 SnoaL-like domain; Region: SnoaL_2; pfam12680 999552005562 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 999552005563 active site residue [active] 999552005564 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 999552005565 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 999552005566 Chromate transporter; Region: Chromate_transp; pfam02417 999552005567 Stringent starvation protein B; Region: SspB; pfam04386 999552005568 fumarate hydratase; Reviewed; Region: fumC; PRK00485 999552005569 Class II fumarases; Region: Fumarase_classII; cd01362 999552005570 active site 999552005571 tetramer interface [polypeptide binding]; other site 999552005572 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 999552005573 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 999552005574 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 999552005575 Cytochrome P450; Region: p450; cl12078 999552005576 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 999552005577 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 999552005578 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 999552005579 CPxP motif; other site 999552005580 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 999552005581 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 999552005582 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 999552005583 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 999552005584 active site 999552005585 phosphorylation site [posttranslational modification] 999552005586 intermolecular recognition site; other site 999552005587 dimerization interface [polypeptide binding]; other site 999552005588 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 999552005589 Walker A motif; other site 999552005590 ATP binding site [chemical binding]; other site 999552005591 Walker B motif; other site 999552005592 arginine finger; other site 999552005593 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 999552005594 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 999552005595 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 999552005596 dimer interface [polypeptide binding]; other site 999552005597 phosphorylation site [posttranslational modification] 999552005598 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 999552005599 ATP binding site [chemical binding]; other site 999552005600 Mg2+ binding site [ion binding]; other site 999552005601 G-X-G motif; other site 999552005602 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 999552005603 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 999552005604 putative active site [active] 999552005605 catalytic triad [active] 999552005606 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 999552005607 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 999552005608 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 999552005609 ATP binding site [chemical binding]; other site 999552005610 active site 999552005611 substrate binding site [chemical binding]; other site 999552005612 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 999552005613 methionine synthase I; Validated; Region: PRK07534 999552005614 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 999552005615 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 999552005616 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 999552005617 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 999552005618 FeS/SAM binding site; other site 999552005619 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 999552005620 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 999552005621 B12 binding site [chemical binding]; other site 999552005622 cobalt ligand [ion binding]; other site 999552005623 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 999552005624 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 999552005625 ribonuclease D; Region: rnd; TIGR01388 999552005626 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 999552005627 catalytic site [active] 999552005628 putative active site [active] 999552005629 putative substrate binding site [chemical binding]; other site 999552005630 HRDC domain; Region: HRDC; pfam00570 999552005631 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 999552005632 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 999552005633 active site 999552005634 substrate binding site [chemical binding]; other site 999552005635 cosubstrate binding site; other site 999552005636 catalytic site [active] 999552005637 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 999552005638 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 999552005639 dimerization interface [polypeptide binding]; other site 999552005640 putative ATP binding site [chemical binding]; other site 999552005641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552005642 HAMP domain; Region: HAMP; pfam00672 999552005643 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 999552005644 dimer interface [polypeptide binding]; other site 999552005645 phosphorylation site [posttranslational modification] 999552005646 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 999552005647 ATP binding site [chemical binding]; other site 999552005648 Mg2+ binding site [ion binding]; other site 999552005649 G-X-G motif; other site 999552005650 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 999552005651 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 999552005652 Cytochrome P450; Region: p450; cl12078 999552005653 TfoX C-terminal domain; Region: TfoX_C; pfam04994 999552005654 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 999552005655 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 999552005656 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 999552005657 active site 999552005658 multimer interface [polypeptide binding]; other site 999552005659 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 999552005660 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 999552005661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 999552005662 ABC transporter; Region: ABC_tran_2; pfam12848 999552005663 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 999552005664 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 999552005665 Predicted aspartyl protease [General function prediction only]; Region: COG3577 999552005666 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 999552005667 catalytic motif [active] 999552005668 Catalytic residue [active] 999552005669 CHAP domain; Region: CHAP; cl17642 999552005670 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 999552005671 multifunctional aminopeptidase A; Provisional; Region: PRK00913 999552005672 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 999552005673 interface (dimer of trimers) [polypeptide binding]; other site 999552005674 Substrate-binding/catalytic site; other site 999552005675 Zn-binding sites [ion binding]; other site 999552005676 Predicted permeases [General function prediction only]; Region: COG0795 999552005677 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 999552005678 Predicted permeases [General function prediction only]; Region: COG0795 999552005679 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 999552005680 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 999552005681 OstA-like protein; Region: OstA; cl00844 999552005682 Organic solvent tolerance protein; Region: OstA_C; pfam04453 999552005683 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 999552005684 SurA N-terminal domain; Region: SurA_N; pfam09312 999552005685 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 999552005686 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 999552005687 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 999552005688 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 999552005689 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 999552005690 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cl00541 999552005691 active site 999552005692 hydrophilic channel; other site 999552005693 dimerization interface [polypeptide binding]; other site 999552005694 catalytic residues [active] 999552005695 active site lid [active] 999552005696 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 999552005697 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 999552005698 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 999552005699 S-adenosylmethionine binding site [chemical binding]; other site 999552005700 peptide chain release factor 1; Validated; Region: prfA; PRK00591 999552005701 This domain is found in peptide chain release factors; Region: PCRF; smart00937 999552005702 RF-1 domain; Region: RF-1; pfam00472 999552005703 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 999552005704 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 999552005705 agmatinase; Region: agmatinase; TIGR01230 999552005706 oligomer interface [polypeptide binding]; other site 999552005707 putative active site [active] 999552005708 Mn binding site [ion binding]; other site 999552005709 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 999552005710 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 999552005711 metal binding site [ion binding]; metal-binding site 999552005712 putative dimer interface [polypeptide binding]; other site 999552005713 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 999552005714 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 999552005715 homodimer interface [polypeptide binding]; other site 999552005716 metal binding site [ion binding]; metal-binding site 999552005717 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 999552005718 homodimer interface [polypeptide binding]; other site 999552005719 active site 999552005720 putative chemical substrate binding site [chemical binding]; other site 999552005721 metal binding site [ion binding]; metal-binding site 999552005722 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 999552005723 active site 999552005724 tetramer interface [polypeptide binding]; other site 999552005725 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552005726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552005727 Coenzyme A binding pocket [chemical binding]; other site 999552005728 enolase; Provisional; Region: eno; PRK00077 999552005729 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 999552005730 dimer interface [polypeptide binding]; other site 999552005731 metal binding site [ion binding]; metal-binding site 999552005732 substrate binding pocket [chemical binding]; other site 999552005733 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 999552005734 metal binding site 2 [ion binding]; metal-binding site 999552005735 putative DNA binding helix; other site 999552005736 metal binding site 1 [ion binding]; metal-binding site 999552005737 dimer interface [polypeptide binding]; other site 999552005738 structural Zn2+ binding site [ion binding]; other site 999552005739 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 999552005740 DEAD-like helicases superfamily; Region: DEXDc; smart00487 999552005741 ATP binding site [chemical binding]; other site 999552005742 Mg++ binding site [ion binding]; other site 999552005743 motif III; other site 999552005744 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 999552005745 nucleotide binding region [chemical binding]; other site 999552005746 ATP-binding site [chemical binding]; other site 999552005747 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 999552005748 putative catalytic site [active] 999552005749 putative metal binding site [ion binding]; other site 999552005750 putative phosphate binding site [ion binding]; other site 999552005751 hypothetical protein; Validated; Region: PRK00029 999552005752 Uncharacterized conserved protein [Function unknown]; Region: COG0397 999552005753 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 999552005754 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 999552005755 Fatty acid desaturase; Region: FA_desaturase; pfam00487 999552005756 putative di-iron ligands [ion binding]; other site 999552005757 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 999552005758 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 999552005759 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 999552005760 active site 999552005761 HIGH motif; other site 999552005762 dimer interface [polypeptide binding]; other site 999552005763 KMSKS motif; other site 999552005764 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 999552005765 RNA binding surface [nucleotide binding]; other site 999552005766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552005767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552005768 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552005769 putative effector binding pocket; other site 999552005770 dimerization interface [polypeptide binding]; other site 999552005771 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 999552005772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552005773 Coenzyme A binding pocket [chemical binding]; other site 999552005774 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 999552005775 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 999552005776 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 999552005777 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 999552005778 dimerization interface [polypeptide binding]; other site 999552005779 putative DNA binding site [nucleotide binding]; other site 999552005780 putative Zn2+ binding site [ion binding]; other site 999552005781 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 999552005782 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 999552005783 NAD binding site [chemical binding]; other site 999552005784 homodimer interface [polypeptide binding]; other site 999552005785 homotetramer interface [polypeptide binding]; other site 999552005786 active site 999552005787 maltose O-acetyltransferase; Provisional; Region: PRK10092 999552005788 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 999552005789 active site 999552005790 substrate binding site [chemical binding]; other site 999552005791 trimer interface [polypeptide binding]; other site 999552005792 CoA binding site [chemical binding]; other site 999552005793 ABC transporter ATPase component; Reviewed; Region: PRK11147 999552005794 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 999552005795 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 999552005796 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 999552005797 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 999552005798 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 999552005799 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 999552005800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 999552005801 putative phosphate acyltransferase; Provisional; Region: PRK05331 999552005802 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 999552005803 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 999552005804 dimer interface [polypeptide binding]; other site 999552005805 active site 999552005806 CoA binding pocket [chemical binding]; other site 999552005807 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 999552005808 IHF dimer interface [polypeptide binding]; other site 999552005809 IHF - DNA interface [nucleotide binding]; other site 999552005810 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 999552005811 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 999552005812 DNA binding residues [nucleotide binding] 999552005813 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 999552005814 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 999552005815 trimer interface [polypeptide binding]; other site 999552005816 active site 999552005817 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 999552005818 trimer interface [polypeptide binding]; other site 999552005819 active site 999552005820 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 999552005821 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 999552005822 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 999552005823 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 999552005824 Sporulation related domain; Region: SPOR; pfam05036 999552005825 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 999552005826 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 999552005827 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 999552005828 active site 999552005829 HIGH motif; other site 999552005830 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 999552005831 KMSK motif region; other site 999552005832 tRNA binding surface [nucleotide binding]; other site 999552005833 DALR anticodon binding domain; Region: DALR_1; smart00836 999552005834 anticodon binding site; other site 999552005835 YCII-related domain; Region: YCII; cl00999 999552005836 YCII-related domain; Region: YCII; cl00999 999552005837 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 999552005838 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 999552005839 Zn2+ binding site [ion binding]; other site 999552005840 Mg2+ binding site [ion binding]; other site 999552005841 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 999552005842 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 999552005843 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 999552005844 EamA-like transporter family; Region: EamA; pfam00892 999552005845 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 999552005846 putative catalytic site [active] 999552005847 putative phosphate binding site [ion binding]; other site 999552005848 active site 999552005849 metal binding site A [ion binding]; metal-binding site 999552005850 DNA binding site [nucleotide binding] 999552005851 putative AP binding site [nucleotide binding]; other site 999552005852 putative metal binding site B [ion binding]; other site 999552005853 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 999552005854 hypothetical protein; Provisional; Region: PRK06753 999552005855 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 999552005856 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 999552005857 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 999552005858 Walker A motif; other site 999552005859 ATP binding site [chemical binding]; other site 999552005860 Walker B motif; other site 999552005861 arginine finger; other site 999552005862 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 999552005863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 999552005864 septum formation inhibitor; Reviewed; Region: minC; PRK05177 999552005865 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 999552005866 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 999552005867 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 999552005868 Switch I; other site 999552005869 Switch II; other site 999552005870 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 999552005871 Peptidase family M48; Region: Peptidase_M48; cl12018 999552005872 PIN domain; Region: PIN_3; pfam13470 999552005873 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 999552005874 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 999552005875 putative RNA binding site [nucleotide binding]; other site 999552005876 Methyltransferase domain; Region: Methyltransf_26; pfam13659 999552005877 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 999552005878 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 999552005879 metal binding triad; other site 999552005880 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 999552005881 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 999552005882 metal binding triad; other site 999552005883 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552005884 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 999552005885 active site 999552005886 phosphorylation site [posttranslational modification] 999552005887 intermolecular recognition site; other site 999552005888 dimerization interface [polypeptide binding]; other site 999552005889 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 999552005890 DNA binding site [nucleotide binding] 999552005891 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 999552005892 dimer interface [polypeptide binding]; other site 999552005893 phosphorylation site [posttranslational modification] 999552005894 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 999552005895 ATP binding site [chemical binding]; other site 999552005896 Mg2+ binding site [ion binding]; other site 999552005897 G-X-G motif; other site 999552005898 Response regulator receiver domain; Region: Response_reg; pfam00072 999552005899 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 999552005900 active site 999552005901 phosphorylation site [posttranslational modification] 999552005902 intermolecular recognition site; other site 999552005903 dimerization interface [polypeptide binding]; other site 999552005904 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 999552005905 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552005906 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 999552005907 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 999552005908 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 999552005909 catalytic nucleophile [active] 999552005910 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552005911 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552005912 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552005913 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 999552005914 SIR2-like domain; Region: SIR2_2; pfam13289 999552005915 Catalytic domain of Protein Kinases; Region: PKc; cd00180 999552005916 active site 999552005917 ATP binding site [chemical binding]; other site 999552005918 substrate binding site [chemical binding]; other site 999552005919 activation loop (A-loop); other site 999552005920 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 999552005921 Autoinducer synthetase; Region: Autoind_synth; cl17404 999552005922 Autoinducer binding domain; Region: Autoind_bind; pfam03472 999552005923 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 999552005924 DNA binding residues [nucleotide binding] 999552005925 dimerization interface [polypeptide binding]; other site 999552005926 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552005927 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 999552005928 non-specific DNA binding site [nucleotide binding]; other site 999552005929 salt bridge; other site 999552005930 sequence-specific DNA binding site [nucleotide binding]; other site 999552005931 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 999552005932 ParB-like nuclease domain; Region: ParB; smart00470 999552005933 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 999552005934 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 999552005935 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 999552005936 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 999552005937 AAA domain; Region: AAA_22; pfam13401 999552005938 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 999552005939 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 999552005940 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 999552005941 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 999552005942 amidase catalytic site [active] 999552005943 Zn binding residues [ion binding]; other site 999552005944 substrate binding site [chemical binding]; other site 999552005945 Bacterial SH3 domain; Region: SH3_3; pfam08239 999552005946 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 999552005947 Protein of unknown function (DUF3116); Region: DUF3116; pfam11313 999552005948 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 999552005949 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 999552005950 Protein of unknown function (DUF935); Region: DUF935; pfam06074 999552005951 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 999552005952 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 999552005953 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 999552005954 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 999552005955 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 999552005956 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 999552005957 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 999552005958 Putative phage tail protein; Region: Phage-tail_3; pfam13550 999552005959 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 999552005960 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 999552005961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552005962 ABC transporter signature motif; other site 999552005963 Walker B; other site 999552005964 D-loop; other site 999552005965 H-loop/switch region; other site 999552005966 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 999552005967 active site 999552005968 substrate binding site [chemical binding]; other site 999552005969 cosubstrate binding site; other site 999552005970 catalytic site [active] 999552005971 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 999552005972 RDD family; Region: RDD; pfam06271 999552005973 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 999552005974 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 999552005975 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 999552005976 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552005977 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 999552005978 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552005979 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552005980 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 999552005981 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 999552005982 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552005983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 999552005984 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 999552005985 Histidine kinase; Region: HisKA_3; pfam07730 999552005986 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 999552005987 ATP binding site [chemical binding]; other site 999552005988 Mg2+ binding site [ion binding]; other site 999552005989 G-X-G motif; other site 999552005990 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 999552005991 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 999552005992 active site 999552005993 phosphorylation site [posttranslational modification] 999552005994 intermolecular recognition site; other site 999552005995 dimerization interface [polypeptide binding]; other site 999552005996 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 999552005997 DNA binding residues [nucleotide binding] 999552005998 dimerization interface [polypeptide binding]; other site 999552005999 Transglycosylase SLT domain; Region: SLT_2; pfam13406 999552006000 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 999552006001 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552006002 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552006003 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 999552006004 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 999552006005 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 999552006006 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552006007 PYR/PP interface [polypeptide binding]; other site 999552006008 dimer interface [polypeptide binding]; other site 999552006009 TPP binding site [chemical binding]; other site 999552006010 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552006011 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 999552006012 TPP-binding site [chemical binding]; other site 999552006013 dimer interface [polypeptide binding]; other site 999552006014 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 999552006015 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 999552006016 putative valine binding site [chemical binding]; other site 999552006017 dimer interface [polypeptide binding]; other site 999552006018 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 999552006019 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552006020 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 999552006021 non-specific DNA binding site [nucleotide binding]; other site 999552006022 salt bridge; other site 999552006023 sequence-specific DNA binding site [nucleotide binding]; other site 999552006024 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 999552006025 peptide chain release factor 2; Validated; Region: prfB; PRK00578 999552006026 This domain is found in peptide chain release factors; Region: PCRF; smart00937 999552006027 RF-1 domain; Region: RF-1; pfam00472 999552006028 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 999552006029 Transglycosylase; Region: Transgly; pfam00912 999552006030 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 999552006031 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 999552006032 AMIN domain; Region: AMIN; pfam11741 999552006033 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 999552006034 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 999552006035 active site 999552006036 metal binding site [ion binding]; metal-binding site 999552006037 aspartate aminotransferase; Provisional; Region: PRK05764 999552006038 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 999552006039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552006040 homodimer interface [polypeptide binding]; other site 999552006041 catalytic residue [active] 999552006042 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 999552006043 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 999552006044 catalytic residues [active] 999552006045 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 999552006046 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 999552006047 Helix-turn-helix domain; Region: HTH_25; pfam13413 999552006048 non-specific DNA binding site [nucleotide binding]; other site 999552006049 salt bridge; other site 999552006050 sequence-specific DNA binding site [nucleotide binding]; other site 999552006051 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 999552006052 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 999552006053 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 999552006054 substrate-cofactor binding pocket; other site 999552006055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552006056 catalytic residue [active] 999552006057 hypothetical protein; Validated; Region: PRK09104 999552006058 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 999552006059 metal binding site [ion binding]; metal-binding site 999552006060 putative dimer interface [polypeptide binding]; other site 999552006061 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 999552006062 catalytic core [active] 999552006063 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552006064 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 999552006065 putative DNA binding site [nucleotide binding]; other site 999552006066 putative Zn2+ binding site [ion binding]; other site 999552006067 AsnC family; Region: AsnC_trans_reg; pfam01037 999552006068 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 999552006069 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 999552006070 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 999552006071 NAD binding site [chemical binding]; other site 999552006072 Phe binding site; other site 999552006073 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 999552006074 Found in ATP-dependent protease La (LON); Region: LON; smart00464 999552006075 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 999552006076 Walker A motif; other site 999552006077 ATP binding site [chemical binding]; other site 999552006078 Walker B motif; other site 999552006079 arginine finger; other site 999552006080 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 999552006081 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 999552006082 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 999552006083 FMN binding site [chemical binding]; other site 999552006084 active site 999552006085 substrate binding site [chemical binding]; other site 999552006086 catalytic residue [active] 999552006087 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 999552006088 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 999552006089 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 999552006090 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 999552006091 ATP-grasp domain; Region: ATP-grasp_4; cl17255 999552006092 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 999552006093 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 999552006094 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 999552006095 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 999552006096 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 999552006097 active site 999552006098 catalytic site [active] 999552006099 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 999552006100 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 999552006101 triosephosphate isomerase; Provisional; Region: PRK14565 999552006102 substrate binding site [chemical binding]; other site 999552006103 dimer interface [polypeptide binding]; other site 999552006104 catalytic triad [active] 999552006105 DctM-like transporters; Region: DctM; pfam06808 999552006106 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552006107 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 999552006108 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 999552006109 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 999552006110 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 999552006111 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 999552006112 active site 999552006113 phosphorylation site [posttranslational modification] 999552006114 intermolecular recognition site; other site 999552006115 dimerization interface [polypeptide binding]; other site 999552006116 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 999552006117 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 999552006118 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 999552006119 dimer interface [polypeptide binding]; other site 999552006120 phosphorylation site [posttranslational modification] 999552006121 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 999552006122 ATP binding site [chemical binding]; other site 999552006123 Mg2+ binding site [ion binding]; other site 999552006124 G-X-G motif; other site 999552006125 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 999552006126 Cytochrome P450; Region: p450; cl12078 999552006127 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552006128 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 999552006129 putative DNA binding site [nucleotide binding]; other site 999552006130 putative Zn2+ binding site [ion binding]; other site 999552006131 AsnC family; Region: AsnC_trans_reg; pfam01037 999552006132 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 999552006133 active site 999552006134 SAM binding site [chemical binding]; other site 999552006135 homodimer interface [polypeptide binding]; other site 999552006136 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 999552006137 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 999552006138 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 999552006139 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 999552006140 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 999552006141 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 999552006142 Active Sites [active] 999552006143 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 999552006144 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 999552006145 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 999552006146 FAD binding pocket [chemical binding]; other site 999552006147 FAD binding motif [chemical binding]; other site 999552006148 phosphate binding motif [ion binding]; other site 999552006149 beta-alpha-beta structure motif; other site 999552006150 NAD binding pocket [chemical binding]; other site 999552006151 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 999552006152 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 999552006153 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 999552006154 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552006155 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 999552006156 putative CheW interface [polypeptide binding]; other site 999552006157 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 999552006158 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 999552006159 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 999552006160 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 999552006161 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552006162 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 999552006163 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 999552006164 catalytic loop [active] 999552006165 iron binding site [ion binding]; other site 999552006166 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 999552006167 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 999552006168 putative MPT binding site; other site 999552006169 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 999552006170 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 999552006171 XdhC Rossmann domain; Region: XdhC_C; pfam13478 999552006172 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 999552006173 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 999552006174 metal ion-dependent adhesion site (MIDAS); other site 999552006175 MoxR-like ATPases [General function prediction only]; Region: COG0714 999552006176 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 999552006177 Walker A motif; other site 999552006178 ATP binding site [chemical binding]; other site 999552006179 Walker B motif; other site 999552006180 arginine finger; other site 999552006181 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552006182 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 999552006183 active site 999552006184 substrate binding pocket [chemical binding]; other site 999552006185 dimer interface [polypeptide binding]; other site 999552006186 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 999552006187 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552006188 active site 999552006189 replicative DNA helicase; Provisional; Region: PRK09165 999552006190 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 999552006191 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 999552006192 Walker A motif; other site 999552006193 ATP binding site [chemical binding]; other site 999552006194 Walker B motif; other site 999552006195 DNA binding loops [nucleotide binding] 999552006196 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 999552006197 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 999552006198 active site 999552006199 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 999552006200 dimer interface [polypeptide binding]; other site 999552006201 substrate binding site [chemical binding]; other site 999552006202 catalytic residues [active] 999552006203 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 999552006204 Permease; Region: Permease; pfam02405 999552006205 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 999552006206 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 999552006207 Walker A/P-loop; other site 999552006208 ATP binding site [chemical binding]; other site 999552006209 Q-loop/lid; other site 999552006210 ABC transporter signature motif; other site 999552006211 Walker B; other site 999552006212 D-loop; other site 999552006213 H-loop/switch region; other site 999552006214 Paraquat-inducible protein A; Region: PqiA; pfam04403 999552006215 DNA repair protein RadA; Provisional; Region: PRK11823 999552006216 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 999552006217 Walker A motif/ATP binding site; other site 999552006218 ATP binding site [chemical binding]; other site 999552006219 Walker B motif; other site 999552006220 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 999552006221 Colicin V production protein; Region: Colicin_V; pfam02674 999552006222 Hint domain; Region: Hint_2; pfam13403 999552006223 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 999552006224 amidophosphoribosyltransferase; Provisional; Region: PRK09246 999552006225 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 999552006226 active site 999552006227 tetramer interface [polypeptide binding]; other site 999552006228 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552006229 active site 999552006230 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 999552006231 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 999552006232 short chain dehydrogenase; Provisional; Region: PRK08703 999552006233 classical (c) SDRs; Region: SDR_c; cd05233 999552006234 NAD(P) binding site [chemical binding]; other site 999552006235 active site 999552006236 Survival protein SurE; Region: SurE; cl00448 999552006237 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 999552006238 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 999552006239 S-adenosylmethionine binding site [chemical binding]; other site 999552006240 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 999552006241 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 999552006242 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 999552006243 Peptidase family M23; Region: Peptidase_M23; pfam01551 999552006244 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 999552006245 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 999552006246 Walker A motif; other site 999552006247 ATP binding site [chemical binding]; other site 999552006248 Walker B motif; other site 999552006249 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552006250 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 999552006251 non-specific DNA interactions [nucleotide binding]; other site 999552006252 DNA binding site [nucleotide binding] 999552006253 sequence specific DNA binding site [nucleotide binding]; other site 999552006254 putative cAMP binding site [chemical binding]; other site 999552006255 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; cl00246 999552006256 FAD binding site [chemical binding]; other site 999552006257 Ketopantoate hydroxymethyltransferase; Region: Pantoate_transf; pfam02548 999552006258 oligomerization interface [polypeptide binding]; other site 999552006259 active site 999552006260 metal binding site [ion binding]; metal-binding site 999552006261 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 999552006262 S-adenosylmethionine binding site [chemical binding]; other site 999552006263 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 999552006264 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 999552006265 DNA binding residues [nucleotide binding] 999552006266 dimer interface [polypeptide binding]; other site 999552006267 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 999552006268 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 999552006269 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 999552006270 Predicted transcriptional regulator [Transcription]; Region: COG2378 999552006271 HTH domain; Region: HTH_11; pfam08279 999552006272 WYL domain; Region: WYL; pfam13280 999552006273 Protein of unknown function (DUF998); Region: DUF998; pfam06197 999552006274 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552006275 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 999552006276 Walker A/P-loop; other site 999552006277 ATP binding site [chemical binding]; other site 999552006278 Q-loop/lid; other site 999552006279 ABC transporter signature motif; other site 999552006280 Walker B; other site 999552006281 D-loop; other site 999552006282 H-loop/switch region; other site 999552006283 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 999552006284 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 999552006285 short chain dehydrogenase; Provisional; Region: PRK08339 999552006286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552006287 NAD(P) binding site [chemical binding]; other site 999552006288 active site 999552006289 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 999552006290 protein-splicing catalytic site; other site 999552006291 thioester formation/cholesterol transfer; other site 999552006292 Putative transposase; Region: Y2_Tnp; pfam04986 999552006293 Hint domain; Region: Hint_2; pfam13403 999552006294 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 999552006295 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 999552006296 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 999552006297 G1 box; other site 999552006298 putative GEF interaction site [polypeptide binding]; other site 999552006299 GTP/Mg2+ binding site [chemical binding]; other site 999552006300 Switch I region; other site 999552006301 G2 box; other site 999552006302 G3 box; other site 999552006303 Switch II region; other site 999552006304 G4 box; other site 999552006305 G5 box; other site 999552006306 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 999552006307 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552006308 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 999552006309 DEAD-like helicases superfamily; Region: DEXDc; smart00487 999552006310 ATP binding site [chemical binding]; other site 999552006311 Mg++ binding site [ion binding]; other site 999552006312 motif III; other site 999552006313 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 999552006314 nucleotide binding region [chemical binding]; other site 999552006315 ATP-binding site [chemical binding]; other site 999552006316 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 999552006317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 999552006318 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 999552006319 pantothenate kinase; Reviewed; Region: PRK13318 999552006320 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 999552006321 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 999552006322 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 999552006323 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 999552006324 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 999552006325 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 999552006326 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 999552006327 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 999552006328 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 999552006329 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 999552006330 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 999552006331 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 999552006332 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 999552006333 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 999552006334 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 999552006335 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 999552006336 4Fe-4S binding domain; Region: Fer4; pfam00037 999552006337 4Fe-4S binding domain; Region: Fer4; pfam00037 999552006338 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552006339 Methyltransferase domain; Region: Methyltransf_11; pfam08241 999552006340 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 999552006341 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 999552006342 NADH dehydrogenase subunit G; Validated; Region: PRK09130 999552006343 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552006344 catalytic loop [active] 999552006345 iron binding site [ion binding]; other site 999552006346 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 999552006347 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 999552006348 molybdopterin cofactor binding site; other site 999552006349 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 999552006350 MAPEG family; Region: MAPEG; pfam01124 999552006351 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 999552006352 SLBB domain; Region: SLBB; pfam10531 999552006353 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 999552006354 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 999552006355 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 999552006356 putative dimer interface [polypeptide binding]; other site 999552006357 [2Fe-2S] cluster binding site [ion binding]; other site 999552006358 Uncharacterized conserved protein [Function unknown]; Region: COG3743 999552006359 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 999552006360 NADH dehydrogenase subunit D; Validated; Region: PRK06075 999552006361 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 999552006362 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 999552006363 NADH dehydrogenase subunit B; Validated; Region: PRK06411 999552006364 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 999552006365 enoyl-CoA hydratase; Provisional; Region: PRK07468 999552006366 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552006367 substrate binding site [chemical binding]; other site 999552006368 oxyanion hole (OAH) forming residues; other site 999552006369 trimer interface [polypeptide binding]; other site 999552006370 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 999552006371 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 999552006372 active site 999552006373 catalytic residues [active] 999552006374 metal binding site [ion binding]; metal-binding site 999552006375 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 999552006376 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 999552006377 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 999552006378 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 999552006379 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 999552006380 carboxyltransferase (CT) interaction site; other site 999552006381 biotinylation site [posttranslational modification]; other site 999552006382 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 999552006383 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 999552006384 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 999552006385 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 999552006386 active site 999552006387 acyl-activating enzyme (AAE) consensus motif; other site 999552006388 putative CoA binding site [chemical binding]; other site 999552006389 AMP binding site [chemical binding]; other site 999552006390 isovaleryl-CoA dehydrogenase; Region: PLN02519 999552006391 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552006392 active site 999552006393 Bacterial SH3 domain; Region: SH3_3; pfam08239 999552006394 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 999552006395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 999552006396 CreA protein; Region: CreA; pfam05981 999552006397 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 999552006398 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 999552006399 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552006400 catalytic residue [active] 999552006401 phosphoglycolate phosphatase; Provisional; Region: PRK13222 999552006402 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 999552006403 motif II; other site 999552006404 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 999552006405 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 999552006406 Substrate binding site; other site 999552006407 Mg++ binding site; other site 999552006408 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 999552006409 active site 999552006410 substrate binding site [chemical binding]; other site 999552006411 CoA binding site [chemical binding]; other site 999552006412 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 999552006413 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 999552006414 glutaminase active site [active] 999552006415 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 999552006416 dimer interface [polypeptide binding]; other site 999552006417 active site 999552006418 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 999552006419 dimer interface [polypeptide binding]; other site 999552006420 active site 999552006421 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 999552006422 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 999552006423 A new structural DNA glycosylase; Region: AlkD_like; cd06561 999552006424 active site 999552006425 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 999552006426 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 999552006427 FeS/SAM binding site; other site 999552006428 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 999552006429 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 999552006430 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 999552006431 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 999552006432 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 999552006433 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 999552006434 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 999552006435 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 999552006436 metal binding site [ion binding]; metal-binding site 999552006437 putative dimer interface [polypeptide binding]; other site 999552006438 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 999552006439 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 999552006440 metal binding site [ion binding]; metal-binding site 999552006441 putative dimer interface [polypeptide binding]; other site 999552006442 acetylornithine deacetylase; Provisional; Region: PRK07522 999552006443 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 999552006444 metal binding site [ion binding]; metal-binding site 999552006445 putative dimer interface [polypeptide binding]; other site 999552006446 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 999552006447 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552006448 Walker A/P-loop; other site 999552006449 ATP binding site [chemical binding]; other site 999552006450 Q-loop/lid; other site 999552006451 ABC transporter signature motif; other site 999552006452 Walker B; other site 999552006453 D-loop; other site 999552006454 H-loop/switch region; other site 999552006455 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552006456 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552006457 Walker A/P-loop; other site 999552006458 ATP binding site [chemical binding]; other site 999552006459 Q-loop/lid; other site 999552006460 ABC transporter signature motif; other site 999552006461 Walker B; other site 999552006462 D-loop; other site 999552006463 H-loop/switch region; other site 999552006464 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552006465 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552006466 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 999552006467 peptide binding site [polypeptide binding]; other site 999552006468 dimer interface [polypeptide binding]; other site 999552006469 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552006470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552006471 dimer interface [polypeptide binding]; other site 999552006472 conserved gate region; other site 999552006473 putative PBP binding loops; other site 999552006474 ABC-ATPase subunit interface; other site 999552006475 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552006476 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 999552006477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552006478 dimer interface [polypeptide binding]; other site 999552006479 conserved gate region; other site 999552006480 putative PBP binding loops; other site 999552006481 ABC-ATPase subunit interface; other site 999552006482 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 999552006483 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 999552006484 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 999552006485 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 999552006486 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 999552006487 ligand binding site [chemical binding]; other site 999552006488 homodimer interface [polypeptide binding]; other site 999552006489 NAD(P) binding site [chemical binding]; other site 999552006490 trimer interface B [polypeptide binding]; other site 999552006491 trimer interface A [polypeptide binding]; other site 999552006492 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 999552006493 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 999552006494 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 999552006495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 999552006496 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 999552006497 kynureninase; Region: kynureninase; TIGR01814 999552006498 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552006499 catalytic residue [active] 999552006500 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 999552006501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552006502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552006503 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 999552006504 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 999552006505 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 999552006506 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 999552006507 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552006508 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 999552006509 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552006510 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552006511 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 999552006512 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552006513 Coenzyme A binding pocket [chemical binding]; other site 999552006514 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 999552006515 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 999552006516 catalytic triad [active] 999552006517 Domain of unknown function (DUF336); Region: DUF336; cl01249 999552006518 malate synthase G; Provisional; Region: PRK02999 999552006519 active site 999552006520 aminopeptidase N; Provisional; Region: pepN; PRK14015 999552006521 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 999552006522 active site 999552006523 Zn binding site [ion binding]; other site 999552006524 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 999552006525 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 999552006526 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 999552006527 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 999552006528 RNA binding site [nucleotide binding]; other site 999552006529 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 999552006530 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 999552006531 GatB domain; Region: GatB_Yqey; smart00845 999552006532 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 999552006533 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 999552006534 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 999552006535 HSP70 interaction site [polypeptide binding]; other site 999552006536 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 999552006537 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 999552006538 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 999552006539 aspartate racemase; Region: asp_race; TIGR00035 999552006540 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 999552006541 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 999552006542 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 999552006543 metal ion-dependent adhesion site (MIDAS); other site 999552006544 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 999552006545 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 999552006546 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 999552006547 active site 999552006548 Domain of unknown function (DUF427); Region: DUF427; pfam04248 999552006549 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 999552006550 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 999552006551 Cl- selectivity filter; other site 999552006552 Cl- binding residues [ion binding]; other site 999552006553 pore gating glutamate residue; other site 999552006554 dimer interface [polypeptide binding]; other site 999552006555 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 999552006556 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 999552006557 Walker A/P-loop; other site 999552006558 ATP binding site [chemical binding]; other site 999552006559 Q-loop/lid; other site 999552006560 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 999552006561 ABC transporter signature motif; other site 999552006562 Walker B; other site 999552006563 D-loop; other site 999552006564 H-loop/switch region; other site 999552006565 Outer membrane lipoprotein; Region: YfiO; pfam13525 999552006566 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 999552006567 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 999552006568 cell division protein FtsZ; Validated; Region: PRK09330 999552006569 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 999552006570 nucleotide binding site [chemical binding]; other site 999552006571 SulA interaction site; other site 999552006572 Cell division protein FtsA; Region: FtsA; smart00842 999552006573 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 999552006574 Cell division protein FtsA; Region: FtsA; pfam14450 999552006575 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 999552006576 Cell division protein FtsQ; Region: FtsQ; pfam03799 999552006577 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 999552006578 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 999552006579 ATP-grasp domain; Region: ATP-grasp_4; cl17255 999552006580 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 999552006581 FAD binding domain; Region: FAD_binding_4; pfam01565 999552006582 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 999552006583 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 999552006584 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 999552006585 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 999552006586 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 999552006587 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 999552006588 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 999552006589 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 999552006590 active site 999552006591 homodimer interface [polypeptide binding]; other site 999552006592 cell division protein FtsW; Region: ftsW; TIGR02614 999552006593 Predicted flavoproteins [General function prediction only]; Region: COG2081 999552006594 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552006595 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 999552006596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 999552006597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 999552006598 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 999552006599 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 999552006600 Mg++ binding site [ion binding]; other site 999552006601 putative catalytic motif [active] 999552006602 putative substrate binding site [chemical binding]; other site 999552006603 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 999552006604 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 999552006605 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 999552006606 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 999552006607 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 999552006608 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 999552006609 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 999552006610 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 999552006611 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 999552006612 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 999552006613 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 999552006614 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 999552006615 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 999552006616 S-adenosylmethionine binding site [chemical binding]; other site 999552006617 cell division protein MraZ; Reviewed; Region: PRK00326 999552006618 MraZ protein; Region: MraZ; pfam02381 999552006619 MraZ protein; Region: MraZ; pfam02381 999552006620 Domain of unknown function DUF59; Region: DUF59; pfam01883 999552006621 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 999552006622 Walker A motif; other site 999552006623 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 999552006624 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 999552006625 Family description; Region: UvrD_C_2; pfam13538 999552006626 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 999552006627 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 999552006628 phosphate binding site [ion binding]; other site 999552006629 pyruvate carboxylase; Reviewed; Region: PRK12999 999552006630 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 999552006631 ATP-grasp domain; Region: ATP-grasp_4; cl17255 999552006632 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 999552006633 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 999552006634 active site 999552006635 catalytic residues [active] 999552006636 metal binding site [ion binding]; metal-binding site 999552006637 homodimer binding site [polypeptide binding]; other site 999552006638 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 999552006639 carboxyltransferase (CT) interaction site; other site 999552006640 biotinylation site [posttranslational modification]; other site 999552006641 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 999552006642 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 999552006643 cofactor binding site; other site 999552006644 DNA binding site [nucleotide binding] 999552006645 substrate interaction site [chemical binding]; other site 999552006646 Restriction endonuclease NaeI; Region: NaeI; pfam09126 999552006647 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 999552006648 additional DNA contacts [nucleotide binding]; other site 999552006649 mismatch recognition site; other site 999552006650 active site 999552006651 zinc binding site [ion binding]; other site 999552006652 DNA intercalation site [nucleotide binding]; other site 999552006653 aminotransferase; Provisional; Region: PRK06105 999552006654 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 999552006655 inhibitor-cofactor binding pocket; inhibition site 999552006656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552006657 catalytic residue [active] 999552006658 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552006659 AsnC family; Region: AsnC_trans_reg; pfam01037 999552006660 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 999552006661 putative active site pocket [active] 999552006662 4-fold oligomerization interface [polypeptide binding]; other site 999552006663 metal binding residues [ion binding]; metal-binding site 999552006664 3-fold/trimer interface [polypeptide binding]; other site 999552006665 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 999552006666 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 999552006667 putative active site [active] 999552006668 oxyanion strand; other site 999552006669 catalytic triad [active] 999552006670 Cupin; Region: Cupin_6; pfam12852 999552006671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552006672 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 999552006673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552006674 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 999552006675 putative catalytic residues [active] 999552006676 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 999552006677 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 999552006678 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 999552006679 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 999552006680 catalytic residues [active] 999552006681 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 999552006682 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 999552006683 substrate binding site [chemical binding]; other site 999552006684 glutamase interaction surface [polypeptide binding]; other site 999552006685 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 999552006686 metal binding site [ion binding]; metal-binding site 999552006687 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 999552006688 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 999552006689 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 999552006690 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 999552006691 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 999552006692 NnrU protein; Region: NnrU; pfam07298 999552006693 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552006694 dimer interface [polypeptide binding]; other site 999552006695 conserved gate region; other site 999552006696 putative PBP binding loops; other site 999552006697 ABC-ATPase subunit interface; other site 999552006698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552006699 dimer interface [polypeptide binding]; other site 999552006700 conserved gate region; other site 999552006701 putative PBP binding loops; other site 999552006702 ABC-ATPase subunit interface; other site 999552006703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552006704 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 999552006705 Walker A/P-loop; other site 999552006706 ATP binding site [chemical binding]; other site 999552006707 Q-loop/lid; other site 999552006708 ABC transporter signature motif; other site 999552006709 Walker B; other site 999552006710 D-loop; other site 999552006711 H-loop/switch region; other site 999552006712 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 999552006713 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 999552006714 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 999552006715 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 999552006716 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 999552006717 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 999552006718 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 999552006719 S-adenosylmethionine binding site [chemical binding]; other site 999552006720 Protein of unknown function (DUF452); Region: DUF452; cl01062 999552006721 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 999552006722 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 999552006723 inhibitor-cofactor binding pocket; inhibition site 999552006724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552006725 catalytic residue [active] 999552006726 AAA domain; Region: AAA_26; pfam13500 999552006727 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 999552006728 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 999552006729 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 999552006730 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552006731 catalytic residue [active] 999552006732 biotin synthase; Region: bioB; TIGR00433 999552006733 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 999552006734 FeS/SAM binding site; other site 999552006735 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 999552006736 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 999552006737 ThiC-associated domain; Region: ThiC-associated; pfam13667 999552006738 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 999552006739 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 999552006740 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 999552006741 thiS-thiF/thiG interaction site; other site 999552006742 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 999552006743 ThiS interaction site; other site 999552006744 putative active site [active] 999552006745 tetramer interface [polypeptide binding]; other site 999552006746 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 999552006747 active site 999552006748 thiamine phosphate binding site [chemical binding]; other site 999552006749 pyrophosphate binding site [ion binding]; other site 999552006750 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 999552006751 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 999552006752 ATP binding site [chemical binding]; other site 999552006753 substrate interface [chemical binding]; other site 999552006754 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 999552006755 substrate binding site [chemical binding]; other site 999552006756 ATP binding site [chemical binding]; other site 999552006757 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 999552006758 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 999552006759 homodimer interface [polypeptide binding]; other site 999552006760 substrate-cofactor binding pocket; other site 999552006761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552006762 catalytic residue [active] 999552006763 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 999552006764 Pilus assembly protein, PilP; Region: PilP; pfam04351 999552006765 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 999552006766 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 999552006767 dimer interface [polypeptide binding]; other site 999552006768 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 999552006769 active site 999552006770 Fe binding site [ion binding]; other site 999552006771 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552006772 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 999552006773 putative DNA binding site [nucleotide binding]; other site 999552006774 putative Zn2+ binding site [ion binding]; other site 999552006775 AsnC family; Region: AsnC_trans_reg; pfam01037 999552006776 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 999552006777 PAS domain; Region: PAS_9; pfam13426 999552006778 putative active site [active] 999552006779 heme pocket [chemical binding]; other site 999552006780 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 999552006781 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 999552006782 TrkA-N domain; Region: TrkA_N; pfam02254 999552006783 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 999552006784 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 999552006785 putative dimer interface [polypeptide binding]; other site 999552006786 active site pocket [active] 999552006787 putative cataytic base [active] 999552006788 cobalamin synthase; Reviewed; Region: cobS; PRK00235 999552006789 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 999552006790 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 999552006791 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 999552006792 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 999552006793 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 999552006794 RNA binding surface [nucleotide binding]; other site 999552006795 DEAD-like helicases superfamily; Region: DEXDc; smart00487 999552006796 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 999552006797 ATP binding site [chemical binding]; other site 999552006798 putative Mg++ binding site [ion binding]; other site 999552006799 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 999552006800 nucleotide binding region [chemical binding]; other site 999552006801 ATP-binding site [chemical binding]; other site 999552006802 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552006803 binding surface 999552006804 TPR repeat; Region: TPR_11; pfam13414 999552006805 TPR motif; other site 999552006806 TPR repeat; Region: TPR_11; pfam13414 999552006807 SCP-2 sterol transfer family; Region: SCP2; pfam02036 999552006808 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 999552006809 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 999552006810 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 999552006811 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 999552006812 active site 999552006813 Zn binding site [ion binding]; other site 999552006814 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 999552006815 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 999552006816 hypothetical protein; Provisional; Region: PRK11019 999552006817 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 999552006818 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 999552006819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552006820 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 999552006821 DNA binding residues [nucleotide binding] 999552006822 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 999552006823 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 999552006824 RNA binding surface [nucleotide binding]; other site 999552006825 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 999552006826 active site 999552006827 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552006828 Coenzyme A binding pocket [chemical binding]; other site 999552006829 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 999552006830 transcription antitermination factor NusB; Region: nusB; TIGR01951 999552006831 putative RNA binding site [nucleotide binding]; other site 999552006832 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 999552006833 homopentamer interface [polypeptide binding]; other site 999552006834 active site 999552006835 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 999552006836 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 999552006837 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 999552006838 dimerization interface [polypeptide binding]; other site 999552006839 active site 999552006840 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 999552006841 Lumazine binding domain; Region: Lum_binding; pfam00677 999552006842 Lumazine binding domain; Region: Lum_binding; pfam00677 999552006843 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 999552006844 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 999552006845 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 999552006846 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 999552006847 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 999552006848 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 999552006849 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 999552006850 catalytic motif [active] 999552006851 Zn binding site [ion binding]; other site 999552006852 RibD C-terminal domain; Region: RibD_C; cl17279 999552006853 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 999552006854 ATP cone domain; Region: ATP-cone; pfam03477 999552006855 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 999552006856 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 999552006857 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 999552006858 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 999552006859 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 999552006860 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 999552006861 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 999552006862 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552006863 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 999552006864 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 999552006865 DNA binding residues [nucleotide binding] 999552006866 DNA primase, catalytic core; Region: dnaG; TIGR01391 999552006867 CHC2 zinc finger; Region: zf-CHC2; pfam01807 999552006868 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 999552006869 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 999552006870 active site 999552006871 metal binding site [ion binding]; metal-binding site 999552006872 interdomain interaction site; other site 999552006873 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552006874 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 999552006875 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 999552006876 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 999552006877 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552006878 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 999552006879 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 999552006880 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552006881 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 999552006882 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 999552006883 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 999552006884 NAD(P) binding site [chemical binding]; other site 999552006885 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 999552006886 metal ion-dependent adhesion site (MIDAS); other site 999552006887 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 999552006888 TadE-like protein; Region: TadE; pfam07811 999552006889 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 999552006890 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 999552006891 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 999552006892 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552006893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552006894 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 999552006895 dimerization interface [polypeptide binding]; other site 999552006896 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552006897 cyclase homology domain; Region: CHD; cd07302 999552006898 nucleotidyl binding site; other site 999552006899 metal binding site [ion binding]; metal-binding site 999552006900 dimer interface [polypeptide binding]; other site 999552006901 Pirin-related protein [General function prediction only]; Region: COG1741 999552006902 Pirin; Region: Pirin; pfam02678 999552006903 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 999552006904 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 999552006905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552006906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552006907 homoserine dehydrogenase; Provisional; Region: PRK06349 999552006908 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 999552006909 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 999552006910 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 999552006911 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 999552006912 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 999552006913 putative active site [active] 999552006914 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 999552006915 DHH family; Region: DHH; pfam01368 999552006916 DHHA1 domain; Region: DHHA1; pfam02272 999552006917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 999552006918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 999552006919 metal binding site [ion binding]; metal-binding site 999552006920 active site 999552006921 I-site; other site 999552006922 Heme NO binding; Region: HNOB; pfam07700 999552006923 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552006924 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 999552006925 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 999552006926 motif II; other site 999552006927 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 999552006928 response regulator PleD; Reviewed; Region: pleD; PRK09581 999552006929 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 999552006930 active site 999552006931 phosphorylation site [posttranslational modification] 999552006932 intermolecular recognition site; other site 999552006933 dimerization interface [polypeptide binding]; other site 999552006934 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 999552006935 metal binding site [ion binding]; metal-binding site 999552006936 active site 999552006937 I-site; other site 999552006938 Heavy-metal resistance; Region: Metal_resist; pfam13801 999552006939 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 999552006940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552006941 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 999552006942 DNA binding residues [nucleotide binding] 999552006943 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 999552006944 Ca2+ binding site [ion binding]; other site 999552006945 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 999552006946 Ca2+ binding site [ion binding]; other site 999552006947 Protein of unknown function (DUF983); Region: DUF983; pfam06170 999552006948 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 999552006949 nudix motif; other site 999552006950 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 999552006951 Fatty acid desaturase; Region: FA_desaturase; pfam00487 999552006952 putative di-iron ligands [ion binding]; other site 999552006953 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 999552006954 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 999552006955 non-specific DNA binding site [nucleotide binding]; other site 999552006956 salt bridge; other site 999552006957 sequence-specific DNA binding site [nucleotide binding]; other site 999552006958 short chain dehydrogenase; Provisional; Region: PRK12829 999552006959 classical (c) SDRs; Region: SDR_c; cd05233 999552006960 NAD(P) binding site [chemical binding]; other site 999552006961 active site 999552006962 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 999552006963 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 999552006964 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552006965 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 999552006966 active site 999552006967 Uncharacterized conserved protein [Function unknown]; Region: COG3246 999552006968 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552006969 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552006970 conserved cys residue [active] 999552006971 Sporulation related domain; Region: SPOR; pfam05036 999552006972 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 999552006973 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 999552006974 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 999552006975 thymidylate kinase; Validated; Region: tmk; PRK00698 999552006976 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 999552006977 TMP-binding site; other site 999552006978 ATP-binding site [chemical binding]; other site 999552006979 DNA polymerase III subunit delta'; Validated; Region: PRK07471 999552006980 DNA polymerase III subunit delta'; Validated; Region: PRK08485 999552006981 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 999552006982 active site 999552006983 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 999552006984 putative hydrolase; Provisional; Region: PRK02113 999552006985 Predicted permeases [General function prediction only]; Region: COG0679 999552006986 hypothetical protein; Provisional; Region: PRK07475 999552006987 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552006988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552006989 DNA-binding site [nucleotide binding]; DNA binding site 999552006990 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 999552006991 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 999552006992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552006993 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 999552006994 putative dimerization interface [polypeptide binding]; other site 999552006995 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 999552006996 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 999552006997 metal binding site [ion binding]; metal-binding site 999552006998 substrate binding pocket [chemical binding]; other site 999552006999 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552007000 TrkA-N domain; Region: TrkA_N; pfam02254 999552007001 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552007002 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552007003 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 999552007004 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552007005 DctM-like transporters; Region: DctM; pfam06808 999552007006 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 999552007007 Methyltransferase domain; Region: Methyltransf_31; pfam13847 999552007008 S-adenosylmethionine binding site [chemical binding]; other site 999552007009 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552007010 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552007011 Caspase domain; Region: Peptidase_C14; pfam00656 999552007012 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552007013 lipoate-protein ligase B; Provisional; Region: PRK14341 999552007014 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 999552007015 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 999552007016 HIT family signature motif; other site 999552007017 catalytic residue [active] 999552007018 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 999552007019 Subunit I/III interface [polypeptide binding]; other site 999552007020 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 999552007021 D-pathway; other site 999552007022 Subunit I/VIIc interface [polypeptide binding]; other site 999552007023 Subunit I/IV interface [polypeptide binding]; other site 999552007024 Subunit I/II interface [polypeptide binding]; other site 999552007025 Low-spin heme (heme a) binding site [chemical binding]; other site 999552007026 Subunit I/VIIa interface [polypeptide binding]; other site 999552007027 Subunit I/VIa interface [polypeptide binding]; other site 999552007028 Dimer interface; other site 999552007029 Putative water exit pathway; other site 999552007030 Binuclear center (heme a3/CuB) [ion binding]; other site 999552007031 K-pathway; other site 999552007032 Subunit I/Vb interface [polypeptide binding]; other site 999552007033 Putative proton exit pathway; other site 999552007034 Subunit I/VIb interface; other site 999552007035 Subunit I/VIc interface [polypeptide binding]; other site 999552007036 Electron transfer pathway; other site 999552007037 Subunit I/VIIIb interface [polypeptide binding]; other site 999552007038 Subunit I/VIIb interface [polypeptide binding]; other site 999552007039 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 999552007040 Yqey-like protein; Region: YqeY; pfam09424 999552007041 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 999552007042 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 999552007043 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 999552007044 catalytic site [active] 999552007045 subunit interface [polypeptide binding]; other site 999552007046 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 999552007047 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 999552007048 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 999552007049 DXD motif; other site 999552007050 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552007051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552007052 DNA-binding site [nucleotide binding]; DNA binding site 999552007053 FCD domain; Region: FCD; pfam07729 999552007054 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 999552007055 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 999552007056 motif II; other site 999552007057 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 999552007058 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 999552007059 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 999552007060 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 999552007061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552007062 catalytic residue [active] 999552007063 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552007064 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 999552007065 putative DNA binding site [nucleotide binding]; other site 999552007066 putative Zn2+ binding site [ion binding]; other site 999552007067 AsnC family; Region: AsnC_trans_reg; pfam01037 999552007068 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552007069 AsnC family; Region: AsnC_trans_reg; pfam01037 999552007070 ketol-acid reductoisomerase; Provisional; Region: PRK05479 999552007071 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 999552007072 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 999552007073 EamA-like transporter family; Region: EamA; pfam00892 999552007074 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 999552007075 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 999552007076 EamA-like transporter family; Region: EamA; pfam00892 999552007077 EamA-like transporter family; Region: EamA; pfam00892 999552007078 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 999552007079 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 999552007080 active site 999552007081 substrate binding site [chemical binding]; other site 999552007082 metal binding site [ion binding]; metal-binding site 999552007083 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 999552007084 dihydropteroate synthase; Region: DHPS; TIGR01496 999552007085 substrate binding pocket [chemical binding]; other site 999552007086 dimer interface [polypeptide binding]; other site 999552007087 inhibitor binding site; inhibition site 999552007088 Dihydroneopterin aldolase; Region: FolB; smart00905 999552007089 active site 999552007090 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 999552007091 pyruvate phosphate dikinase; Provisional; Region: PRK09279 999552007092 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 999552007093 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 999552007094 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 999552007095 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 999552007096 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 999552007097 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 999552007098 motif 1; other site 999552007099 dimer interface [polypeptide binding]; other site 999552007100 active site 999552007101 motif 2; other site 999552007102 motif 3; other site 999552007103 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552007104 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 999552007105 C factor cell-cell signaling protein; Provisional; Region: PRK09009 999552007106 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 999552007107 NADP binding site [chemical binding]; other site 999552007108 homodimer interface [polypeptide binding]; other site 999552007109 active site 999552007110 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 999552007111 Predicted acetyltransferase [General function prediction only]; Region: COG3153 999552007112 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 999552007113 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 999552007114 trimer interface [polypeptide binding]; other site 999552007115 active site 999552007116 substrate binding site [chemical binding]; other site 999552007117 CoA binding site [chemical binding]; other site 999552007118 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 999552007119 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 999552007120 Sulfate transporter family; Region: Sulfate_transp; pfam00916 999552007121 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 999552007122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552007123 active site 999552007124 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 999552007125 FAD binding domain; Region: FAD_binding_4; pfam01565 999552007126 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 999552007127 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 999552007128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 999552007129 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 999552007130 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 999552007131 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 999552007132 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 999552007133 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 999552007134 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 999552007135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007136 catalytic residue [active] 999552007137 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 999552007138 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 999552007139 Subunit III/VIIa interface [polypeptide binding]; other site 999552007140 Phospholipid binding site [chemical binding]; other site 999552007141 Subunit I/III interface [polypeptide binding]; other site 999552007142 Subunit III/VIb interface [polypeptide binding]; other site 999552007143 Subunit III/VIa interface; other site 999552007144 Subunit III/Vb interface [polypeptide binding]; other site 999552007145 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 999552007146 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 999552007147 UbiA prenyltransferase family; Region: UbiA; pfam01040 999552007148 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 999552007149 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 999552007150 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 999552007151 protease TldD; Provisional; Region: tldD; PRK10735 999552007152 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 999552007153 DNA protecting protein DprA; Region: dprA; TIGR00732 999552007154 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 999552007155 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 999552007156 active site 999552007157 interdomain interaction site; other site 999552007158 putative metal-binding site [ion binding]; other site 999552007159 nucleotide binding site [chemical binding]; other site 999552007160 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 999552007161 domain I; other site 999552007162 DNA binding groove [nucleotide binding] 999552007163 phosphate binding site [ion binding]; other site 999552007164 domain II; other site 999552007165 domain III; other site 999552007166 nucleotide binding site [chemical binding]; other site 999552007167 catalytic site [active] 999552007168 domain IV; other site 999552007169 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 999552007170 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 999552007171 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 999552007172 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 999552007173 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 999552007174 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 999552007175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552007176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552007177 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 999552007178 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 999552007179 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552007180 catalytic residue [active] 999552007181 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 999552007182 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 999552007183 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 999552007184 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 999552007185 BON domain; Region: BON; pfam04972 999552007186 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 999552007187 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552007188 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552007189 ligand binding site [chemical binding]; other site 999552007190 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 999552007191 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 999552007192 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 999552007193 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 999552007194 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 999552007195 ATP binding site [chemical binding]; other site 999552007196 Walker A motif; other site 999552007197 hexamer interface [polypeptide binding]; other site 999552007198 Walker B motif; other site 999552007199 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 999552007200 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 999552007201 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 999552007202 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 999552007203 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552007204 TPR motif; other site 999552007205 binding surface 999552007206 TPR repeat; Region: TPR_11; pfam13414 999552007207 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 999552007208 RNA helicase; Region: RNA_helicase; pfam00910 999552007209 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 999552007210 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 999552007211 ATP binding site [chemical binding]; other site 999552007212 putative Mg++ binding site [ion binding]; other site 999552007213 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 999552007214 nucleotide binding region [chemical binding]; other site 999552007215 ATP-binding site [chemical binding]; other site 999552007216 DEAD/H associated; Region: DEAD_assoc; pfam08494 999552007217 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 999552007218 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 999552007219 putative active site [active] 999552007220 putative metal binding site [ion binding]; other site 999552007221 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 999552007222 CoenzymeA binding site [chemical binding]; other site 999552007223 subunit interaction site [polypeptide binding]; other site 999552007224 PHB binding site; other site 999552007225 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 999552007226 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 999552007227 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 999552007228 homodimer interface [polypeptide binding]; other site 999552007229 NADP binding site [chemical binding]; other site 999552007230 substrate binding site [chemical binding]; other site 999552007231 Chorismate mutase type II; Region: CM_2; smart00830 999552007232 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 999552007233 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 999552007234 Potassium binding sites [ion binding]; other site 999552007235 Cesium cation binding sites [ion binding]; other site 999552007236 MOSC domain; Region: MOSC; pfam03473 999552007237 FtsH Extracellular; Region: FtsH_ext; pfam06480 999552007238 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 999552007239 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 999552007240 Walker A motif; other site 999552007241 ATP binding site [chemical binding]; other site 999552007242 Walker B motif; other site 999552007243 arginine finger; other site 999552007244 Peptidase family M41; Region: Peptidase_M41; pfam01434 999552007245 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 999552007246 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 999552007247 Ligand Binding Site [chemical binding]; other site 999552007248 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 999552007249 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552007250 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552007251 ligand binding site [chemical binding]; other site 999552007252 translocation protein TolB; Provisional; Region: tolB; PRK05137 999552007253 TolB amino-terminal domain; Region: TolB_N; pfam04052 999552007254 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 999552007255 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 999552007256 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 999552007257 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 999552007258 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 999552007259 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 999552007260 TolR protein; Region: tolR; TIGR02801 999552007261 TolQ protein; Region: tolQ; TIGR02796 999552007262 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 999552007263 active site 999552007264 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 999552007265 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 999552007266 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 999552007267 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 999552007268 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 999552007269 Walker A motif; other site 999552007270 ATP binding site [chemical binding]; other site 999552007271 Walker B motif; other site 999552007272 arginine finger; other site 999552007273 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 999552007274 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 999552007275 RuvA N terminal domain; Region: RuvA_N; pfam01330 999552007276 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 999552007277 active site 999552007278 putative DNA-binding cleft [nucleotide binding]; other site 999552007279 dimer interface [polypeptide binding]; other site 999552007280 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 999552007281 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 999552007282 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 999552007283 S-adenosylmethionine binding site [chemical binding]; other site 999552007284 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 999552007285 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552007286 putative substrate translocation pore; other site 999552007287 primosome assembly protein PriA; Validated; Region: PRK05580 999552007288 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 999552007289 ATP binding site [chemical binding]; other site 999552007290 putative Mg++ binding site [ion binding]; other site 999552007291 helicase superfamily c-terminal domain; Region: HELICc; smart00490 999552007292 nucleotide binding region [chemical binding]; other site 999552007293 ATP-binding site [chemical binding]; other site 999552007294 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 999552007295 active site 999552007296 intersubunit interactions; other site 999552007297 catalytic residue [active] 999552007298 Protein of unknown function, DUF484; Region: DUF484; cl17449 999552007299 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 999552007300 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 999552007301 active site 999552007302 DNA binding site [nucleotide binding] 999552007303 Int/Topo IB signature motif; other site 999552007304 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 999552007305 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 999552007306 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 999552007307 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 999552007308 DNA binding site [nucleotide binding] 999552007309 active site 999552007310 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 999552007311 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 999552007312 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 999552007313 substrate binding pocket [chemical binding]; other site 999552007314 membrane-bound complex binding site; other site 999552007315 hinge residues; other site 999552007316 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 999552007317 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 999552007318 substrate binding pocket [chemical binding]; other site 999552007319 membrane-bound complex binding site; other site 999552007320 hinge residues; other site 999552007321 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 999552007322 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 999552007323 active site 999552007324 HIGH motif; other site 999552007325 nucleotide binding site [chemical binding]; other site 999552007326 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 999552007327 active site 999552007328 KMSKS motif; other site 999552007329 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 999552007330 tRNA binding surface [nucleotide binding]; other site 999552007331 anticodon binding site; other site 999552007332 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 999552007333 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 999552007334 heme-binding site [chemical binding]; other site 999552007335 hypothetical protein; Provisional; Region: PRK05415 999552007336 Domain of unknown function (DUF697); Region: DUF697; pfam05128 999552007337 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 999552007338 YcjX-like family, DUF463; Region: DUF463; pfam04317 999552007339 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 999552007340 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 999552007341 dimerization interface 3.5A [polypeptide binding]; other site 999552007342 active site 999552007343 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 999552007344 putative metal binding site [ion binding]; other site 999552007345 Uncharacterized conserved protein [Function unknown]; Region: COG1432 999552007346 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 999552007347 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 999552007348 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 999552007349 putative ligand binding site [chemical binding]; other site 999552007350 NAD binding site [chemical binding]; other site 999552007351 dimerization interface [polypeptide binding]; other site 999552007352 catalytic site [active] 999552007353 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552007354 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 999552007355 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 999552007356 lipoyl attachment site [posttranslational modification]; other site 999552007357 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 999552007358 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552007359 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 999552007360 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 999552007361 Bacterial transcriptional regulator; Region: IclR; pfam01614 999552007362 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 999552007363 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 999552007364 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 999552007365 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 999552007366 Surface antigen; Region: Bac_surface_Ag; pfam01103 999552007367 Family of unknown function (DUF490); Region: DUF490; pfam04357 999552007368 Family of unknown function (DUF490); Region: DUF490; pfam04357 999552007369 Glucokinase; Region: Glucokinase; cl17310 999552007370 glucokinase, proteobacterial type; Region: glk; TIGR00749 999552007371 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552007372 active site 999552007373 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 999552007374 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 999552007375 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 999552007376 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 999552007377 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 999552007378 active site 999552007379 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 999552007380 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 999552007381 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 999552007382 putative NADP binding site [chemical binding]; other site 999552007383 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 999552007384 active site 999552007385 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 999552007386 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 999552007387 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 999552007388 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 999552007389 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 999552007390 Probable Catalytic site; other site 999552007391 metal-binding site 999552007392 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 999552007393 active site 999552007394 substrate binding site [chemical binding]; other site 999552007395 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 999552007396 cosubstrate binding site; other site 999552007397 catalytic site [active] 999552007398 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 999552007399 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552007400 acyl-activating enzyme (AAE) consensus motif; other site 999552007401 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 999552007402 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 999552007403 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 999552007404 AMP binding site [chemical binding]; other site 999552007405 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 999552007406 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 999552007407 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 999552007408 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 999552007409 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 999552007410 active site 999552007411 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 999552007412 putative ADP-binding pocket [chemical binding]; other site 999552007413 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 999552007414 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 999552007415 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 999552007416 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 999552007417 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 999552007418 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 999552007419 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 999552007420 Bacterial sugar transferase; Region: Bac_transf; pfam02397 999552007421 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 999552007422 SurA N-terminal domain; Region: SurA_N; pfam09312 999552007423 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 999552007424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552007425 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 999552007426 TIGR03084 family protein; Region: TIGR03084 999552007427 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 999552007428 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 999552007429 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 999552007430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 999552007431 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 999552007432 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 999552007433 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 999552007434 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 999552007435 Walker A/P-loop; other site 999552007436 ATP binding site [chemical binding]; other site 999552007437 Q-loop/lid; other site 999552007438 ABC transporter signature motif; other site 999552007439 Walker B; other site 999552007440 D-loop; other site 999552007441 H-loop/switch region; other site 999552007442 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 999552007443 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 999552007444 Walker A/P-loop; other site 999552007445 ATP binding site [chemical binding]; other site 999552007446 Q-loop/lid; other site 999552007447 ABC transporter signature motif; other site 999552007448 Walker B; other site 999552007449 D-loop; other site 999552007450 H-loop/switch region; other site 999552007451 TOBE domain; Region: TOBE_2; pfam08402 999552007452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007453 dimer interface [polypeptide binding]; other site 999552007454 conserved gate region; other site 999552007455 putative PBP binding loops; other site 999552007456 ABC-ATPase subunit interface; other site 999552007457 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 999552007458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007459 dimer interface [polypeptide binding]; other site 999552007460 conserved gate region; other site 999552007461 ABC-ATPase subunit interface; other site 999552007462 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 999552007463 Penicillinase repressor; Region: Pencillinase_R; pfam03965 999552007464 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 999552007465 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 999552007466 Ca2+ binding site [ion binding]; other site 999552007467 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552007468 DNA-binding site [nucleotide binding]; DNA binding site 999552007469 RNA-binding motif; other site 999552007470 Protein of unknown function (DUF982); Region: DUF982; pfam06169 999552007471 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552007472 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 999552007473 ligand binding site [chemical binding]; other site 999552007474 flexible hinge region; other site 999552007475 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 999552007476 putative switch regulator; other site 999552007477 non-specific DNA interactions [nucleotide binding]; other site 999552007478 DNA binding site [nucleotide binding] 999552007479 sequence specific DNA binding site [nucleotide binding]; other site 999552007480 putative cAMP binding site [chemical binding]; other site 999552007481 NnrS protein; Region: NnrS; pfam05940 999552007482 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 999552007483 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 999552007484 dimer interface [polypeptide binding]; other site 999552007485 phosphorylation site [posttranslational modification] 999552007486 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 999552007487 ATP binding site [chemical binding]; other site 999552007488 Mg2+ binding site [ion binding]; other site 999552007489 G-X-G motif; other site 999552007490 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552007491 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552007492 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 999552007493 active site 999552007494 phosphorylation site [posttranslational modification] 999552007495 intermolecular recognition site; other site 999552007496 dimerization interface [polypeptide binding]; other site 999552007497 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 999552007498 Coenzyme A transferase; Region: CoA_trans; smart00882 999552007499 Coenzyme A transferase; Region: CoA_trans; cl17247 999552007500 hypothetical protein; Provisional; Region: PRK07482 999552007501 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 999552007502 inhibitor-cofactor binding pocket; inhibition site 999552007503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007504 catalytic residue [active] 999552007505 succinic semialdehyde dehydrogenase; Region: PLN02278 999552007506 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 999552007507 tetramerization interface [polypeptide binding]; other site 999552007508 NAD(P) binding site [chemical binding]; other site 999552007509 catalytic residues [active] 999552007510 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552007511 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 999552007512 putative DNA binding site [nucleotide binding]; other site 999552007513 putative Zn2+ binding site [ion binding]; other site 999552007514 AsnC family; Region: AsnC_trans_reg; pfam01037 999552007515 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 999552007516 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 999552007517 putative active site [active] 999552007518 Zn binding site [ion binding]; other site 999552007519 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 999552007520 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 999552007521 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 999552007522 active site 999552007523 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 999552007524 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552007525 DNA-binding site [nucleotide binding]; DNA binding site 999552007526 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 999552007527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007528 homodimer interface [polypeptide binding]; other site 999552007529 catalytic residue [active] 999552007530 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 999552007531 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 999552007532 inhibitor-cofactor binding pocket; inhibition site 999552007533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007534 catalytic residue [active] 999552007535 WxcM-like, C-terminal; Region: FdtA; pfam05523 999552007536 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 999552007537 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 999552007538 putative trimer interface [polypeptide binding]; other site 999552007539 putative CoA binding site [chemical binding]; other site 999552007540 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 999552007541 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 999552007542 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 999552007543 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 999552007544 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 999552007545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552007546 dimer interface [polypeptide binding]; other site 999552007547 putative CheW interface [polypeptide binding]; other site 999552007548 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; cl17355 999552007549 Predicted integral membrane protein [Function unknown]; Region: COG5616 999552007550 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552007551 TPR motif; other site 999552007552 binding surface 999552007553 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 999552007554 TPR motif; other site 999552007555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 999552007556 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 999552007557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552007558 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 999552007559 dimerization interface [polypeptide binding]; other site 999552007560 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 999552007561 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 999552007562 heterodimer interface [polypeptide binding]; other site 999552007563 multimer interface [polypeptide binding]; other site 999552007564 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 999552007565 active site 999552007566 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 999552007567 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 999552007568 heterodimer interface [polypeptide binding]; other site 999552007569 active site 999552007570 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 999552007571 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 999552007572 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 999552007573 DNA binding residues [nucleotide binding] 999552007574 dimer interface [polypeptide binding]; other site 999552007575 copper binding site [ion binding]; other site 999552007576 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 999552007577 metal-binding site [ion binding] 999552007578 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 999552007579 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 999552007580 metal-binding site [ion binding] 999552007581 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 999552007582 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 999552007583 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 999552007584 substrate binding site [chemical binding]; other site 999552007585 catalytic Zn binding site [ion binding]; other site 999552007586 NAD binding site [chemical binding]; other site 999552007587 structural Zn binding site [ion binding]; other site 999552007588 dimer interface [polypeptide binding]; other site 999552007589 SpoVR family protein; Provisional; Region: PRK11767 999552007590 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 999552007591 hypothetical protein; Provisional; Region: PRK05325 999552007592 PrkA family serine protein kinase; Provisional; Region: PRK15455 999552007593 AAA ATPase domain; Region: AAA_16; pfam13191 999552007594 Walker A motif; other site 999552007595 ATP binding site [chemical binding]; other site 999552007596 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 999552007597 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 999552007598 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 999552007599 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 999552007600 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552007601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552007602 Walker A/P-loop; other site 999552007603 ATP binding site [chemical binding]; other site 999552007604 Q-loop/lid; other site 999552007605 ABC transporter signature motif; other site 999552007606 Walker B; other site 999552007607 D-loop; other site 999552007608 H-loop/switch region; other site 999552007609 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 999552007610 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 999552007611 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552007612 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 999552007613 active site 999552007614 HAMP domain; Region: HAMP; pfam00672 999552007615 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552007616 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 999552007617 active site 999552007618 phosphorylation site [posttranslational modification] 999552007619 intermolecular recognition site; other site 999552007620 dimerization interface [polypeptide binding]; other site 999552007621 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552007622 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 999552007623 active site 999552007624 phosphorylation site [posttranslational modification] 999552007625 intermolecular recognition site; other site 999552007626 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 999552007627 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 999552007628 active site 999552007629 phosphorylation site [posttranslational modification] 999552007630 intermolecular recognition site; other site 999552007631 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 999552007632 dimer interface [polypeptide binding]; other site 999552007633 phosphorylation site [posttranslational modification] 999552007634 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 999552007635 ATP binding site [chemical binding]; other site 999552007636 Mg2+ binding site [ion binding]; other site 999552007637 G-X-G motif; other site 999552007638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 999552007639 HTH-like domain; Region: HTH_21; pfam13276 999552007640 Integrase core domain; Region: rve; pfam00665 999552007641 Integrase core domain; Region: rve_3; pfam13683 999552007642 Transposase; Region: HTH_Tnp_1; pfam01527 999552007643 HTH-like domain; Region: HTH_21; pfam13276 999552007644 Integrase core domain; Region: rve; pfam00665 999552007645 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 999552007646 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552007647 DNA-binding site [nucleotide binding]; DNA binding site 999552007648 FCD domain; Region: FCD; pfam07729 999552007649 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552007650 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 999552007651 non-specific DNA binding site [nucleotide binding]; other site 999552007652 salt bridge; other site 999552007653 sequence-specific DNA binding site [nucleotide binding]; other site 999552007654 Cupin domain; Region: Cupin_2; pfam07883 999552007655 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 999552007656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552007657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552007658 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552007659 lipoyl synthase; Provisional; Region: PRK05481 999552007660 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 999552007661 FeS/SAM binding site; other site 999552007662 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 999552007663 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 999552007664 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552007665 Ligand Binding Site [chemical binding]; other site 999552007666 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 999552007667 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552007668 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 999552007669 lipoyl attachment site [posttranslational modification]; other site 999552007670 Helix-turn-helix domain; Region: HTH_18; pfam12833 999552007671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552007672 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 999552007673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007674 dimer interface [polypeptide binding]; other site 999552007675 conserved gate region; other site 999552007676 putative PBP binding loops; other site 999552007677 ABC-ATPase subunit interface; other site 999552007678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007679 dimer interface [polypeptide binding]; other site 999552007680 conserved gate region; other site 999552007681 putative PBP binding loops; other site 999552007682 ABC-ATPase subunit interface; other site 999552007683 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552007684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552007685 Walker A/P-loop; other site 999552007686 ATP binding site [chemical binding]; other site 999552007687 Q-loop/lid; other site 999552007688 ABC transporter signature motif; other site 999552007689 Walker B; other site 999552007690 D-loop; other site 999552007691 H-loop/switch region; other site 999552007692 TOBE domain; Region: TOBE_2; pfam08402 999552007693 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 999552007694 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552007695 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552007696 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 999552007697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007698 dimer interface [polypeptide binding]; other site 999552007699 conserved gate region; other site 999552007700 putative PBP binding loops; other site 999552007701 ABC-ATPase subunit interface; other site 999552007702 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 999552007703 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 999552007704 Walker A/P-loop; other site 999552007705 ATP binding site [chemical binding]; other site 999552007706 Q-loop/lid; other site 999552007707 ABC transporter signature motif; other site 999552007708 Walker B; other site 999552007709 D-loop; other site 999552007710 H-loop/switch region; other site 999552007711 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 999552007712 substrate binding pocket [chemical binding]; other site 999552007713 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 999552007714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552007715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552007716 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 999552007717 dimerization interface [polypeptide binding]; other site 999552007718 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 999552007719 histidinol dehydrogenase; Region: hisD; TIGR00069 999552007720 NAD binding site [chemical binding]; other site 999552007721 dimerization interface [polypeptide binding]; other site 999552007722 product binding site; other site 999552007723 substrate binding site [chemical binding]; other site 999552007724 zinc binding site [ion binding]; other site 999552007725 catalytic residues [active] 999552007726 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 999552007727 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 999552007728 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 999552007729 Walker A/P-loop; other site 999552007730 ATP binding site [chemical binding]; other site 999552007731 Q-loop/lid; other site 999552007732 ABC transporter signature motif; other site 999552007733 Walker B; other site 999552007734 D-loop; other site 999552007735 H-loop/switch region; other site 999552007736 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 999552007737 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 999552007738 nitrous-oxide reductase, TAT-dependent; Region: nitrous_NosZ_RR; TIGR04244 999552007739 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 999552007740 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 999552007741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007742 dimer interface [polypeptide binding]; other site 999552007743 conserved gate region; other site 999552007744 putative PBP binding loops; other site 999552007745 ABC-ATPase subunit interface; other site 999552007746 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552007747 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 999552007748 dimer interface [polypeptide binding]; other site 999552007749 conserved gate region; other site 999552007750 putative PBP binding loops; other site 999552007751 ABC-ATPase subunit interface; other site 999552007752 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 999552007753 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 999552007754 substrate binding pocket [chemical binding]; other site 999552007755 membrane-bound complex binding site; other site 999552007756 hinge residues; other site 999552007757 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 999552007758 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 999552007759 Walker A/P-loop; other site 999552007760 ATP binding site [chemical binding]; other site 999552007761 Q-loop/lid; other site 999552007762 ABC transporter signature motif; other site 999552007763 Walker B; other site 999552007764 D-loop; other site 999552007765 H-loop/switch region; other site 999552007766 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552007767 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 999552007768 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 999552007769 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 999552007770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007771 homodimer interface [polypeptide binding]; other site 999552007772 catalytic residue [active] 999552007773 hypothetical protein; Provisional; Region: PRK07524 999552007774 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552007775 PYR/PP interface [polypeptide binding]; other site 999552007776 dimer interface [polypeptide binding]; other site 999552007777 TPP binding site [chemical binding]; other site 999552007778 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552007779 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 999552007780 TPP-binding site [chemical binding]; other site 999552007781 Amidinotransferase; Region: Amidinotransf; cl12043 999552007782 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 999552007783 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 999552007784 FAD binding site [chemical binding]; other site 999552007785 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 999552007786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 999552007787 Transposase; Region: HTH_Tnp_1; pfam01527 999552007788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 999552007789 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 999552007790 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 999552007791 Int/Topo IB signature motif; other site 999552007792 DNA binding site [nucleotide binding] 999552007793 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 999552007794 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 999552007795 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 999552007796 phosphogluconate dehydratase; Validated; Region: PRK09054 999552007797 6-phosphogluconate dehydratase; Region: edd; TIGR01196 999552007798 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 999552007799 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 999552007800 active site 999552007801 intersubunit interface [polypeptide binding]; other site 999552007802 catalytic residue [active] 999552007803 D-cysteine desulfhydrase; Validated; Region: PRK03910 999552007804 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 999552007805 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552007806 catalytic residue [active] 999552007807 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 999552007808 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 999552007809 catalytic residues [active] 999552007810 hypothetical protein; Provisional; Region: PRK07483 999552007811 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 999552007812 inhibitor-cofactor binding pocket; inhibition site 999552007813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007814 catalytic residue [active] 999552007815 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 999552007816 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 999552007817 aminotransferase; Validated; Region: PRK07678 999552007818 inhibitor-cofactor binding pocket; inhibition site 999552007819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007820 catalytic residue [active] 999552007821 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 999552007822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552007823 DNA-binding site [nucleotide binding]; DNA binding site 999552007824 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 999552007825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007826 homodimer interface [polypeptide binding]; other site 999552007827 catalytic residue [active] 999552007828 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 999552007829 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552007830 PYR/PP interface [polypeptide binding]; other site 999552007831 dimer interface [polypeptide binding]; other site 999552007832 TPP binding site [chemical binding]; other site 999552007833 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552007834 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 999552007835 TPP-binding site [chemical binding]; other site 999552007836 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552007837 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 999552007838 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 999552007839 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 999552007840 molybdopterin cofactor binding site; other site 999552007841 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 999552007842 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 999552007843 putative molybdopterin cofactor binding site; other site 999552007844 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 999552007845 4Fe-4S binding domain; Region: Fer4; pfam00037 999552007846 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 999552007847 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 999552007848 Uncharacterized conserved protein [Function unknown]; Region: COG2128 999552007849 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 999552007850 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552007851 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 999552007852 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 999552007853 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 999552007854 dimer interface [polypeptide binding]; other site 999552007855 active site 999552007856 catalytic residue [active] 999552007857 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 999552007858 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 999552007859 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552007860 catalytic residue [active] 999552007861 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552007862 Uncharacterized conserved protein [Function unknown]; Region: COG4121 999552007863 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552007864 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552007865 Predicted flavoprotein [General function prediction only]; Region: COG0431 999552007866 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552007867 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552007868 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552007869 ligand binding site [chemical binding]; other site 999552007870 Predicted transcriptional regulator [Transcription]; Region: COG2378 999552007871 HTH domain; Region: HTH_11; pfam08279 999552007872 WYL domain; Region: WYL; pfam13280 999552007873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552007874 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 999552007875 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 999552007876 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 999552007877 minor groove reading motif; other site 999552007878 helix-hairpin-helix signature motif; other site 999552007879 substrate binding pocket [chemical binding]; other site 999552007880 active site 999552007881 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 999552007882 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 999552007883 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 999552007884 substrate binding site [chemical binding]; other site 999552007885 ATP binding site [chemical binding]; other site 999552007886 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 999552007887 MarR family; Region: MarR_2; cl17246 999552007888 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 999552007889 putative active site [active] 999552007890 Ap4A binding site [chemical binding]; other site 999552007891 nudix motif; other site 999552007892 putative metal binding site [ion binding]; other site 999552007893 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 999552007894 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 999552007895 active site 999552007896 FMN binding site [chemical binding]; other site 999552007897 2,4-decadienoyl-CoA binding site; other site 999552007898 catalytic residue [active] 999552007899 4Fe-4S cluster binding site [ion binding]; other site 999552007900 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 999552007901 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 999552007902 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 999552007903 oligomer interface [polypeptide binding]; other site 999552007904 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 999552007905 NIPSNAP; Region: NIPSNAP; pfam07978 999552007906 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 999552007907 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 999552007908 active site 999552007909 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 999552007910 Mechanosensitive ion channel; Region: MS_channel; pfam00924 999552007911 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 999552007912 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 999552007913 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 999552007914 putative MPT binding site; other site 999552007915 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 999552007916 Coenzyme A binding pocket [chemical binding]; other site 999552007917 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 999552007918 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 999552007919 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552007920 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552007921 ligand binding site [chemical binding]; other site 999552007922 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 999552007923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552007924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552007925 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552007926 putative effector binding pocket; other site 999552007927 dimerization interface [polypeptide binding]; other site 999552007928 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 999552007929 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 999552007930 S-adenosylmethionine binding site [chemical binding]; other site 999552007931 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 999552007932 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 999552007933 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552007934 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 999552007935 catalytic triad [active] 999552007936 dimer interface [polypeptide binding]; other site 999552007937 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 999552007938 aromatic arch; other site 999552007939 DCoH dimer interaction site [polypeptide binding]; other site 999552007940 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 999552007941 DCoH tetramer interaction site [polypeptide binding]; other site 999552007942 substrate binding site [chemical binding]; other site 999552007943 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 999552007944 Protein of unknown function, DUF482; Region: DUF482; pfam04339 999552007945 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 999552007946 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 999552007947 active site 999552007948 catalytic site [active] 999552007949 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 999552007950 homotrimer interaction site [polypeptide binding]; other site 999552007951 putative active site [active] 999552007952 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 999552007953 Peptidase family M23; Region: Peptidase_M23; pfam01551 999552007954 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 999552007955 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552007956 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 999552007957 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552007958 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 999552007959 Walker A/P-loop; other site 999552007960 ATP binding site [chemical binding]; other site 999552007961 Q-loop/lid; other site 999552007962 ABC transporter signature motif; other site 999552007963 Walker B; other site 999552007964 D-loop; other site 999552007965 H-loop/switch region; other site 999552007966 VacJ like lipoprotein; Region: VacJ; cl01073 999552007967 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 999552007968 Transglycosylase; Region: Transgly; pfam00912 999552007969 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 999552007970 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 999552007971 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 999552007972 Nitrogen regulatory protein P-II; Region: P-II; smart00938 999552007973 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 999552007974 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 999552007975 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 999552007976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552007977 homodimer interface [polypeptide binding]; other site 999552007978 catalytic residue [active] 999552007979 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 999552007980 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 999552007981 active site residue [active] 999552007982 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 999552007983 active site residue [active] 999552007984 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 999552007985 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 999552007986 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 999552007987 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 999552007988 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 999552007989 SmpB-tmRNA interface; other site 999552007990 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552007991 EamA-like transporter family; Region: EamA; pfam00892 999552007992 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552007993 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 999552007994 non-specific DNA binding site [nucleotide binding]; other site 999552007995 salt bridge; other site 999552007996 sequence-specific DNA binding site [nucleotide binding]; other site 999552007997 Cupin domain; Region: Cupin_2; pfam07883 999552007998 Benzoate membrane transport protein; Region: BenE; pfam03594 999552007999 benzoate transporter; Region: benE; TIGR00843 999552008000 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 999552008001 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 999552008002 Core-2/I-Branching enzyme; Region: Branch; pfam02485 999552008003 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 999552008004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008005 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 999552008006 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552008007 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 999552008008 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 999552008009 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 999552008010 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 999552008011 FAD binding pocket [chemical binding]; other site 999552008012 FAD binding motif [chemical binding]; other site 999552008013 phosphate binding motif [ion binding]; other site 999552008014 beta-alpha-beta structure motif; other site 999552008015 NAD binding pocket [chemical binding]; other site 999552008016 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552008017 catalytic loop [active] 999552008018 iron binding site [ion binding]; other site 999552008019 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 999552008020 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 999552008021 [2Fe-2S] cluster binding site [ion binding]; other site 999552008022 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 999552008023 putative alpha subunit interface [polypeptide binding]; other site 999552008024 putative active site [active] 999552008025 putative substrate binding site [chemical binding]; other site 999552008026 Fe binding site [ion binding]; other site 999552008027 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 999552008028 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 999552008029 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 999552008030 Walker A motif; other site 999552008031 ATP binding site [chemical binding]; other site 999552008032 Walker B motif; other site 999552008033 arginine finger; other site 999552008034 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 999552008035 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 999552008036 Methyltransferase domain; Region: Methyltransf_23; pfam13489 999552008037 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 999552008038 S-adenosylmethionine binding site [chemical binding]; other site 999552008039 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 999552008040 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 999552008041 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 999552008042 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 999552008043 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 999552008044 active site 999552008045 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552008046 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 999552008047 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 999552008048 tetramerization interface [polypeptide binding]; other site 999552008049 NAD(P) binding site [chemical binding]; other site 999552008050 catalytic residues [active] 999552008051 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 999552008052 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 999552008053 putative dimer interface [polypeptide binding]; other site 999552008054 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 999552008055 active site 999552008056 substrate binding sites [chemical binding]; other site 999552008057 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 999552008058 active site 999552008059 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 999552008060 Cysteine-rich domain; Region: CCG; pfam02754 999552008061 Cysteine-rich domain; Region: CCG; pfam02754 999552008062 FAD binding domain; Region: FAD_binding_4; pfam01565 999552008063 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 999552008064 FAD binding domain; Region: FAD_binding_4; pfam01565 999552008065 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 999552008066 Protein of unknown function, DUF599; Region: DUF599; pfam04654 999552008067 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 999552008068 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 999552008069 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 999552008070 Mechanosensitive ion channel; Region: MS_channel; pfam00924 999552008071 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 999552008072 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 999552008073 substrate binding site [chemical binding]; other site 999552008074 ligand binding site [chemical binding]; other site 999552008075 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 999552008076 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 999552008077 substrate binding site [chemical binding]; other site 999552008078 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 999552008079 tartrate dehydrogenase; Region: TTC; TIGR02089 999552008080 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 999552008081 cell density-dependent motility repressor; Provisional; Region: PRK10082 999552008082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008083 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552008084 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 999552008085 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552008086 Walker A/P-loop; other site 999552008087 ATP binding site [chemical binding]; other site 999552008088 Q-loop/lid; other site 999552008089 ABC transporter signature motif; other site 999552008090 Walker B; other site 999552008091 D-loop; other site 999552008092 H-loop/switch region; other site 999552008093 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 999552008094 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 999552008095 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552008096 Walker A/P-loop; other site 999552008097 ATP binding site [chemical binding]; other site 999552008098 Q-loop/lid; other site 999552008099 ABC transporter signature motif; other site 999552008100 Walker B; other site 999552008101 D-loop; other site 999552008102 H-loop/switch region; other site 999552008103 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 999552008104 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 999552008105 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552008106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008107 dimer interface [polypeptide binding]; other site 999552008108 conserved gate region; other site 999552008109 putative PBP binding loops; other site 999552008110 ABC-ATPase subunit interface; other site 999552008111 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552008112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008113 dimer interface [polypeptide binding]; other site 999552008114 conserved gate region; other site 999552008115 putative PBP binding loops; other site 999552008116 ABC-ATPase subunit interface; other site 999552008117 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 999552008118 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 999552008119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 999552008120 SnoaL-like domain; Region: SnoaL_2; pfam12680 999552008121 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552008122 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552008123 conserved cys residue [active] 999552008124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552008125 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552008126 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552008127 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552008128 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552008129 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552008130 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552008131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008132 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 999552008133 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 999552008134 dimerization interface [polypeptide binding]; other site 999552008135 substrate binding pocket [chemical binding]; other site 999552008136 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 999552008137 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 999552008138 ABC-ATPase subunit interface; other site 999552008139 dimer interface [polypeptide binding]; other site 999552008140 putative PBP binding regions; other site 999552008141 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 999552008142 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 999552008143 ABC-ATPase subunit interface; other site 999552008144 dimer interface [polypeptide binding]; other site 999552008145 putative PBP binding regions; other site 999552008146 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 999552008147 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 999552008148 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 999552008149 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 999552008150 metal binding site [ion binding]; metal-binding site 999552008151 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 999552008152 active site 999552008153 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 999552008154 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 999552008155 Sulfatase; Region: Sulfatase; pfam00884 999552008156 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 999552008157 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 999552008158 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 999552008159 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 999552008160 active site 999552008161 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 999552008162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552008163 catalytic residue [active] 999552008164 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 999552008165 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 999552008166 metal binding site [ion binding]; metal-binding site 999552008167 putative dimer interface [polypeptide binding]; other site 999552008168 cytidylate kinase; Provisional; Region: cmk; PRK00023 999552008169 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 999552008170 CMP-binding site; other site 999552008171 The sites determining sugar specificity; other site 999552008172 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 999552008173 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 999552008174 hinge; other site 999552008175 active site 999552008176 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 999552008177 S-adenosylmethionine binding site [chemical binding]; other site 999552008178 Predicted periplasmic protein [Function unknown]; Region: COG3904 999552008179 S-adenosylmethionine synthetase; Validated; Region: PRK05250 999552008180 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 999552008181 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 999552008182 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 999552008183 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 999552008184 putative active site [active] 999552008185 catalytic triad [active] 999552008186 putative dimer interface [polypeptide binding]; other site 999552008187 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 999552008188 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 999552008189 Transporter associated domain; Region: CorC_HlyC; smart01091 999552008190 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 999552008191 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 999552008192 PhoH-like protein; Region: PhoH; pfam02562 999552008193 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552008194 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552008195 ligand binding site [chemical binding]; other site 999552008196 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 999552008197 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 999552008198 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 999552008199 FeS/SAM binding site; other site 999552008200 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552008201 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 999552008202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552008203 DNA-binding site [nucleotide binding]; DNA binding site 999552008204 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 999552008205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008206 homodimer interface [polypeptide binding]; other site 999552008207 catalytic residue [active] 999552008208 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 999552008209 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 999552008210 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 999552008211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552008212 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 999552008213 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 999552008214 iron-sulfur cluster [ion binding]; other site 999552008215 [2Fe-2S] cluster binding site [ion binding]; other site 999552008216 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 999552008217 hydrophobic ligand binding site; other site 999552008218 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 999552008219 ferredoxin-NADP+ reductase; Region: PLN02852 999552008220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552008221 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552008222 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 999552008223 NAD(P) binding site [chemical binding]; other site 999552008224 catalytic residues [active] 999552008225 L-aspartate dehydrogenase; Provisional; Region: PRK13303 999552008226 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 999552008227 Domain of unknown function DUF108; Region: DUF108; pfam01958 999552008228 hypothetical protein; Provisional; Region: PRK07064 999552008229 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552008230 PYR/PP interface [polypeptide binding]; other site 999552008231 dimer interface [polypeptide binding]; other site 999552008232 TPP binding site [chemical binding]; other site 999552008233 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552008234 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 999552008235 TPP-binding site [chemical binding]; other site 999552008236 short chain dehydrogenase; Provisional; Region: PRK07062 999552008237 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 999552008238 putative NAD(P) binding site [chemical binding]; other site 999552008239 putative active site [active] 999552008240 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 999552008241 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 999552008242 active site 999552008243 metal binding site [ion binding]; metal-binding site 999552008244 C-terminal, catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacterium Rhodococcus rhodochrous K37 and similar proteins; Region: BphC5-RK37_C_like; cd07239 999552008245 putative active site [active] 999552008246 Mn binding site [ion binding]; other site 999552008247 putative oligomer interface [polypeptide binding]; other site 999552008248 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552008249 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 999552008250 nucleophilic elbow; other site 999552008251 catalytic triad; other site 999552008252 short chain dehydrogenase; Provisional; Region: PRK12939 999552008253 classical (c) SDRs; Region: SDR_c; cd05233 999552008254 NAD(P) binding site [chemical binding]; other site 999552008255 active site 999552008256 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 999552008257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008258 dimer interface [polypeptide binding]; other site 999552008259 conserved gate region; other site 999552008260 putative PBP binding loops; other site 999552008261 ABC-ATPase subunit interface; other site 999552008262 NMT1/THI5 like; Region: NMT1; pfam09084 999552008263 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552008264 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 999552008265 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 999552008266 Walker A/P-loop; other site 999552008267 ATP binding site [chemical binding]; other site 999552008268 Q-loop/lid; other site 999552008269 ABC transporter signature motif; other site 999552008270 Walker B; other site 999552008271 D-loop; other site 999552008272 H-loop/switch region; other site 999552008273 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 999552008274 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 999552008275 Transcriptional regulator [Transcription]; Region: IclR; COG1414 999552008276 Bacterial transcriptional regulator; Region: IclR; pfam01614 999552008277 Cupin domain; Region: Cupin_2; pfam07883 999552008278 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 999552008279 Transcriptional regulator [Transcription]; Region: IclR; COG1414 999552008280 Bacterial transcriptional regulator; Region: IclR; pfam01614 999552008281 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 999552008282 ATP binding site [chemical binding]; other site 999552008283 putative Mg++ binding site [ion binding]; other site 999552008284 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 999552008285 nucleotide binding region [chemical binding]; other site 999552008286 ATP-binding site [chemical binding]; other site 999552008287 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 999552008288 RNase_H superfamily; Region: RNase_H_2; pfam13482 999552008289 Part of AAA domain; Region: AAA_19; pfam13245 999552008290 AAA domain; Region: AAA_11; pfam13086 999552008291 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 999552008292 AAA domain; Region: AAA_12; pfam13087 999552008293 Predicted transcriptional regulator [Transcription]; Region: COG2378 999552008294 WYL domain; Region: WYL; pfam13280 999552008295 Peptidase M15; Region: Peptidase_M15_3; cl01194 999552008296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 999552008297 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 999552008298 C1q domain; Region: C1q; cl17543 999552008299 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 999552008300 Putative phage tail protein; Region: Phage-tail_3; pfam13550 999552008301 NlpC/P60 family; Region: NLPC_P60; cl17555 999552008302 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 999552008303 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 999552008304 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 999552008305 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 999552008306 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 999552008307 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 999552008308 LabA_like proteins; Region: LabA_like/DUF88; cl10034 999552008309 putative metal binding site [ion binding]; other site 999552008310 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 999552008311 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552008312 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552008313 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552008314 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 999552008315 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 999552008316 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 999552008317 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 999552008318 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 999552008319 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 999552008320 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 999552008321 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 999552008322 ParB-like nuclease domain; Region: ParBc; pfam02195 999552008323 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 999552008324 DNA methylase; Region: N6_N4_Mtase; pfam01555 999552008325 AAA domain; Region: AAA_25; pfam13481 999552008326 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 999552008327 ATP binding site [chemical binding]; other site 999552008328 Walker B motif; other site 999552008329 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 999552008330 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 999552008331 ATP binding site [chemical binding]; other site 999552008332 putative Mg++ binding site [ion binding]; other site 999552008333 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 999552008334 nucleotide binding region [chemical binding]; other site 999552008335 ATP-binding site [chemical binding]; other site 999552008336 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 999552008337 AAA domain; Region: AAA_24; pfam13479 999552008338 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 999552008339 Protein of unknown function DUF262; Region: DUF262; pfam03235 999552008340 Uncharacterized conserved protein [Function unknown]; Region: COG3472 999552008341 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; cl17355 999552008342 DNA binding site [nucleotide binding] 999552008343 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 999552008344 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 999552008345 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 999552008346 catalytic residues [active] 999552008347 catalytic nucleophile [active] 999552008348 Presynaptic Site I dimer interface [polypeptide binding]; other site 999552008349 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 999552008350 Synaptic Flat tetramer interface [polypeptide binding]; other site 999552008351 Synaptic Site I dimer interface [polypeptide binding]; other site 999552008352 DNA binding site [nucleotide binding] 999552008353 Recombinase; Region: Recombinase; pfam07508 999552008354 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 999552008355 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 999552008356 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 999552008357 HsdM N-terminal domain; Region: HsdM_N; pfam12161 999552008358 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 999552008359 Methyltransferase domain; Region: Methyltransf_26; pfam13659 999552008360 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 999552008361 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 999552008362 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 999552008363 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 999552008364 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 999552008365 ATP binding site [chemical binding]; other site 999552008366 putative Mg++ binding site [ion binding]; other site 999552008367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552008368 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 999552008369 DNA-binding site [nucleotide binding]; DNA binding site 999552008370 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 999552008371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008372 homodimer interface [polypeptide binding]; other site 999552008373 catalytic residue [active] 999552008374 EamA-like transporter family; Region: EamA; pfam00892 999552008375 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 999552008376 active site 999552008377 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 999552008378 putative active site [active] 999552008379 catalytic residue [active] 999552008380 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552008381 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 999552008382 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 999552008383 5S rRNA interface [nucleotide binding]; other site 999552008384 CTC domain interface [polypeptide binding]; other site 999552008385 L16 interface [polypeptide binding]; other site 999552008386 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 999552008387 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 999552008388 active site 999552008389 substrate binding site [chemical binding]; other site 999552008390 FMN binding site [chemical binding]; other site 999552008391 putative catalytic residues [active] 999552008392 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 999552008393 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 999552008394 substrate binding site [chemical binding]; other site 999552008395 active site 999552008396 catalytic residues [active] 999552008397 heterodimer interface [polypeptide binding]; other site 999552008398 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 999552008399 GTP-binding protein YchF; Reviewed; Region: PRK09601 999552008400 YchF GTPase; Region: YchF; cd01900 999552008401 G1 box; other site 999552008402 GTP/Mg2+ binding site [chemical binding]; other site 999552008403 Switch I region; other site 999552008404 G2 box; other site 999552008405 Switch II region; other site 999552008406 G3 box; other site 999552008407 G4 box; other site 999552008408 G5 box; other site 999552008409 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 999552008410 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 999552008411 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 999552008412 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 999552008413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008414 catalytic residue [active] 999552008415 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 999552008416 active site 999552008417 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 999552008418 IHF dimer interface [polypeptide binding]; other site 999552008419 IHF - DNA interface [nucleotide binding]; other site 999552008420 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 999552008421 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 999552008422 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 999552008423 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 999552008424 RNA binding site [nucleotide binding]; other site 999552008425 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 999552008426 RNA binding site [nucleotide binding]; other site 999552008427 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 999552008428 RNA binding site [nucleotide binding]; other site 999552008429 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 999552008430 RNA binding site [nucleotide binding]; other site 999552008431 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 999552008432 RNA binding site [nucleotide binding]; other site 999552008433 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 999552008434 RNA binding site [nucleotide binding]; other site 999552008435 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 999552008436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552008437 DNA-binding site [nucleotide binding]; DNA binding site 999552008438 UTRA domain; Region: UTRA; pfam07702 999552008439 Hint domain; Region: Hint_2; pfam13403 999552008440 Transcriptional regulators [Transcription]; Region: PurR; COG1609 999552008441 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 999552008442 DNA binding site [nucleotide binding] 999552008443 domain linker motif; other site 999552008444 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 999552008445 dimerization interface [polypeptide binding]; other site 999552008446 ligand binding site [chemical binding]; other site 999552008447 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 999552008448 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 999552008449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 999552008450 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008451 putative PBP binding loops; other site 999552008452 dimer interface [polypeptide binding]; other site 999552008453 ABC-ATPase subunit interface; other site 999552008454 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 999552008455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008456 dimer interface [polypeptide binding]; other site 999552008457 conserved gate region; other site 999552008458 putative PBP binding loops; other site 999552008459 ABC-ATPase subunit interface; other site 999552008460 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 999552008461 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 999552008462 Walker A/P-loop; other site 999552008463 ATP binding site [chemical binding]; other site 999552008464 Q-loop/lid; other site 999552008465 ABC transporter signature motif; other site 999552008466 Walker B; other site 999552008467 D-loop; other site 999552008468 H-loop/switch region; other site 999552008469 TOBE domain; Region: TOBE_2; pfam08402 999552008470 sorbitol dehydrogenase; Provisional; Region: PRK07067 999552008471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552008472 NAD(P) binding site [chemical binding]; other site 999552008473 active site 999552008474 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 999552008475 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 999552008476 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 999552008477 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 999552008478 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 999552008479 putative substrate binding site [chemical binding]; other site 999552008480 putative ATP binding site [chemical binding]; other site 999552008481 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 999552008482 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 999552008483 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 999552008484 phosphogluconate dehydratase; Validated; Region: PRK09054 999552008485 6-phosphogluconate dehydratase; Region: edd; TIGR01196 999552008486 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 999552008487 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 999552008488 active site 999552008489 intersubunit interface [polypeptide binding]; other site 999552008490 catalytic residue [active] 999552008491 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 999552008492 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 999552008493 active site 999552008494 dimer interface [polypeptide binding]; other site 999552008495 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 999552008496 dimer interface [polypeptide binding]; other site 999552008497 active site 999552008498 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 999552008499 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 999552008500 N-terminal plug; other site 999552008501 ligand-binding site [chemical binding]; other site 999552008502 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 999552008503 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 999552008504 intersubunit interface [polypeptide binding]; other site 999552008505 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 999552008506 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 999552008507 putative PBP binding regions; other site 999552008508 ABC-ATPase subunit interface; other site 999552008509 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 999552008510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552008511 Walker A/P-loop; other site 999552008512 ATP binding site [chemical binding]; other site 999552008513 Q-loop/lid; other site 999552008514 ABC transporter signature motif; other site 999552008515 Walker B; other site 999552008516 D-loop; other site 999552008517 H-loop/switch region; other site 999552008518 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 999552008519 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 999552008520 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 999552008521 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 999552008522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552008523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008524 LysR substrate binding domain; Region: LysR_substrate; pfam03466 999552008525 dimerization interface [polypeptide binding]; other site 999552008526 glutathionine S-transferase; Provisional; Region: PRK10542 999552008527 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 999552008528 C-terminal domain interface [polypeptide binding]; other site 999552008529 GSH binding site (G-site) [chemical binding]; other site 999552008530 dimer interface [polypeptide binding]; other site 999552008531 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 999552008532 dimer interface [polypeptide binding]; other site 999552008533 N-terminal domain interface [polypeptide binding]; other site 999552008534 substrate binding pocket (H-site) [chemical binding]; other site 999552008535 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 999552008536 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 999552008537 active site 1 [active] 999552008538 dimer interface [polypeptide binding]; other site 999552008539 hexamer interface [polypeptide binding]; other site 999552008540 active site 2 [active] 999552008541 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 999552008542 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 999552008543 FMN binding site [chemical binding]; other site 999552008544 substrate binding site [chemical binding]; other site 999552008545 putative catalytic residue [active] 999552008546 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 999552008547 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 999552008548 putative NAD(P) binding site [chemical binding]; other site 999552008549 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552008550 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552008551 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 999552008552 Transposase; Region: HTH_Tnp_1; cl17663 999552008553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552008554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008555 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 999552008556 dimerization interface [polypeptide binding]; other site 999552008557 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 999552008558 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 999552008559 metal binding site [ion binding]; metal-binding site 999552008560 putative dimer interface [polypeptide binding]; other site 999552008561 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 999552008562 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552008563 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 999552008564 DctM-like transporters; Region: DctM; pfam06808 999552008565 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552008566 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 999552008567 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 999552008568 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 999552008569 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552008570 PAS domain; Region: PAS_9; pfam13426 999552008571 putative active site [active] 999552008572 heme pocket [chemical binding]; other site 999552008573 PAS domain S-box; Region: sensory_box; TIGR00229 999552008574 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552008575 putative active site [active] 999552008576 heme pocket [chemical binding]; other site 999552008577 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 999552008578 HWE histidine kinase; Region: HWE_HK; pfam07536 999552008579 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552008580 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 999552008581 catalytic site [active] 999552008582 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 999552008583 Na binding site [ion binding]; other site 999552008584 substrate binding site [chemical binding]; other site 999552008585 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552008586 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552008587 conserved cys residue [active] 999552008588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552008589 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 999552008590 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 999552008591 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 999552008592 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 999552008593 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 999552008594 Isochorismatase family; Region: Isochorismatase; pfam00857 999552008595 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 999552008596 catalytic triad [active] 999552008597 conserved cis-peptide bond; other site 999552008598 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 999552008599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008600 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 999552008601 dimerization interface [polypeptide binding]; other site 999552008602 substrate binding pocket [chemical binding]; other site 999552008603 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 999552008604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552008605 DNA-binding site [nucleotide binding]; DNA binding site 999552008606 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 999552008607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008608 homodimer interface [polypeptide binding]; other site 999552008609 aspartate kinase; Validated; Region: PRK09181 999552008610 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 999552008611 nucleotide binding site [chemical binding]; other site 999552008612 substrate binding site [chemical binding]; other site 999552008613 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 999552008614 allosteric regulatory residue; other site 999552008615 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 999552008616 Ectoine synthase; Region: Ectoine_synth; pfam06339 999552008617 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 999552008618 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 999552008619 inhibitor-cofactor binding pocket; inhibition site 999552008620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008621 catalytic residue [active] 999552008622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552008623 Coenzyme A binding pocket [chemical binding]; other site 999552008624 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 999552008625 MarR family; Region: MarR; pfam01047 999552008626 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 999552008627 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552008628 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 999552008629 putative DNA binding site [nucleotide binding]; other site 999552008630 putative Zn2+ binding site [ion binding]; other site 999552008631 AsnC family; Region: AsnC_trans_reg; pfam01037 999552008632 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 999552008633 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 999552008634 [2Fe-2S] cluster binding site [ion binding]; other site 999552008635 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 999552008636 alpha subunit interface [polypeptide binding]; other site 999552008637 active site 999552008638 substrate binding site [chemical binding]; other site 999552008639 Fe binding site [ion binding]; other site 999552008640 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552008641 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 999552008642 dimer interface [polypeptide binding]; other site 999552008643 active site 999552008644 metal binding site [ion binding]; metal-binding site 999552008645 glutathione binding site [chemical binding]; other site 999552008646 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 999552008647 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 999552008648 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 999552008649 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552008650 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 999552008651 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 999552008652 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 999552008653 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 999552008654 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552008655 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552008656 Initiator Replication protein; Region: Rep_3; pfam01051 999552008657 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 999552008658 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 999552008659 P-loop; other site 999552008660 Magnesium ion binding site [ion binding]; other site 999552008661 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 999552008662 Magnesium ion binding site [ion binding]; other site 999552008663 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 999552008664 META domain; Region: META; cl01245 999552008665 CpXC protein; Region: CpXC; pfam14353 999552008666 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552008667 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 999552008668 NAD(P) binding site [chemical binding]; other site 999552008669 catalytic residues [active] 999552008670 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 999552008671 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 999552008672 Walker A/P-loop; other site 999552008673 ATP binding site [chemical binding]; other site 999552008674 Q-loop/lid; other site 999552008675 ABC transporter signature motif; other site 999552008676 Walker B; other site 999552008677 D-loop; other site 999552008678 H-loop/switch region; other site 999552008679 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 999552008680 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 999552008681 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 999552008682 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 999552008683 FeS/SAM binding site; other site 999552008684 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 999552008685 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 999552008686 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 999552008687 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 999552008688 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 999552008689 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 999552008690 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 999552008691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552008692 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 999552008693 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552008694 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 999552008695 DNA binding residues [nucleotide binding] 999552008696 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 999552008697 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 999552008698 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 999552008699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552008700 NAD(P) binding site [chemical binding]; other site 999552008701 active site 999552008702 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 999552008703 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 999552008704 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552008705 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 999552008706 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 999552008707 S-adenosylmethionine binding site [chemical binding]; other site 999552008708 MFS/sugar transport protein; Region: MFS_2; pfam13347 999552008709 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 999552008710 HipA N-terminal domain; Region: Couple_hipA; pfam13657 999552008711 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 999552008712 HipA-like N-terminal domain; Region: HipA_N; pfam07805 999552008713 HipA-like C-terminal domain; Region: HipA_C; pfam07804 999552008714 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552008715 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 999552008716 non-specific DNA binding site [nucleotide binding]; other site 999552008717 salt bridge; other site 999552008718 sequence-specific DNA binding site [nucleotide binding]; other site 999552008719 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 999552008720 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 999552008721 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552008722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552008723 Walker A/P-loop; other site 999552008724 ATP binding site [chemical binding]; other site 999552008725 Q-loop/lid; other site 999552008726 ABC transporter signature motif; other site 999552008727 Walker B; other site 999552008728 D-loop; other site 999552008729 H-loop/switch region; other site 999552008730 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 999552008731 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 999552008732 Metal-binding active site; metal-binding site 999552008733 acyl carrier protein; Provisional; Region: PRK07639 999552008734 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 999552008735 acyl-CoA synthetase; Validated; Region: PRK08308 999552008736 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552008737 acyl-activating enzyme (AAE) consensus motif; other site 999552008738 AMP binding site [chemical binding]; other site 999552008739 active site 999552008740 CoA binding site [chemical binding]; other site 999552008741 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 999552008742 IucA / IucC family; Region: IucA_IucC; pfam04183 999552008743 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 999552008744 IucA / IucC family; Region: IucA_IucC; pfam04183 999552008745 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 999552008746 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 999552008747 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 999552008748 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 999552008749 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 999552008750 putative ligand binding residues [chemical binding]; other site 999552008751 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 999552008752 ABC-ATPase subunit interface; other site 999552008753 dimer interface [polypeptide binding]; other site 999552008754 putative PBP binding regions; other site 999552008755 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 999552008756 ABC-ATPase subunit interface; other site 999552008757 dimer interface [polypeptide binding]; other site 999552008758 putative PBP binding regions; other site 999552008759 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 999552008760 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 999552008761 Walker A/P-loop; other site 999552008762 ATP binding site [chemical binding]; other site 999552008763 Q-loop/lid; other site 999552008764 ABC transporter signature motif; other site 999552008765 Walker B; other site 999552008766 D-loop; other site 999552008767 H-loop/switch region; other site 999552008768 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 999552008769 TPP-binding site [chemical binding]; other site 999552008770 PYR/PP interface [polypeptide binding]; other site 999552008771 dimer interface [polypeptide binding]; other site 999552008772 TPP binding site [chemical binding]; other site 999552008773 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 999552008774 methionine gamma-lyase; Provisional; Region: PRK07503 999552008775 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 999552008776 homodimer interface [polypeptide binding]; other site 999552008777 substrate-cofactor binding pocket; other site 999552008778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008779 catalytic residue [active] 999552008780 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552008781 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 999552008782 putative DNA binding site [nucleotide binding]; other site 999552008783 putative Zn2+ binding site [ion binding]; other site 999552008784 AsnC family; Region: AsnC_trans_reg; pfam01037 999552008785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 999552008786 HAMP domain; Region: HAMP; pfam00672 999552008787 dimerization interface [polypeptide binding]; other site 999552008788 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 999552008789 dimer interface [polypeptide binding]; other site 999552008790 phosphorylation site [posttranslational modification] 999552008791 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 999552008792 ATP binding site [chemical binding]; other site 999552008793 Mg2+ binding site [ion binding]; other site 999552008794 G-X-G motif; other site 999552008795 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 999552008796 Response regulator receiver domain; Region: Response_reg; pfam00072 999552008797 active site 999552008798 phosphorylation site [posttranslational modification] 999552008799 intermolecular recognition site; other site 999552008800 dimerization interface [polypeptide binding]; other site 999552008801 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552008802 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 999552008803 active site 999552008804 phosphorylation site [posttranslational modification] 999552008805 intermolecular recognition site; other site 999552008806 dimerization interface [polypeptide binding]; other site 999552008807 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 999552008808 DNA binding site [nucleotide binding] 999552008809 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 999552008810 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552008811 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 999552008812 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 999552008813 Walker A/P-loop; other site 999552008814 ATP binding site [chemical binding]; other site 999552008815 Q-loop/lid; other site 999552008816 ABC transporter signature motif; other site 999552008817 Walker B; other site 999552008818 D-loop; other site 999552008819 H-loop/switch region; other site 999552008820 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 999552008821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008822 dimer interface [polypeptide binding]; other site 999552008823 conserved gate region; other site 999552008824 ABC-ATPase subunit interface; other site 999552008825 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 999552008826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552008827 dimer interface [polypeptide binding]; other site 999552008828 conserved gate region; other site 999552008829 putative PBP binding loops; other site 999552008830 ABC-ATPase subunit interface; other site 999552008831 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 999552008832 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 999552008833 active site 999552008834 motif I; other site 999552008835 motif II; other site 999552008836 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 999552008837 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 999552008838 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 999552008839 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 999552008840 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552008841 Cupin domain; Region: Cupin_2; pfam07883 999552008842 tRNA synthetases class I (M); Region: tRNA-synt_1g; pfam09334 999552008843 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 999552008844 active site 999552008845 nucleotide binding site [chemical binding]; other site 999552008846 HIGH motif; other site 999552008847 KMSKS motif; other site 999552008848 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 999552008849 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552008850 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 999552008851 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 999552008852 ligand binding site [chemical binding]; other site 999552008853 Cupin domain; Region: Cupin_2; pfam07883 999552008854 FAD dependent oxidoreductase; Region: DAO; pfam01266 999552008855 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552008856 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 999552008857 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552008858 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 999552008859 conserved cys residue [active] 999552008860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552008861 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 999552008862 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 999552008863 inhibitor-cofactor binding pocket; inhibition site 999552008864 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008865 catalytic residue [active] 999552008866 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 999552008867 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552008868 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 999552008869 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 999552008870 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552008871 catalytic residue [active] 999552008872 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 999552008873 dimer interface [polypeptide binding]; other site 999552008874 active site 999552008875 Integrase core domain; Region: rve_3; pfam13683 999552008876 Integrase core domain; Region: rve; pfam00665 999552008877 Integrase core domain; Region: rve_2; pfam13333 999552008878 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 999552008879 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 999552008880 TrkA-C domain; Region: TrkA_C; pfam02080 999552008881 TrkA-C domain; Region: TrkA_C; pfam02080 999552008882 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 999552008883 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 999552008884 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 999552008885 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 999552008886 conserved cys residue [active] 999552008887 Helix-turn-helix domain; Region: HTH_18; pfam12833 999552008888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552008889 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 999552008890 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 999552008891 dimer interface [polypeptide binding]; other site 999552008892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552008893 catalytic residue [active] 999552008894 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 999552008895 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552008896 putative substrate translocation pore; other site 999552008897 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 999552008898 Amidase; Region: Amidase; pfam01425 999552008899 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 999552008900 DNA binding residues [nucleotide binding] 999552008901 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 999552008902 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 999552008903 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 999552008904 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 999552008905 dimerization interface [polypeptide binding]; other site 999552008906 active site 999552008907 transposase; Provisional; Region: PRK06526 999552008908 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 999552008909 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 999552008910 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552008911 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 999552008912 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 999552008913 N-terminal domain interface [polypeptide binding]; other site 999552008914 dimer interface [polypeptide binding]; other site 999552008915 substrate binding pocket (H-site) [chemical binding]; other site 999552008916 Transcriptional regulators [Transcription]; Region: MarR; COG1846 999552008917 MarR family; Region: MarR_2; pfam12802 999552008918 excinuclease ABC subunit B; Provisional; Region: PRK05298 999552008919 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 999552008920 ATP binding site [chemical binding]; other site 999552008921 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 999552008922 nucleotide binding region [chemical binding]; other site 999552008923 ATP-binding site [chemical binding]; other site 999552008924 Ultra-violet resistance protein B; Region: UvrB; pfam12344 999552008925 UvrB/uvrC motif; Region: UVR; pfam02151 999552008926 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 999552008927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552008928 Coenzyme A binding pocket [chemical binding]; other site 999552008929 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 999552008930 Response regulator receiver domain; Region: Response_reg; pfam00072 999552008931 active site 999552008932 phosphorylation site [posttranslational modification] 999552008933 intermolecular recognition site; other site 999552008934 dimerization interface [polypeptide binding]; other site 999552008935 PAS domain S-box; Region: sensory_box; TIGR00229 999552008936 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552008937 putative active site [active] 999552008938 heme pocket [chemical binding]; other site 999552008939 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 999552008940 dimer interface [polypeptide binding]; other site 999552008941 phosphorylation site [posttranslational modification] 999552008942 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 999552008943 ATP binding site [chemical binding]; other site 999552008944 Mg2+ binding site [ion binding]; other site 999552008945 G-X-G motif; other site 999552008946 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 999552008947 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 999552008948 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 999552008949 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 999552008950 putative active site [active] 999552008951 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 999552008952 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 999552008953 active site 999552008954 DNA binding site [nucleotide binding] 999552008955 Int/Topo IB signature motif; other site 999552008956 putative transposase OrfB; Reviewed; Region: PHA02517 999552008957 HTH-like domain; Region: HTH_21; pfam13276 999552008958 Integrase core domain; Region: rve; pfam00665 999552008959 Integrase core domain; Region: rve_3; pfam13683 999552008960 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552008961 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 999552008962 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 999552008963 active site 999552008964 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 999552008965 Transcriptional regulators [Transcription]; Region: PurR; COG1609 999552008966 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 999552008967 DNA binding site [nucleotide binding] 999552008968 domain linker motif; other site 999552008969 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 999552008970 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 999552008971 S-adenosylmethionine binding site [chemical binding]; other site 999552008972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552008973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552008974 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552008975 putative effector binding pocket; other site 999552008976 dimerization interface [polypeptide binding]; other site 999552008977 Uncharacterized conserved protein [Function unknown]; Region: COG2128 999552008978 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 999552008979 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 999552008980 classical (c) SDRs; Region: SDR_c; cd05233 999552008981 NAD(P) binding site [chemical binding]; other site 999552008982 active site 999552008983 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 999552008984 metal ion-dependent adhesion site (MIDAS); other site 999552008985 Transcriptional regulators [Transcription]; Region: FadR; COG2186 999552008986 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552008987 DNA-binding site [nucleotide binding]; DNA binding site 999552008988 FCD domain; Region: FCD; pfam07729 999552008989 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 999552008990 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 999552008991 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 999552008992 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 999552008993 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 999552008994 dimer interface [polypeptide binding]; other site 999552008995 NADP binding site [chemical binding]; other site 999552008996 catalytic residues [active] 999552008997 hypothetical protein; Validated; Region: PRK08245 999552008998 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 999552008999 Putative transposase; Region: Y2_Tnp; pfam04986 999552009000 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552009001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552009002 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552009003 Transposase; Region: HTH_Tnp_1; pfam01527 999552009004 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; cl17355 999552009005 DNA binding site [nucleotide binding] 999552009006 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 999552009007 Predicted integral membrane protein [Function unknown]; Region: COG5616 999552009008 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552009009 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 999552009010 Transposase; Region: HTH_Tnp_1; cl17663 999552009011 HTH-like domain; Region: HTH_21; pfam13276 999552009012 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 999552009013 Transposase; Region: HTH_Tnp_1; cl17663 999552009014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552009015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552009016 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 999552009017 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 999552009018 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 999552009019 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552009020 acyl-activating enzyme (AAE) consensus motif; other site 999552009021 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 999552009022 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 999552009023 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 999552009024 choline dehydrogenase; Validated; Region: PRK02106 999552009025 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 999552009026 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 999552009027 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 999552009028 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 999552009029 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 999552009030 active site 999552009031 catalytic site [active] 999552009032 Zn binding site [ion binding]; other site 999552009033 tetramer interface [polypeptide binding]; other site 999552009034 classical (c) SDRs; Region: SDR_c; cd05233 999552009035 NAD(P) binding site [chemical binding]; other site 999552009036 active site 999552009037 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 999552009038 classical (c) SDRs; Region: SDR_c; cd05233 999552009039 NAD(P) binding site [chemical binding]; other site 999552009040 active site 999552009041 agmatinase; Region: agmatinase; TIGR01230 999552009042 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 999552009043 oligomer interface [polypeptide binding]; other site 999552009044 active site 999552009045 Mn binding site [ion binding]; other site 999552009046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552009047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552009048 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 999552009049 dimerization interface [polypeptide binding]; other site 999552009050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552009051 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552009052 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552009053 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 999552009054 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 999552009055 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 999552009056 exosortase E/protease, VPEID-CTERM system; Region: exo_VPEID; TIGR04162 999552009057 exosortase/archaeosortase family protein; Region: exo_archaeo; TIGR04178 999552009058 CAAX protease self-immunity; Region: Abi; cl00558 999552009059 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 999552009060 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 999552009061 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 999552009062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009063 dimer interface [polypeptide binding]; other site 999552009064 conserved gate region; other site 999552009065 putative PBP binding loops; other site 999552009066 ABC-ATPase subunit interface; other site 999552009067 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009068 dimer interface [polypeptide binding]; other site 999552009069 conserved gate region; other site 999552009070 putative PBP binding loops; other site 999552009071 ABC-ATPase subunit interface; other site 999552009072 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552009073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552009074 Walker A/P-loop; other site 999552009075 ATP binding site [chemical binding]; other site 999552009076 Q-loop/lid; other site 999552009077 ABC transporter signature motif; other site 999552009078 Walker B; other site 999552009079 D-loop; other site 999552009080 H-loop/switch region; other site 999552009081 TOBE domain; Region: TOBE_2; pfam08402 999552009082 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 999552009083 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 999552009084 active site 999552009085 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 999552009086 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 999552009087 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 999552009088 Transposase; Region: HTH_Tnp_1; cl17663 999552009089 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 999552009090 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552009091 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 999552009092 DctM-like transporters; Region: DctM; pfam06808 999552009093 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552009094 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 999552009095 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 999552009096 inhibitor site; inhibition site 999552009097 active site 999552009098 dimer interface [polypeptide binding]; other site 999552009099 catalytic residue [active] 999552009100 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 999552009101 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 999552009102 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 999552009103 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552009104 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 999552009105 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 999552009106 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 999552009107 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552009108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552009109 DNA-binding site [nucleotide binding]; DNA binding site 999552009110 FCD domain; Region: FCD; pfam07729 999552009111 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 999552009112 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 999552009113 dimer interface [polypeptide binding]; other site 999552009114 NADP binding site [chemical binding]; other site 999552009115 catalytic residues [active] 999552009116 Transcriptional regulators [Transcription]; Region: FadR; COG2186 999552009117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552009118 DNA-binding site [nucleotide binding]; DNA binding site 999552009119 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 999552009120 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552009121 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552009122 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552009123 active site 999552009124 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 999552009125 CoA-transferase family III; Region: CoA_transf_3; pfam02515 999552009126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552009127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552009128 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 999552009129 putative substrate binding pocket [chemical binding]; other site 999552009130 dimerization interface [polypeptide binding]; other site 999552009131 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 999552009132 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 999552009133 dimerization interface [polypeptide binding]; other site 999552009134 DPS ferroxidase diiron center [ion binding]; other site 999552009135 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552009136 Ligand Binding Site [chemical binding]; other site 999552009137 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 999552009138 Hint domain; Region: Hint_2; pfam13403 999552009139 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 999552009140 HAMP domain; Region: HAMP; pfam00672 999552009141 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 999552009142 dimer interface [polypeptide binding]; other site 999552009143 phosphorylation site [posttranslational modification] 999552009144 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 999552009145 ATP binding site [chemical binding]; other site 999552009146 Mg2+ binding site [ion binding]; other site 999552009147 G-X-G motif; other site 999552009148 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 999552009149 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 999552009150 active site 999552009151 phosphorylation site [posttranslational modification] 999552009152 intermolecular recognition site; other site 999552009153 dimerization interface [polypeptide binding]; other site 999552009154 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 999552009155 Walker A motif; other site 999552009156 ATP binding site [chemical binding]; other site 999552009157 Walker B motif; other site 999552009158 arginine finger; other site 999552009159 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 999552009160 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 999552009161 Transposase; Region: HTH_Tnp_1; pfam01527 999552009162 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552009163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 999552009164 DNA-binding site [nucleotide binding]; DNA binding site 999552009165 FCD domain; Region: FCD; pfam07729 999552009166 Predicted membrane protein [Function unknown]; Region: COG1288 999552009167 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 999552009168 Predicted transcriptional regulators [Transcription]; Region: COG1733 999552009169 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 999552009170 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 999552009171 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 999552009172 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 999552009173 ring oligomerisation interface [polypeptide binding]; other site 999552009174 ATP/Mg binding site [chemical binding]; other site 999552009175 stacking interactions; other site 999552009176 hinge regions; other site 999552009177 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 999552009178 oligomerisation interface [polypeptide binding]; other site 999552009179 roof hairpin; other site 999552009180 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 999552009181 EF-hand domain pair; Region: EF_hand_5; pfam13499 999552009182 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 999552009183 Ca2+ binding site [ion binding]; other site 999552009184 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 999552009185 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 999552009186 active site 999552009187 DNA binding site [nucleotide binding] 999552009188 Int/Topo IB signature motif; other site 999552009189 transposase; Provisional; Region: PRK06526 999552009190 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 999552009191 Walker A motif; other site 999552009192 ATP binding site [chemical binding]; other site 999552009193 Walker B motif; other site 999552009194 arginine finger; other site 999552009195 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552009196 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 999552009197 Zn binding site [ion binding]; other site 999552009198 Isochorismatase family; Region: Isochorismatase; pfam00857 999552009199 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 999552009200 catalytic triad [active] 999552009201 dimer interface [polypeptide binding]; other site 999552009202 conserved cis-peptide bond; other site 999552009203 Pirin-related protein [General function prediction only]; Region: COG1741 999552009204 Pirin; Region: Pirin; pfam02678 999552009205 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 999552009206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552009207 DNA-binding site [nucleotide binding]; DNA binding site 999552009208 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 999552009209 FCD domain; Region: FCD; pfam07729 999552009210 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 999552009211 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 999552009212 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 999552009213 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 999552009214 active site 999552009215 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 999552009216 active site 999552009217 metal binding site [ion binding]; metal-binding site 999552009218 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 999552009219 Predicted flavoprotein [General function prediction only]; Region: COG0431 999552009220 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552009221 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552009222 DctM-like transporters; Region: DctM; pfam06808 999552009223 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552009224 YCII-related domain; Region: YCII; cl00999 999552009225 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 999552009226 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 999552009227 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 999552009228 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 999552009229 NAD binding site [chemical binding]; other site 999552009230 substrate binding site [chemical binding]; other site 999552009231 homodimer interface [polypeptide binding]; other site 999552009232 active site 999552009233 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 999552009234 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 999552009235 NADP binding site [chemical binding]; other site 999552009236 active site 999552009237 putative substrate binding site [chemical binding]; other site 999552009238 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 999552009239 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 999552009240 substrate binding site; other site 999552009241 tetramer interface; other site 999552009242 HTH-like domain; Region: HTH_21; pfam13276 999552009243 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 999552009244 heme binding pocket [chemical binding]; other site 999552009245 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 999552009246 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 999552009247 heme binding site [chemical binding]; other site 999552009248 substrate binding site [chemical binding]; other site 999552009249 Winged helix-turn helix; Region: HTH_29; pfam13551 999552009250 Homeodomain-like domain; Region: HTH_23; cl17451 999552009251 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 999552009252 Protein export membrane protein; Region: SecD_SecF; cl14618 999552009253 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 999552009254 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 999552009255 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552009256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 999552009257 Transposase; Region: HTH_Tnp_1; cl17663 999552009258 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 999552009259 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 999552009260 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 999552009261 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 999552009262 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 999552009263 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 999552009264 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 999552009265 Walker A/P-loop; other site 999552009266 ATP binding site [chemical binding]; other site 999552009267 Q-loop/lid; other site 999552009268 ABC transporter signature motif; other site 999552009269 Walker B; other site 999552009270 D-loop; other site 999552009271 H-loop/switch region; other site 999552009272 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 999552009273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009274 dimer interface [polypeptide binding]; other site 999552009275 conserved gate region; other site 999552009276 putative PBP binding loops; other site 999552009277 ABC-ATPase subunit interface; other site 999552009278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009279 dimer interface [polypeptide binding]; other site 999552009280 conserved gate region; other site 999552009281 putative PBP binding loops; other site 999552009282 ABC-ATPase subunit interface; other site 999552009283 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 999552009284 active site 999552009285 ATP binding site [chemical binding]; other site 999552009286 substrate binding site [chemical binding]; other site 999552009287 dimer interface [polypeptide binding]; other site 999552009288 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 999552009289 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552009290 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552009291 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552009292 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552009293 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552009294 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552009295 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 999552009296 conserved cys residue [active] 999552009297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552009298 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 999552009299 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 999552009300 active site 999552009301 Predicted transcriptional regulators [Transcription]; Region: COG1733 999552009302 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 999552009303 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552009304 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 999552009305 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 999552009306 CGNR zinc finger; Region: zf-CGNR; pfam11706 999552009307 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 999552009308 active site 999552009309 DNA binding site [nucleotide binding] 999552009310 Int/Topo IB signature motif; other site 999552009311 Uncharacterized conserved protein [Function unknown]; Region: COG2128 999552009312 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 999552009313 Integrase core domain; Region: rve; pfam00665 999552009314 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 999552009315 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 999552009316 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 999552009317 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 999552009318 putative active site [active] 999552009319 putative FMN binding site [chemical binding]; other site 999552009320 putative substrate binding site [chemical binding]; other site 999552009321 putative catalytic residue [active] 999552009322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552009323 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552009324 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552009325 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 999552009326 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552009327 catalytic loop [active] 999552009328 iron binding site [ion binding]; other site 999552009329 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 999552009330 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 999552009331 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 999552009332 [4Fe-4S] binding site [ion binding]; other site 999552009333 molybdopterin cofactor binding site; other site 999552009334 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 999552009335 molybdopterin cofactor binding site; other site 999552009336 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 999552009337 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 999552009338 putative dimer interface [polypeptide binding]; other site 999552009339 [2Fe-2S] cluster binding site [ion binding]; other site 999552009340 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 999552009341 SLBB domain; Region: SLBB; pfam10531 999552009342 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 999552009343 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552009344 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552009345 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 999552009346 dimerization interface [polypeptide binding]; other site 999552009347 MarR family; Region: MarR_2; cl17246 999552009348 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 999552009349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 999552009350 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552009351 cyclase homology domain; Region: CHD; cd07302 999552009352 nucleotidyl binding site; other site 999552009353 metal binding site [ion binding]; metal-binding site 999552009354 dimer interface [polypeptide binding]; other site 999552009355 Predicted integral membrane protein [Function unknown]; Region: COG5616 999552009356 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552009357 TPR motif; other site 999552009358 binding surface 999552009359 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 999552009360 TPR motif; other site 999552009361 binding surface 999552009362 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 999552009363 Zn binding site [ion binding]; other site 999552009364 Uncharacterized conserved protein [Function unknown]; Region: COG3482 999552009365 Uncharacterized conserved protein [Function unknown]; Region: COG1944 999552009366 YcaO-like family; Region: YcaO; pfam02624 999552009367 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 999552009368 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 999552009369 putative ligand binding site [chemical binding]; other site 999552009370 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 999552009371 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 999552009372 dimerization interface [polypeptide binding]; other site 999552009373 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 999552009374 dimer interface [polypeptide binding]; other site 999552009375 phosphorylation site [posttranslational modification] 999552009376 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 999552009377 ATP binding site [chemical binding]; other site 999552009378 Mg2+ binding site [ion binding]; other site 999552009379 G-X-G motif; other site 999552009380 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 999552009381 active site 999552009382 phosphorylation site [posttranslational modification] 999552009383 intermolecular recognition site; other site 999552009384 dimerization interface [polypeptide binding]; other site 999552009385 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 999552009386 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 999552009387 active site 999552009388 phosphorylation site [posttranslational modification] 999552009389 intermolecular recognition site; other site 999552009390 dimerization interface [polypeptide binding]; other site 999552009391 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 999552009392 DNA binding site [nucleotide binding] 999552009393 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 999552009394 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 999552009395 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 999552009396 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 999552009397 Walker A/P-loop; other site 999552009398 ATP binding site [chemical binding]; other site 999552009399 Q-loop/lid; other site 999552009400 ABC transporter signature motif; other site 999552009401 Walker B; other site 999552009402 D-loop; other site 999552009403 H-loop/switch region; other site 999552009404 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 999552009405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009406 dimer interface [polypeptide binding]; other site 999552009407 conserved gate region; other site 999552009408 putative PBP binding loops; other site 999552009409 ABC-ATPase subunit interface; other site 999552009410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009411 dimer interface [polypeptide binding]; other site 999552009412 conserved gate region; other site 999552009413 putative PBP binding loops; other site 999552009414 ABC-ATPase subunit interface; other site 999552009415 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552009416 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552009417 conserved cys residue [active] 999552009418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552009419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552009420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552009421 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552009422 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552009423 Transposase; Region: HTH_Tnp_1; pfam01527 999552009424 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552009425 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 999552009426 non-specific DNA binding site [nucleotide binding]; other site 999552009427 salt bridge; other site 999552009428 sequence-specific DNA binding site [nucleotide binding]; other site 999552009429 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 999552009430 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 999552009431 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 999552009432 catalytic residues [active] 999552009433 catalytic nucleophile [active] 999552009434 Recombinase; Region: Recombinase; pfam07508 999552009435 acyl transferase; Provisional; Region: luxD; PRK13604 999552009436 DNA polymerase; Provisional; Region: PHA02563 999552009437 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 999552009438 active site 999552009439 catalytic residues [active] 999552009440 DNA binding site [nucleotide binding] 999552009441 Int/Topo IB signature motif; other site 999552009442 Domain of unknown function (DUF329); Region: DUF329; pfam03884 999552009443 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 999552009444 Maf-like protein; Region: Maf; pfam02545 999552009445 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 999552009446 active site 999552009447 dimer interface [polypeptide binding]; other site 999552009448 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 999552009449 rRNA binding site [nucleotide binding]; other site 999552009450 predicted 30S ribosome binding site; other site 999552009451 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 999552009452 Predicted amidohydrolase [General function prediction only]; Region: COG0388 999552009453 putative active site [active] 999552009454 catalytic triad [active] 999552009455 putative dimer interface [polypeptide binding]; other site 999552009456 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 999552009457 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 999552009458 Low molecular weight phosphatase family; Region: LMWPc; cd00115 999552009459 active site 999552009460 hypothetical protein; Provisional; Region: PRK02853 999552009461 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 999552009462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552009463 NAD(P) binding site [chemical binding]; other site 999552009464 active site 999552009465 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 999552009466 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 999552009467 NAD binding site [chemical binding]; other site 999552009468 dimerization interface [polypeptide binding]; other site 999552009469 product binding site; other site 999552009470 substrate binding site [chemical binding]; other site 999552009471 zinc binding site [ion binding]; other site 999552009472 catalytic residues [active] 999552009473 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 999552009474 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 999552009475 Coenzyme A binding pocket [chemical binding]; other site 999552009476 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 999552009477 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 999552009478 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 999552009479 hinge; other site 999552009480 active site 999552009481 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 999552009482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552009483 dimer interface [polypeptide binding]; other site 999552009484 putative CheW interface [polypeptide binding]; other site 999552009485 CHASE domain; Region: CHASE; cl01369 999552009486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552009487 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 999552009488 putative active site [active] 999552009489 heme pocket [chemical binding]; other site 999552009490 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 999552009491 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552009492 putative active site [active] 999552009493 heme pocket [chemical binding]; other site 999552009494 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 999552009495 dimer interface [polypeptide binding]; other site 999552009496 phosphorylation site [posttranslational modification] 999552009497 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 999552009498 ATP binding site [chemical binding]; other site 999552009499 Mg2+ binding site [ion binding]; other site 999552009500 G-X-G motif; other site 999552009501 Response regulator receiver domain; Region: Response_reg; pfam00072 999552009502 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 999552009503 active site 999552009504 phosphorylation site [posttranslational modification] 999552009505 intermolecular recognition site; other site 999552009506 dimerization interface [polypeptide binding]; other site 999552009507 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 999552009508 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 999552009509 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 999552009510 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 999552009511 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 999552009512 PhoU domain; Region: PhoU; pfam01895 999552009513 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 999552009514 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 999552009515 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 999552009516 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 999552009517 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 999552009518 dimer interface [polypeptide binding]; other site 999552009519 active site 999552009520 glycine-pyridoxal phosphate binding site [chemical binding]; other site 999552009521 folate binding site [chemical binding]; other site 999552009522 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 999552009523 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 999552009524 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 999552009525 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 999552009526 dimerization interface [polypeptide binding]; other site 999552009527 ligand binding site [chemical binding]; other site 999552009528 NADP binding site [chemical binding]; other site 999552009529 catalytic site [active] 999552009530 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 999552009531 CoA binding domain; Region: CoA_binding; smart00881 999552009532 CoA-ligase; Region: Ligase_CoA; pfam00549 999552009533 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 999552009534 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 999552009535 CoA-ligase; Region: Ligase_CoA; pfam00549 999552009536 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 999552009537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552009538 catalytic residue [active] 999552009539 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 999552009540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 999552009541 active site 999552009542 phosphorylation site [posttranslational modification] 999552009543 intermolecular recognition site; other site 999552009544 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 999552009545 DNA binding residues [nucleotide binding] 999552009546 dimerization interface [polypeptide binding]; other site 999552009547 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 999552009548 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 999552009549 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 999552009550 MOFRL family; Region: MOFRL; pfam05161 999552009551 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 999552009552 apolar tunnel; other site 999552009553 heme binding site [chemical binding]; other site 999552009554 dimerization interface [polypeptide binding]; other site 999552009555 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 999552009556 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552009557 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552009558 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 999552009559 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 999552009560 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 999552009561 homodimer interface [polypeptide binding]; other site 999552009562 NADP binding site [chemical binding]; other site 999552009563 substrate binding site [chemical binding]; other site 999552009564 Chorismate mutase type II; Region: CM_2; smart00830 999552009565 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 999552009566 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 999552009567 Potassium binding sites [ion binding]; other site 999552009568 Cesium cation binding sites [ion binding]; other site 999552009569 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 999552009570 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 999552009571 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 999552009572 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 999552009573 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 999552009574 active site 999552009575 FMN binding site [chemical binding]; other site 999552009576 substrate binding site [chemical binding]; other site 999552009577 3Fe-4S cluster binding site [ion binding]; other site 999552009578 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 999552009579 domain_subunit interface; other site 999552009580 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 999552009581 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 999552009582 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 999552009583 putative active site [active] 999552009584 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 999552009585 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552009586 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552009587 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 999552009588 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 999552009589 FMN-binding pocket [chemical binding]; other site 999552009590 flavin binding motif; other site 999552009591 phosphate binding motif [ion binding]; other site 999552009592 beta-alpha-beta structure motif; other site 999552009593 NAD binding pocket [chemical binding]; other site 999552009594 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552009595 catalytic loop [active] 999552009596 iron binding site [ion binding]; other site 999552009597 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 999552009598 non-specific DNA binding site [nucleotide binding]; other site 999552009599 salt bridge; other site 999552009600 sequence-specific DNA binding site [nucleotide binding]; other site 999552009601 Cupin domain; Region: Cupin_2; pfam07883 999552009602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552009603 ABC transporter signature motif; other site 999552009604 Walker B; other site 999552009605 D-loop; other site 999552009606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552009607 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 999552009608 TM-ABC transporter signature motif; other site 999552009609 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 999552009610 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 999552009611 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 999552009612 Transcriptional regulators [Transcription]; Region: FadR; COG2186 999552009613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552009614 DNA-binding site [nucleotide binding]; DNA binding site 999552009615 FCD domain; Region: FCD; pfam07729 999552009616 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 999552009617 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 999552009618 putative ligand binding site [chemical binding]; other site 999552009619 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 999552009620 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552009621 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552009622 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552009623 conserved cys residue [active] 999552009624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552009625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552009626 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552009627 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 999552009628 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 999552009629 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 999552009630 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552009631 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 999552009632 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 999552009633 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552009634 MarR family; Region: MarR_2; cl17246 999552009635 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 999552009636 putative substrate binding pocket [chemical binding]; other site 999552009637 trimer interface [polypeptide binding]; other site 999552009638 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 999552009639 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 999552009640 NAD binding site [chemical binding]; other site 999552009641 catalytic residues [active] 999552009642 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 999552009643 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 999552009644 tetramer interface [polypeptide binding]; other site 999552009645 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 999552009646 tetramer interface [polypeptide binding]; other site 999552009647 active site 999552009648 metal binding site [ion binding]; metal-binding site 999552009649 tyrosine decarboxylase; Region: PLN02880 999552009650 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 999552009651 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552009652 catalytic residue [active] 999552009653 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 999552009654 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 999552009655 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 999552009656 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 999552009657 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 999552009658 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 999552009659 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 999552009660 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 999552009661 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 999552009662 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552009663 putative substrate translocation pore; other site 999552009664 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 999552009665 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 999552009666 active site clefts [active] 999552009667 zinc binding site [ion binding]; other site 999552009668 dimer interface [polypeptide binding]; other site 999552009669 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 999552009670 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 999552009671 interface (dimer of trimers) [polypeptide binding]; other site 999552009672 Substrate-binding/catalytic site; other site 999552009673 Zn-binding sites [ion binding]; other site 999552009674 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 999552009675 NlpC/P60 family; Region: NLPC_P60; cl17555 999552009676 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 999552009677 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 999552009678 dimerization interface [polypeptide binding]; other site 999552009679 putative DNA binding site [nucleotide binding]; other site 999552009680 putative Zn2+ binding site [ion binding]; other site 999552009681 DNA Polymerase Y-family; Region: PolY_like; cd03468 999552009682 active site 999552009683 DNA binding site [nucleotide binding] 999552009684 Cytochrome C' Region: Cytochrom_C_2; pfam01322 999552009685 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552009686 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552009687 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 999552009688 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 999552009689 diiron binding motif [ion binding]; other site 999552009690 Uncharacterized conserved protein [Function unknown]; Region: COG1633 999552009691 CCC1-related protein family; Region: CCC1_like_1; cd02437 999552009692 Predicted permeases [General function prediction only]; Region: COG0679 999552009693 S-formylglutathione hydrolase; Region: PLN02442 999552009694 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 999552009695 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 999552009696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552009697 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552009698 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552009699 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 999552009700 EamA-like transporter family; Region: EamA; pfam00892 999552009701 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 999552009702 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 999552009703 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 999552009704 motif II; other site 999552009705 ornithine cyclodeaminase; Validated; Region: PRK06141 999552009706 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 999552009707 NAD(P) binding site [chemical binding]; other site 999552009708 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 999552009709 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 999552009710 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 999552009711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 999552009712 putative substrate translocation pore; other site 999552009713 Predicted ATPase [General function prediction only]; Region: COG1485 999552009714 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 999552009715 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 999552009716 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 999552009717 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 999552009718 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 999552009719 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 999552009720 CAAX protease self-immunity; Region: Abi; pfam02517 999552009721 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 999552009722 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 999552009723 tetramer interface [polypeptide binding]; other site 999552009724 active site 999552009725 Mg2+/Mn2+ binding site [ion binding]; other site 999552009726 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 999552009727 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 999552009728 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 999552009729 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 999552009730 DNA binding site [nucleotide binding] 999552009731 active site 999552009732 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 999552009733 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 999552009734 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 999552009735 protein binding site [polypeptide binding]; other site 999552009736 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 999552009737 Catalytic dyad [active] 999552009738 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 999552009739 Peptidase family M23; Region: Peptidase_M23; pfam01551 999552009740 phosphoglyceromutase; Provisional; Region: PRK05434 999552009741 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 999552009742 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 999552009743 putative active site [active] 999552009744 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 999552009745 putative PHP Thumb interface [polypeptide binding]; other site 999552009746 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 999552009747 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 999552009748 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 999552009749 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 999552009750 active site 999552009751 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 999552009752 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552009753 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 999552009754 sequence-specific DNA binding site [nucleotide binding]; other site 999552009755 salt bridge; other site 999552009756 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552009757 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552009758 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552009759 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552009760 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552009761 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552009762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552009763 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 999552009764 dimerization interface [polypeptide binding]; other site 999552009765 substrate binding pocket [chemical binding]; other site 999552009766 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 999552009767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552009768 Walker A/P-loop; other site 999552009769 ATP binding site [chemical binding]; other site 999552009770 Q-loop/lid; other site 999552009771 ABC transporter signature motif; other site 999552009772 Walker B; other site 999552009773 D-loop; other site 999552009774 H-loop/switch region; other site 999552009775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 999552009776 Zinc-finger domain; Region: zf-CHCC; pfam10276 999552009777 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 999552009778 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552009779 DNA polymerase I; Provisional; Region: PRK05755 999552009780 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 999552009781 active site 999552009782 metal binding site 1 [ion binding]; metal-binding site 999552009783 putative 5' ssDNA interaction site; other site 999552009784 metal binding site 3; metal-binding site 999552009785 metal binding site 2 [ion binding]; metal-binding site 999552009786 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 999552009787 putative DNA binding site [nucleotide binding]; other site 999552009788 putative metal binding site [ion binding]; other site 999552009789 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 999552009790 active site 999552009791 catalytic site [active] 999552009792 substrate binding site [chemical binding]; other site 999552009793 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 999552009794 active site 999552009795 DNA binding site [nucleotide binding] 999552009796 catalytic site [active] 999552009797 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 999552009798 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 999552009799 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 999552009800 MoxR-like ATPases [General function prediction only]; Region: COG0714 999552009801 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 999552009802 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 999552009803 Protein of unknown function DUF58; Region: DUF58; pfam01882 999552009804 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 999552009805 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 999552009806 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 999552009807 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 999552009808 Transglycosylase; Region: Transgly; pfam00912 999552009809 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 999552009810 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 999552009811 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 999552009812 putative binding site; other site 999552009813 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 999552009814 MG2 domain; Region: A2M_N; pfam01835 999552009815 Alpha-2-macroglobulin family; Region: A2M; pfam00207 999552009816 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 999552009817 surface patch; other site 999552009818 thioester region; other site 999552009819 specificity defining residues; other site 999552009820 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 999552009821 dimer interface [polypeptide binding]; other site 999552009822 phosphorylation site [posttranslational modification] 999552009823 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 999552009824 ATP binding site [chemical binding]; other site 999552009825 Mg2+ binding site [ion binding]; other site 999552009826 G-X-G motif; other site 999552009827 Response regulator receiver domain; Region: Response_reg; pfam00072 999552009828 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 999552009829 active site 999552009830 phosphorylation site [posttranslational modification] 999552009831 intermolecular recognition site; other site 999552009832 dimerization interface [polypeptide binding]; other site 999552009833 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552009834 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 999552009835 active site 999552009836 phosphorylation site [posttranslational modification] 999552009837 intermolecular recognition site; other site 999552009838 dimerization interface [polypeptide binding]; other site 999552009839 hypothetical protein; Validated; Region: PRK02101 999552009840 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 999552009841 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 999552009842 ATP binding site [chemical binding]; other site 999552009843 putative Mg++ binding site [ion binding]; other site 999552009844 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 999552009845 nucleotide binding region [chemical binding]; other site 999552009846 ATP-binding site [chemical binding]; other site 999552009847 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 999552009848 HRDC domain; Region: HRDC; pfam00570 999552009849 YGGT family; Region: YGGT; pfam02325 999552009850 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 999552009851 active site 999552009852 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 999552009853 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 999552009854 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 999552009855 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 999552009856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 999552009857 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 999552009858 hypothetical protein; Provisional; Region: PRK09256 999552009859 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 999552009860 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 999552009861 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 999552009862 putative NAD(P) binding site [chemical binding]; other site 999552009863 active site 999552009864 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 999552009865 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 999552009866 putative active site pocket [active] 999552009867 cleavage site 999552009868 Cytochrome c; Region: Cytochrom_C; cl11414 999552009869 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 999552009870 active site 999552009871 metal binding site [ion binding]; metal-binding site 999552009872 nudix motif; other site 999552009873 hypothetical protein; Provisional; Region: PRK07538 999552009874 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 999552009875 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 999552009876 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 999552009877 N- and C-terminal domain interface [polypeptide binding]; other site 999552009878 active site 999552009879 MgATP binding site [chemical binding]; other site 999552009880 catalytic site [active] 999552009881 metal binding site [ion binding]; metal-binding site 999552009882 glycerol binding site [chemical binding]; other site 999552009883 homotetramer interface [polypeptide binding]; other site 999552009884 homodimer interface [polypeptide binding]; other site 999552009885 FBP binding site [chemical binding]; other site 999552009886 protein IIAGlc interface [polypeptide binding]; other site 999552009887 Pantoate-beta-alanine ligase; Region: PanC; cd00560 999552009888 active site 999552009889 ATP-binding site [chemical binding]; other site 999552009890 pantoate-binding site; other site 999552009891 HXXH motif; other site 999552009892 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 999552009893 active site 999552009894 oligomerization interface [polypeptide binding]; other site 999552009895 metal binding site [ion binding]; metal-binding site 999552009896 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552009897 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 999552009898 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 999552009899 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 999552009900 active site 999552009901 Zn binding site [ion binding]; other site 999552009902 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552009903 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009904 dimer interface [polypeptide binding]; other site 999552009905 conserved gate region; other site 999552009906 putative PBP binding loops; other site 999552009907 ABC-ATPase subunit interface; other site 999552009908 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552009909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552009910 dimer interface [polypeptide binding]; other site 999552009911 conserved gate region; other site 999552009912 putative PBP binding loops; other site 999552009913 ABC-ATPase subunit interface; other site 999552009914 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 999552009915 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552009916 Walker A/P-loop; other site 999552009917 ATP binding site [chemical binding]; other site 999552009918 Q-loop/lid; other site 999552009919 ABC transporter signature motif; other site 999552009920 Walker B; other site 999552009921 D-loop; other site 999552009922 H-loop/switch region; other site 999552009923 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552009924 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552009925 Walker A/P-loop; other site 999552009926 ATP binding site [chemical binding]; other site 999552009927 Q-loop/lid; other site 999552009928 ABC transporter signature motif; other site 999552009929 Walker B; other site 999552009930 D-loop; other site 999552009931 H-loop/switch region; other site 999552009932 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 999552009933 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552009934 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 999552009935 NAD(P) binding site [chemical binding]; other site 999552009936 catalytic residues [active] 999552009937 catalytic residues [active] 999552009938 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 999552009939 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 999552009940 active site 999552009941 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 999552009942 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552009943 putative active site [active] 999552009944 heme pocket [chemical binding]; other site 999552009945 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 999552009946 dimer interface [polypeptide binding]; other site 999552009947 phosphorylation site [posttranslational modification] 999552009948 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 999552009949 ATP binding site [chemical binding]; other site 999552009950 Mg2+ binding site [ion binding]; other site 999552009951 G-X-G motif; other site 999552009952 Response regulator receiver domain; Region: Response_reg; pfam00072 999552009953 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 999552009954 active site 999552009955 phosphorylation site [posttranslational modification] 999552009956 intermolecular recognition site; other site 999552009957 dimerization interface [polypeptide binding]; other site 999552009958 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 999552009959 Isochorismatase family; Region: Isochorismatase; pfam00857 999552009960 catalytic triad [active] 999552009961 metal binding site [ion binding]; metal-binding site 999552009962 conserved cis-peptide bond; other site 999552009963 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 999552009964 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 999552009965 active site residue [active] 999552009966 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 999552009967 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 999552009968 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 999552009969 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 999552009970 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 999552009971 [4Fe-4S] binding site [ion binding]; other site 999552009972 molybdopterin cofactor binding site; other site 999552009973 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 999552009974 molybdopterin cofactor binding site; other site 999552009975 NapD protein; Region: NapD; pfam03927 999552009976 ferredoxin-type protein NapF; Region: napF; TIGR00402 999552009977 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 999552009978 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 999552009979 Mg2+ binding site [ion binding]; other site 999552009980 G-X-G motif; other site 999552009981 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 999552009982 anchoring element; other site 999552009983 dimer interface [polypeptide binding]; other site 999552009984 ATP binding site [chemical binding]; other site 999552009985 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 999552009986 active site 999552009987 putative metal-binding site [ion binding]; other site 999552009988 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 999552009989 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 999552009990 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552009991 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552009992 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552009993 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552009994 recombination protein F; Reviewed; Region: recF; PRK00064 999552009995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552009996 Walker A/P-loop; other site 999552009997 ATP binding site [chemical binding]; other site 999552009998 Q-loop/lid; other site 999552009999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552010000 ABC transporter signature motif; other site 999552010001 Walker B; other site 999552010002 D-loop; other site 999552010003 H-loop/switch region; other site 999552010004 DNA polymerase III subunit beta; Validated; Region: PRK05643 999552010005 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 999552010006 putative DNA binding surface [nucleotide binding]; other site 999552010007 dimer interface [polypeptide binding]; other site 999552010008 beta-clamp/clamp loader binding surface; other site 999552010009 beta-clamp/translesion DNA polymerase binding surface; other site 999552010010 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552010011 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552010012 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552010013 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552010014 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552010015 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552010016 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 999552010017 conserved cys residue [active] 999552010018 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552010019 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 999552010020 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 999552010021 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552010022 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552010023 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552010024 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552010025 Uncharacterized conserved protein [Function unknown]; Region: COG3791 999552010026 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 999552010027 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 999552010028 non-specific DNA binding site [nucleotide binding]; other site 999552010029 salt bridge; other site 999552010030 sequence-specific DNA binding site [nucleotide binding]; other site 999552010031 Cupin domain; Region: Cupin_2; pfam07883 999552010032 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 999552010033 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 999552010034 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 999552010035 dimer interface [polypeptide binding]; other site 999552010036 active site 999552010037 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 999552010038 anti sigma factor interaction site; other site 999552010039 regulatory phosphorylation site [posttranslational modification]; other site 999552010040 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 999552010041 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 999552010042 ATP binding site [chemical binding]; other site 999552010043 Mg2+ binding site [ion binding]; other site 999552010044 G-X-G motif; other site 999552010045 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 999552010046 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 999552010047 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 999552010048 Predicted permeases [General function prediction only]; Region: COG0679 999552010049 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 999552010050 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552010051 catalytic residue [active] 999552010052 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 999552010053 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 999552010054 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 999552010055 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 999552010056 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 999552010057 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 999552010058 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 999552010059 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 999552010060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552010061 homodimer interface [polypeptide binding]; other site 999552010062 catalytic residue [active] 999552010063 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 999552010064 Amidase; Region: Amidase; cl11426 999552010065 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 999552010066 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 999552010067 Uncharacterized conserved protein [Function unknown]; Region: COG2835 999552010068 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 999552010069 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 999552010070 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 999552010071 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 999552010072 putative catalytic site [active] 999552010073 putative phosphate binding site [ion binding]; other site 999552010074 active site 999552010075 metal binding site A [ion binding]; metal-binding site 999552010076 DNA binding site [nucleotide binding] 999552010077 putative AP binding site [nucleotide binding]; other site 999552010078 putative metal binding site B [ion binding]; other site 999552010079 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 999552010080 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 999552010081 active site 999552010082 phosphorylation site [posttranslational modification] 999552010083 intermolecular recognition site; other site 999552010084 dimerization interface [polypeptide binding]; other site 999552010085 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 999552010086 DNA binding site [nucleotide binding] 999552010087 GTP cyclohydrolase; Provisional; Region: PRK08815 999552010088 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 999552010089 dimerization interface [polypeptide binding]; other site 999552010090 active site 999552010091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 999552010092 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 999552010093 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 999552010094 catalytic residue [active] 999552010095 Gram-negative porin; Region: Porin_4; pfam13609 999552010096 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 999552010097 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 999552010098 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 999552010099 HIGH motif; other site 999552010100 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 999552010101 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 999552010102 active site 999552010103 KMSKS motif; other site 999552010104 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 999552010105 tRNA binding surface [nucleotide binding]; other site 999552010106 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 999552010107 Lipopolysaccharide-assembly; Region: LptE; pfam04390 999552010108 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 999552010109 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 999552010110 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 999552010111 putative C-terminal domain interface [polypeptide binding]; other site 999552010112 putative GSH binding site (G-site) [chemical binding]; other site 999552010113 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552010114 putative dimer interface [polypeptide binding]; other site 999552010115 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 999552010116 N-terminal domain interface [polypeptide binding]; other site 999552010117 substrate binding pocket (H-site) [chemical binding]; other site 999552010118 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 999552010119 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 999552010120 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 999552010121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552010122 DNA-binding site [nucleotide binding]; DNA binding site 999552010123 UTRA domain; Region: UTRA; pfam07702 999552010124 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 999552010125 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552010126 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 999552010127 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552010128 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552010129 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 999552010130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552010131 active site 999552010132 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 999552010133 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552010134 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 999552010135 substrate binding site [chemical binding]; other site 999552010136 oxyanion hole (OAH) forming residues; other site 999552010137 trimer interface [polypeptide binding]; other site 999552010138 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 999552010139 classical (c) SDRs; Region: SDR_c; cd05233 999552010140 NAD(P) binding site [chemical binding]; other site 999552010141 active site 999552010142 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 999552010143 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 999552010144 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 999552010145 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 999552010146 active site 999552010147 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 999552010148 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 999552010149 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 999552010150 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 999552010151 Thioredoxin; Region: Thioredoxin_4; pfam13462 999552010152 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 999552010153 Protein of unknown function (DUF721); Region: DUF721; pfam05258 999552010154 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 999552010155 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 999552010156 minor groove reading motif; other site 999552010157 helix-hairpin-helix signature motif; other site 999552010158 substrate binding pocket [chemical binding]; other site 999552010159 active site 999552010160 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 999552010161 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 999552010162 DNA binding and oxoG recognition site [nucleotide binding] 999552010163 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 999552010164 Fatty acid desaturase; Region: FA_desaturase; pfam00487 999552010165 Di-iron ligands [ion binding]; other site 999552010166 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 999552010167 DNA methylase; Region: N6_N4_Mtase; pfam01555 999552010168 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 999552010169 RNA/DNA hybrid binding site [nucleotide binding]; other site 999552010170 active site 999552010171 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; cl17355 999552010172 DNA binding site [nucleotide binding] 999552010173 Domain of unknown function (DUF427); Region: DUF427; pfam04248 999552010174 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 999552010175 cyclase homology domain; Region: CHD; cd07302 999552010176 nucleotidyl binding site; other site 999552010177 metal binding site [ion binding]; metal-binding site 999552010178 dimer interface [polypeptide binding]; other site 999552010179 Acyl transferase domain; Region: Acyl_transf_1; cl08282 999552010180 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 999552010181 tetramer interface [polypeptide binding]; other site 999552010182 TPP-binding site [chemical binding]; other site 999552010183 heterodimer interface [polypeptide binding]; other site 999552010184 phosphorylation loop region [posttranslational modification] 999552010185 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 999552010186 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 999552010187 PYR/PP interface [polypeptide binding]; other site 999552010188 dimer interface [polypeptide binding]; other site 999552010189 TPP binding site [chemical binding]; other site 999552010190 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 999552010191 two-component response regulator; Provisional; Region: PRK09191 999552010192 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 999552010193 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 999552010194 active site 999552010195 phosphorylation site [posttranslational modification] 999552010196 intermolecular recognition site; other site 999552010197 dimerization interface [polypeptide binding]; other site 999552010198 glucose-6-phosphate 1-dehydrogenase; Region: PLN02640 999552010199 RNA polymerase sigma factor; Provisional; Region: PRK12546 999552010200 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552010201 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 999552010202 DNA binding residues [nucleotide binding] 999552010203 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 999552010204 Histidine kinase; Region: HisKA_2; pfam07568 999552010205 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 999552010206 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 999552010207 putative active site [active] 999552010208 catalytic site [active] 999552010209 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 999552010210 PLD-like domain; Region: PLDc_2; pfam13091 999552010211 putative active site [active] 999552010212 catalytic site [active] 999552010213 Entericidin EcnA/B family; Region: Entericidin; cl02322 999552010214 RNA polymerase sigma factor; Provisional; Region: PRK12546 999552010215 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 999552010216 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 999552010217 DNA binding residues [nucleotide binding] 999552010218 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 999552010219 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 999552010220 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 999552010221 Domain of unknown function DUF20; Region: UPF0118; pfam01594 999552010222 BON domain; Region: BON; pfam04972 999552010223 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 999552010224 Mechanosensitive ion channel; Region: MS_channel; pfam00924 999552010225 Protein required for attachment to host cells; Region: Host_attach; pfam10116 999552010226 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 999552010227 Isochorismatase family; Region: Isochorismatase; pfam00857 999552010228 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 999552010229 catalytic triad [active] 999552010230 dimer interface [polypeptide binding]; other site 999552010231 conserved cis-peptide bond; other site 999552010232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552010233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552010234 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552010235 putative effector binding pocket; other site 999552010236 dimerization interface [polypeptide binding]; other site 999552010237 Integrase core domain; Region: rve; pfam00665 999552010238 MULE transposase domain; Region: MULE; pfam10551 999552010239 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 999552010240 Pirin-related protein [General function prediction only]; Region: COG1741 999552010241 Pirin; Region: Pirin; pfam02678 999552010242 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 999552010243 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 999552010244 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 999552010245 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552010246 Zn binding site [ion binding]; other site 999552010247 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 999552010248 Zn binding site [ion binding]; other site 999552010249 Predicted esterase [General function prediction only]; Region: COG0400 999552010250 putative hydrolase; Provisional; Region: PRK11460 999552010251 Isochorismatase family; Region: Isochorismatase; pfam00857 999552010252 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 999552010253 catalytic triad [active] 999552010254 dimer interface [polypeptide binding]; other site 999552010255 conserved cis-peptide bond; other site 999552010256 Transcriptional regulators [Transcription]; Region: PurR; COG1609 999552010257 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 999552010258 DNA binding site [nucleotide binding] 999552010259 domain linker motif; other site 999552010260 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 999552010261 putative dimerization interface [polypeptide binding]; other site 999552010262 putative ligand binding site [chemical binding]; other site 999552010263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 999552010264 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 999552010265 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 999552010266 active site 999552010267 DctM-like transporters; Region: DctM; pfam06808 999552010268 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552010269 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552010270 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 999552010271 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552010272 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 999552010273 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 999552010274 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 999552010275 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 999552010276 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 999552010277 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 999552010278 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 999552010279 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 999552010280 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 999552010281 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 999552010282 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 999552010283 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 999552010284 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 999552010285 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 999552010286 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 999552010287 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 999552010288 ligand binding site [chemical binding]; other site 999552010289 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 999552010290 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 999552010291 HemN C-terminal domain; Region: HemN_C; pfam06969 999552010292 Uncharacterized conserved protein [Function unknown]; Region: COG4850 999552010293 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 999552010294 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 999552010295 active site 999552010296 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 999552010297 biotin carboxylase-like protein; Validated; Region: PRK06524 999552010298 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 999552010299 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 999552010300 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 999552010301 homodimer interface [polypeptide binding]; other site 999552010302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552010303 catalytic residue [active] 999552010304 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 999552010305 Predicted amidohydrolase [General function prediction only]; Region: COG0388 999552010306 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 999552010307 active site 999552010308 catalytic triad [active] 999552010309 dimer interface [polypeptide binding]; other site 999552010310 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 999552010311 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 999552010312 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 999552010313 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 999552010314 catalytic site [active] 999552010315 putative active site [active] 999552010316 putative substrate binding site [chemical binding]; other site 999552010317 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 999552010318 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 999552010319 putative active site [active] 999552010320 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 999552010321 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 999552010322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 999552010323 OstA-like protein; Region: OstA; pfam03968 999552010324 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 999552010325 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 999552010326 Walker A/P-loop; other site 999552010327 ATP binding site [chemical binding]; other site 999552010328 Q-loop/lid; other site 999552010329 ABC transporter signature motif; other site 999552010330 Walker B; other site 999552010331 D-loop; other site 999552010332 H-loop/switch region; other site 999552010333 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 999552010334 30S subunit binding site; other site 999552010335 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 999552010336 active site 999552010337 phosphorylation site [posttranslational modification] 999552010338 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 999552010339 Core-2/I-Branching enzyme; Region: Branch; pfam02485 999552010340 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552010341 active site 999552010342 active site 999552010343 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 999552010344 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 999552010345 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 999552010346 NAD binding site [chemical binding]; other site 999552010347 homodimer interface [polypeptide binding]; other site 999552010348 active site 999552010349 substrate binding site [chemical binding]; other site 999552010350 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 999552010351 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 999552010352 active site 999552010353 tetramer interface; other site 999552010354 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 999552010355 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 999552010356 Ligand binding site; other site 999552010357 oligomer interface; other site 999552010358 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 999552010359 active site 999552010360 ABC-2 type transporter; Region: ABC2_membrane; cl17235 999552010361 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 999552010362 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 999552010363 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 999552010364 nucleotide binding site [chemical binding]; other site 999552010365 NEF interaction site [polypeptide binding]; other site 999552010366 SBD interface [polypeptide binding]; other site 999552010367 chaperone protein DnaJ; Provisional; Region: PRK10767 999552010368 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 999552010369 HSP70 interaction site [polypeptide binding]; other site 999552010370 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 999552010371 substrate binding site [polypeptide binding]; other site 999552010372 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 999552010373 Zn binding sites [ion binding]; other site 999552010374 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 999552010375 dimer interface [polypeptide binding]; other site 999552010376 hypothetical protein; Reviewed; Region: PRK00024 999552010377 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 999552010378 MPN+ (JAMM) motif; other site 999552010379 Zinc-binding site [ion binding]; other site 999552010380 PBP superfamily domain; Region: PBP_like_2; cl17296 999552010381 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552010382 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552010383 ligand binding site [chemical binding]; other site 999552010384 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 999552010385 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 999552010386 SEC-C motif; Region: SEC-C; pfam02810 999552010387 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 999552010388 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 999552010389 heterotetramer interface [polypeptide binding]; other site 999552010390 active site pocket [active] 999552010391 cleavage site 999552010392 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 999552010393 active site 999552010394 8-oxo-dGMP binding site [chemical binding]; other site 999552010395 nudix motif; other site 999552010396 metal binding site [ion binding]; metal-binding site 999552010397 translation initiation factor IF-2; Region: IF-2; TIGR00487 999552010398 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 999552010399 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 999552010400 G1 box; other site 999552010401 putative GEF interaction site [polypeptide binding]; other site 999552010402 GTP/Mg2+ binding site [chemical binding]; other site 999552010403 Switch I region; other site 999552010404 G2 box; other site 999552010405 G3 box; other site 999552010406 Switch II region; other site 999552010407 G4 box; other site 999552010408 G5 box; other site 999552010409 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 999552010410 Translation-initiation factor 2; Region: IF-2; pfam11987 999552010411 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 999552010412 hypothetical protein; Provisional; Region: PRK09190 999552010413 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 999552010414 putative RNA binding cleft [nucleotide binding]; other site 999552010415 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 999552010416 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 999552010417 NusA N-terminal domain; Region: NusA_N; pfam08529 999552010418 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 999552010419 RNA binding site [nucleotide binding]; other site 999552010420 homodimer interface [polypeptide binding]; other site 999552010421 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 999552010422 G-X-X-G motif; other site 999552010423 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 999552010424 G-X-X-G motif; other site 999552010425 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 999552010426 ribosome maturation protein RimP; Reviewed; Region: PRK00092 999552010427 Sm and related proteins; Region: Sm_like; cl00259 999552010428 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 999552010429 putative oligomer interface [polypeptide binding]; other site 999552010430 putative RNA binding site [nucleotide binding]; other site 999552010431 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 999552010432 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552010433 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 999552010434 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 999552010435 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 999552010436 S-adenosylmethionine binding site [chemical binding]; other site 999552010437 Transcriptional regulators [Transcription]; Region: MarR; COG1846 999552010438 MarR family; Region: MarR_2; pfam12802 999552010439 nitrilase; Region: PLN02798 999552010440 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 999552010441 putative active site [active] 999552010442 catalytic triad [active] 999552010443 dimer interface [polypeptide binding]; other site 999552010444 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 999552010445 GSH binding site [chemical binding]; other site 999552010446 catalytic residues [active] 999552010447 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 999552010448 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552010449 active site 999552010450 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 999552010451 ferrochelatase; Reviewed; Region: hemH; PRK00035 999552010452 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 999552010453 C-terminal domain interface [polypeptide binding]; other site 999552010454 active site 999552010455 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 999552010456 active site 999552010457 N-terminal domain interface [polypeptide binding]; other site 999552010458 hypothetical protein; Provisional; Region: PRK06148 999552010459 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 999552010460 active site 999552010461 ATP binding site [chemical binding]; other site 999552010462 substrate binding site [chemical binding]; other site 999552010463 Peptidase family M23; Region: Peptidase_M23; pfam01551 999552010464 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 999552010465 inhibitor-cofactor binding pocket; inhibition site 999552010466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552010467 catalytic residue [active] 999552010468 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 999552010469 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 999552010470 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 999552010471 Ion transport protein; Region: Ion_trans; pfam00520 999552010472 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 999552010473 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 999552010474 S-adenosylmethionine binding site [chemical binding]; other site 999552010475 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 999552010476 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552010477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552010478 Walker A/P-loop; other site 999552010479 ATP binding site [chemical binding]; other site 999552010480 Q-loop/lid; other site 999552010481 ABC transporter signature motif; other site 999552010482 Walker B; other site 999552010483 D-loop; other site 999552010484 H-loop/switch region; other site 999552010485 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 999552010486 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 999552010487 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552010488 Walker A/P-loop; other site 999552010489 ATP binding site [chemical binding]; other site 999552010490 Q-loop/lid; other site 999552010491 ABC transporter signature motif; other site 999552010492 Walker B; other site 999552010493 D-loop; other site 999552010494 H-loop/switch region; other site 999552010495 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 999552010496 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 999552010497 active site 999552010498 NTP binding site [chemical binding]; other site 999552010499 metal binding triad [ion binding]; metal-binding site 999552010500 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 999552010501 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 999552010502 putative active site [active] 999552010503 putative CoA binding site [chemical binding]; other site 999552010504 nudix motif; other site 999552010505 metal binding site [ion binding]; metal-binding site 999552010506 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 999552010507 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 999552010508 dimerization interface [polypeptide binding]; other site 999552010509 domain crossover interface; other site 999552010510 redox-dependent activation switch; other site 999552010511 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 999552010512 nudix motif; other site 999552010513 Response regulator receiver domain; Region: Response_reg; pfam00072 999552010514 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 999552010515 active site 999552010516 phosphorylation site [posttranslational modification] 999552010517 intermolecular recognition site; other site 999552010518 dimerization interface [polypeptide binding]; other site 999552010519 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 999552010520 Hpt domain; Region: Hpt; pfam01627 999552010521 threonine dehydratase; Validated; Region: PRK08639 999552010522 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 999552010523 tetramer interface [polypeptide binding]; other site 999552010524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552010525 catalytic residue [active] 999552010526 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 999552010527 argininosuccinate synthase; Provisional; Region: PRK13820 999552010528 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 999552010529 ANP binding site [chemical binding]; other site 999552010530 Substrate Binding Site II [chemical binding]; other site 999552010531 Substrate Binding Site I [chemical binding]; other site 999552010532 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 999552010533 SCP-2 sterol transfer family; Region: SCP2; pfam02036 999552010534 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 999552010535 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 999552010536 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 999552010537 substrate binding site [chemical binding]; other site 999552010538 dimer interface [polypeptide binding]; other site 999552010539 ATP binding site [chemical binding]; other site 999552010540 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 999552010541 Malic enzyme, N-terminal domain; Region: malic; pfam00390 999552010542 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 999552010543 putative NAD(P) binding site [chemical binding]; other site 999552010544 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 999552010545 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 999552010546 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 999552010547 MutS domain I; Region: MutS_I; pfam01624 999552010548 MutS domain II; Region: MutS_II; pfam05188 999552010549 MutS domain III; Region: MutS_III; pfam05192 999552010550 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 999552010551 Walker A/P-loop; other site 999552010552 ATP binding site [chemical binding]; other site 999552010553 Q-loop/lid; other site 999552010554 ABC transporter signature motif; other site 999552010555 Walker B; other site 999552010556 D-loop; other site 999552010557 H-loop/switch region; other site 999552010558 GrpE; Region: GrpE; pfam01025 999552010559 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 999552010560 dimer interface [polypeptide binding]; other site 999552010561 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 999552010562 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 999552010563 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 999552010564 ribonuclease PH; Reviewed; Region: rph; PRK00173 999552010565 Ribonuclease PH; Region: RNase_PH_bact; cd11362 999552010566 hexamer interface [polypeptide binding]; other site 999552010567 active site 999552010568 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 999552010569 active site 999552010570 dimerization interface [polypeptide binding]; other site 999552010571 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 999552010572 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 999552010573 FeS/SAM binding site; other site 999552010574 HemN C-terminal domain; Region: HemN_C; pfam06969 999552010575 Protein of unknown function (DUF454); Region: DUF454; cl01063 999552010576 ParB-like nuclease domain; Region: ParBc; pfam02195 999552010577 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 999552010578 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 999552010579 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 999552010580 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 999552010581 P-loop; other site 999552010582 Magnesium ion binding site [ion binding]; other site 999552010583 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 999552010584 Magnesium ion binding site [ion binding]; other site 999552010585 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 999552010586 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 999552010587 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 999552010588 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 999552010589 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 999552010590 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 999552010591 trmE is a tRNA modification GTPase; Region: trmE; cd04164 999552010592 G1 box; other site 999552010593 GTP/Mg2+ binding site [chemical binding]; other site 999552010594 Switch I region; other site 999552010595 G2 box; other site 999552010596 Switch II region; other site 999552010597 G3 box; other site 999552010598 G4 box; other site 999552010599 G5 box; other site 999552010600 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 999552010601 transcription termination factor Rho; Provisional; Region: rho; PRK09376 999552010602 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 999552010603 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 999552010604 RNA binding site [nucleotide binding]; other site 999552010605 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 999552010606 multimer interface [polypeptide binding]; other site 999552010607 Walker A motif; other site 999552010608 ATP binding site [chemical binding]; other site 999552010609 Walker B motif; other site 999552010610 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 999552010611 Maf-like protein; Region: Maf; pfam02545 999552010612 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 999552010613 active site 999552010614 dimer interface [polypeptide binding]; other site 999552010615 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 999552010616 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 999552010617 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 999552010618 shikimate binding site; other site 999552010619 NAD(P) binding site [chemical binding]; other site 999552010620 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 999552010621 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 999552010622 CoA-binding site [chemical binding]; other site 999552010623 ATP-binding [chemical binding]; other site 999552010624 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 999552010625 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 999552010626 active site 999552010627 catalytic site [active] 999552010628 substrate binding site [chemical binding]; other site 999552010629 Preprotein translocase subunit SecB; Region: SecB; pfam02556 999552010630 SecA binding site; other site 999552010631 Preprotein binding site; other site 999552010632 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 999552010633 Tim44-like domain; Region: Tim44; pfam04280 999552010634 MltA specific insert domain; Region: MltA; smart00925 999552010635 3D domain; Region: 3D; pfam06725 999552010636 Smr domain; Region: Smr; pfam01713 999552010637 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 999552010638 ADP-specific Phosphofructokinase/Glucokinase conserved region; Region: ADP_PFK_GK; cl14060 999552010639 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 999552010640 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 999552010641 Walker A motif; other site 999552010642 ATP binding site [chemical binding]; other site 999552010643 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 999552010644 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 999552010645 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 999552010646 active site 999552010647 HslU subunit interaction site [polypeptide binding]; other site 999552010648 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 999552010649 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 999552010650 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 999552010651 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 999552010652 catalytic residues [active] 999552010653 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 999552010654 Part of AAA domain; Region: AAA_19; pfam13245 999552010655 Family description; Region: UvrD_C_2; pfam13538 999552010656 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 999552010657 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 999552010658 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 999552010659 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 999552010660 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 999552010661 Substrate binding site; other site 999552010662 metal-binding site 999552010663 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 999552010664 Phosphotransferase enzyme family; Region: APH; pfam01636 999552010665 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 999552010666 PAS fold; Region: PAS_7; pfam12860 999552010667 PAS fold; Region: PAS_7; pfam12860 999552010668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552010669 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 999552010670 dimer interface [polypeptide binding]; other site 999552010671 phosphorylation site [posttranslational modification] 999552010672 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 999552010673 ATP binding site [chemical binding]; other site 999552010674 Mg2+ binding site [ion binding]; other site 999552010675 G-X-G motif; other site 999552010676 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 999552010677 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 999552010678 Cu(I) binding site [ion binding]; other site 999552010679 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 999552010680 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 999552010681 active site 999552010682 phosphorylation site [posttranslational modification] 999552010683 intermolecular recognition site; other site 999552010684 dimerization interface [polypeptide binding]; other site 999552010685 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 999552010686 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 999552010687 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 999552010688 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 999552010689 homotetramer interface [polypeptide binding]; other site 999552010690 ligand binding site [chemical binding]; other site 999552010691 catalytic site [active] 999552010692 NAD binding site [chemical binding]; other site 999552010693 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 999552010694 EVE domain; Region: EVE; cl00728 999552010695 YciI-like protein; Reviewed; Region: PRK12863 999552010696 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 999552010697 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 999552010698 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 999552010699 UGMP family protein; Validated; Region: PRK09604 999552010700 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 999552010701 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 999552010702 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 999552010703 active site 999552010704 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 999552010705 HemY protein N-terminus; Region: HemY_N; pfam07219 999552010706 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 999552010707 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 999552010708 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 999552010709 putative NAD(P) binding site [chemical binding]; other site 999552010710 active site 999552010711 Bacitracin resistance protein BacA; Region: BacA; pfam02673 999552010712 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 999552010713 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552010714 Uncharacterized conserved protein [Function unknown]; Region: COG3791 999552010715 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 999552010716 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 999552010717 active site 999552010718 dimer interface [polypeptide binding]; other site 999552010719 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 999552010720 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 999552010721 active site 999552010722 FMN binding site [chemical binding]; other site 999552010723 substrate binding site [chemical binding]; other site 999552010724 3Fe-4S cluster binding site [ion binding]; other site 999552010725 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 999552010726 domain interface; other site 999552010727 Transglycosylase; Region: Transgly; cl17702 999552010728 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 999552010729 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552010730 C-terminal domain interface [polypeptide binding]; other site 999552010731 GSH binding site (G-site) [chemical binding]; other site 999552010732 dimer interface [polypeptide binding]; other site 999552010733 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 999552010734 N-terminal domain interface [polypeptide binding]; other site 999552010735 dimer interface [polypeptide binding]; other site 999552010736 substrate binding pocket (H-site) [chemical binding]; other site 999552010737 epoxyqueuosine reductase; Region: TIGR00276 999552010738 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 999552010739 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 999552010740 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 999552010741 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 999552010742 methionine sulfoxide reductase A; Provisional; Region: PRK14054 999552010743 methionine sulfoxide reductase B; Provisional; Region: PRK00222 999552010744 SelR domain; Region: SelR; pfam01641 999552010745 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 999552010746 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 999552010747 EamA-like transporter family; Region: EamA; pfam00892 999552010748 EamA-like transporter family; Region: EamA; pfam00892 999552010749 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552010750 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 999552010751 IHF dimer interface [polypeptide binding]; other site 999552010752 IHF - DNA interface [nucleotide binding]; other site 999552010753 AMP nucleosidase; Provisional; Region: PRK08292 999552010754 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 999552010755 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 999552010756 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 999552010757 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 999552010758 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 999552010759 active site 999552010760 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 999552010761 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 999552010762 active site 999552010763 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552010764 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552010765 conserved cys residue [active] 999552010766 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552010767 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 999552010768 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 999552010769 active site 999552010770 Rdx family; Region: Rdx; cl01407 999552010771 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 999552010772 CoA binding domain; Region: CoA_binding_2; pfam13380 999552010773 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 999552010774 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 999552010775 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 999552010776 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552010777 substrate binding site [chemical binding]; other site 999552010778 oxyanion hole (OAH) forming residues; other site 999552010779 trimer interface [polypeptide binding]; other site 999552010780 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 999552010781 S-adenosylmethionine binding site [chemical binding]; other site 999552010782 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 999552010783 putative NAD(P) binding site [chemical binding]; other site 999552010784 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 999552010785 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 999552010786 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 999552010787 TPP-binding site; other site 999552010788 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 999552010789 PYR/PP interface [polypeptide binding]; other site 999552010790 dimer interface [polypeptide binding]; other site 999552010791 TPP binding site [chemical binding]; other site 999552010792 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 999552010793 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 999552010794 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 999552010795 substrate binding pocket [chemical binding]; other site 999552010796 chain length determination region; other site 999552010797 substrate-Mg2+ binding site; other site 999552010798 catalytic residues [active] 999552010799 aspartate-rich region 1; other site 999552010800 active site lid residues [active] 999552010801 aspartate-rich region 2; other site 999552010802 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 999552010803 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 999552010804 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 999552010805 putative active site [active] 999552010806 Zn binding site [ion binding]; other site 999552010807 osmolarity response regulator; Provisional; Region: ompR; PRK09468 999552010808 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 999552010809 active site 999552010810 phosphorylation site [posttranslational modification] 999552010811 intermolecular recognition site; other site 999552010812 dimerization interface [polypeptide binding]; other site 999552010813 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 999552010814 DNA binding site [nucleotide binding] 999552010815 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 999552010816 MarR family; Region: MarR_2; pfam12802 999552010817 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 999552010818 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 999552010819 homodimer interface [polypeptide binding]; other site 999552010820 substrate-cofactor binding pocket; other site 999552010821 catalytic residue [active] 999552010822 MgtC family; Region: MgtC; pfam02308 999552010823 Helix-turn-helix domain; Region: HTH_18; pfam12833 999552010824 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552010825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552010826 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 999552010827 dimerization interface [polypeptide binding]; other site 999552010828 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 999552010829 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 999552010830 putative NAD(P) binding site [chemical binding]; other site 999552010831 putative active site [active] 999552010832 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 999552010833 EamA-like transporter family; Region: EamA; pfam00892 999552010834 EamA-like transporter family; Region: EamA; pfam00892 999552010835 malonyl-CoA synthase; Validated; Region: PRK07514 999552010836 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 999552010837 acyl-activating enzyme (AAE) consensus motif; other site 999552010838 active site 999552010839 AMP binding site [chemical binding]; other site 999552010840 CoA binding site [chemical binding]; other site 999552010841 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 999552010842 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 999552010843 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 999552010844 DNA binding residues [nucleotide binding] 999552010845 dimer interface [polypeptide binding]; other site 999552010846 putative metal binding site [ion binding]; other site 999552010847 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 999552010848 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 999552010849 Tetramer interface [polypeptide binding]; other site 999552010850 active site 999552010851 FMN-binding site [chemical binding]; other site 999552010852 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552010853 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 999552010854 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 999552010855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552010856 dimer interface [polypeptide binding]; other site 999552010857 conserved gate region; other site 999552010858 putative PBP binding loops; other site 999552010859 ABC-ATPase subunit interface; other site 999552010860 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 999552010861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552010862 Walker A/P-loop; other site 999552010863 ATP binding site [chemical binding]; other site 999552010864 Q-loop/lid; other site 999552010865 ABC transporter signature motif; other site 999552010866 Walker B; other site 999552010867 D-loop; other site 999552010868 H-loop/switch region; other site 999552010869 riboflavin synthase subunit beta; Provisional; Region: PRK12419 999552010870 active site 999552010871 homopentamer interface [polypeptide binding]; other site 999552010872 putative glutathione S-transferase; Provisional; Region: PRK10357 999552010873 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 999552010874 putative C-terminal domain interface [polypeptide binding]; other site 999552010875 putative GSH binding site (G-site) [chemical binding]; other site 999552010876 putative dimer interface [polypeptide binding]; other site 999552010877 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 999552010878 N-terminal domain interface [polypeptide binding]; other site 999552010879 dimer interface [polypeptide binding]; other site 999552010880 putative substrate binding pocket (H-site) [chemical binding]; other site 999552010881 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 999552010882 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 999552010883 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 999552010884 [2Fe-2S] cluster binding site [ion binding]; other site 999552010885 cytochrome b; Provisional; Region: CYTB; MTH00191 999552010886 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 999552010887 intrachain domain interface; other site 999552010888 interchain domain interface [polypeptide binding]; other site 999552010889 heme bH binding site [chemical binding]; other site 999552010890 Qi binding site; other site 999552010891 heme bL binding site [chemical binding]; other site 999552010892 Qo binding site; other site 999552010893 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 999552010894 interchain domain interface [polypeptide binding]; other site 999552010895 intrachain domain interface; other site 999552010896 Qi binding site; other site 999552010897 Qo binding site; other site 999552010898 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 999552010899 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 999552010900 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 999552010901 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 999552010902 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 999552010903 FeS/SAM binding site; other site 999552010904 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 999552010905 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 999552010906 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 999552010907 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 999552010908 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 999552010909 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 999552010910 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 999552010911 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 999552010912 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 999552010913 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 999552010914 Uncharacterized conserved protein [Function unknown]; Region: COG3334 999552010915 flagellar motor protein MotA; Validated; Region: PRK09110 999552010916 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 999552010917 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 999552010918 FHIPEP family; Region: FHIPEP; pfam00771 999552010919 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 999552010920 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 999552010921 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 999552010922 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 999552010923 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 999552010924 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 999552010925 SAF-like; Region: SAF_2; pfam13144 999552010926 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 999552010927 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 999552010928 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 999552010929 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 999552010930 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 999552010931 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 999552010932 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 999552010933 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 999552010934 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 999552010935 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 999552010936 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 999552010937 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 999552010938 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 999552010939 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 999552010940 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 999552010941 Walker A motif; other site 999552010942 ATP binding site [chemical binding]; other site 999552010943 Walker B motif; other site 999552010944 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 999552010945 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 999552010946 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 999552010947 flagellin; Reviewed; Region: PRK12687 999552010948 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 999552010949 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 999552010950 FlgN protein; Region: FlgN; pfam05130 999552010951 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 999552010952 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 999552010953 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 999552010954 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 999552010955 Phosphotransferase enzyme family; Region: APH; pfam01636 999552010956 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 999552010957 substrate binding site [chemical binding]; other site 999552010958 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 999552010959 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552010960 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 999552010961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552010962 dimer interface [polypeptide binding]; other site 999552010963 conserved gate region; other site 999552010964 putative PBP binding loops; other site 999552010965 ABC-ATPase subunit interface; other site 999552010966 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552010967 dimer interface [polypeptide binding]; other site 999552010968 conserved gate region; other site 999552010969 putative PBP binding loops; other site 999552010970 ABC-ATPase subunit interface; other site 999552010971 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552010972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552010973 Walker A/P-loop; other site 999552010974 ATP binding site [chemical binding]; other site 999552010975 Q-loop/lid; other site 999552010976 ABC transporter signature motif; other site 999552010977 Walker B; other site 999552010978 D-loop; other site 999552010979 H-loop/switch region; other site 999552010980 TOBE domain; Region: TOBE_2; pfam08402 999552010981 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 999552010982 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552010983 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552010984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552010985 DNA-binding site [nucleotide binding]; DNA binding site 999552010986 FCD domain; Region: FCD; pfam07729 999552010987 putative aminotransferase; Validated; Region: PRK07480 999552010988 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 999552010989 inhibitor-cofactor binding pocket; inhibition site 999552010990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552010991 catalytic residue [active] 999552010992 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552010993 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552010994 Walker A/P-loop; other site 999552010995 ATP binding site [chemical binding]; other site 999552010996 Q-loop/lid; other site 999552010997 ABC transporter signature motif; other site 999552010998 Walker B; other site 999552010999 D-loop; other site 999552011000 H-loop/switch region; other site 999552011001 TOBE domain; Region: TOBE_2; pfam08402 999552011002 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 999552011003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552011004 dimer interface [polypeptide binding]; other site 999552011005 conserved gate region; other site 999552011006 putative PBP binding loops; other site 999552011007 ABC-ATPase subunit interface; other site 999552011008 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 999552011009 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552011010 dimer interface [polypeptide binding]; other site 999552011011 conserved gate region; other site 999552011012 putative PBP binding loops; other site 999552011013 ABC-ATPase subunit interface; other site 999552011014 Transglycosylase SLT domain; Region: SLT_2; pfam13406 999552011015 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 999552011016 N-acetyl-D-glucosamine binding site [chemical binding]; other site 999552011017 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552011018 Predicted transcriptional regulator [Transcription]; Region: COG2378 999552011019 HTH domain; Region: HTH_11; pfam08279 999552011020 WYL domain; Region: WYL; pfam13280 999552011021 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 999552011022 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 999552011023 putative N-terminal domain interface [polypeptide binding]; other site 999552011024 Domain of unknown function (DU1801); Region: DUF1801; cl17490 999552011025 ribonuclease R; Region: RNase_R; TIGR02063 999552011026 RNB domain; Region: RNB; pfam00773 999552011027 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 999552011028 RNA binding site [nucleotide binding]; other site 999552011029 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 999552011030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 999552011031 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 999552011032 Coenzyme A binding pocket [chemical binding]; other site 999552011033 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 999552011034 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 999552011035 metal binding site [ion binding]; metal-binding site 999552011036 dimer interface [polypeptide binding]; other site 999552011037 Hint domain; Region: Hint_2; pfam13403 999552011038 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 999552011039 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 999552011040 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 999552011041 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 999552011042 membrane-bound complex binding site; other site 999552011043 hinge residues; other site 999552011044 HutD; Region: HutD; pfam05962 999552011045 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 999552011046 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 999552011047 active site 999552011048 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 999552011049 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 999552011050 trimer interface [polypeptide binding]; other site 999552011051 active site 999552011052 substrate binding site [chemical binding]; other site 999552011053 CoA binding site [chemical binding]; other site 999552011054 Transcriptional regulators [Transcription]; Region: FadR; COG2186 999552011055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552011056 DNA-binding site [nucleotide binding]; DNA binding site 999552011057 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 999552011058 threonine dehydratase; Provisional; Region: PRK08246 999552011059 hypothetical protein; Provisional; Region: PRK06815 999552011060 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011061 catalytic residue [active] 999552011062 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 999552011063 Integrase core domain; Region: rve; pfam00665 999552011064 Integrase core domain; Region: rve_3; pfam13683 999552011065 Transposase; Region: HTH_Tnp_1; cl17663 999552011066 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 999552011067 active site 999552011068 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 999552011069 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 999552011070 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 999552011071 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 999552011072 L-asparaginase II; Region: Asparaginase_II; pfam06089 999552011073 YCII-related domain; Region: YCII; cl00999 999552011074 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 999552011075 putative hydrophobic ligand binding site [chemical binding]; other site 999552011076 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 999552011077 dimerization interface [polypeptide binding]; other site 999552011078 putative DNA binding site [nucleotide binding]; other site 999552011079 Transcriptional regulators [Transcription]; Region: MarR; COG1846 999552011080 putative Zn2+ binding site [ion binding]; other site 999552011081 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 999552011082 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 999552011083 motif II; other site 999552011084 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 999552011085 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011086 catalytic residue [active] 999552011087 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 999552011088 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 999552011089 ligand binding site [chemical binding]; other site 999552011090 NAD binding site [chemical binding]; other site 999552011091 dimerization interface [polypeptide binding]; other site 999552011092 catalytic site [active] 999552011093 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 999552011094 putative L-serine binding site [chemical binding]; other site 999552011095 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 999552011096 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 999552011097 active site 999552011098 metal binding site [ion binding]; metal-binding site 999552011099 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 999552011100 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 999552011101 NAD(P) binding site [chemical binding]; other site 999552011102 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 999552011103 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 999552011104 substrate-cofactor binding pocket; other site 999552011105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552011106 catalytic residue [active] 999552011107 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 999552011108 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 999552011109 active site 999552011110 cspA; Derived by automated computational analysis using gene prediction method: cmsearch. 999552011111 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 999552011112 DNA-binding site [nucleotide binding]; DNA binding site 999552011113 RNA-binding motif; other site 999552011114 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 999552011115 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 999552011116 non-specific DNA binding site [nucleotide binding]; other site 999552011117 salt bridge; other site 999552011118 sequence-specific DNA binding site [nucleotide binding]; other site 999552011119 beta-ketothiolase; Provisional; Region: PRK09051 999552011120 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 999552011121 dimer interface [polypeptide binding]; other site 999552011122 active site 999552011123 ABC1 family; Region: ABC1; cl17513 999552011124 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 999552011125 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 999552011126 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 999552011127 S-adenosylmethionine binding site [chemical binding]; other site 999552011128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 999552011129 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 999552011130 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 999552011131 DNA binding site [nucleotide binding] 999552011132 catalytic residue [active] 999552011133 H2TH interface [polypeptide binding]; other site 999552011134 putative catalytic residues [active] 999552011135 turnover-facilitating residue; other site 999552011136 intercalation triad [nucleotide binding]; other site 999552011137 8OG recognition residue [nucleotide binding]; other site 999552011138 putative reading head residues; other site 999552011139 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 999552011140 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 999552011141 enoyl-CoA hydratase; Provisional; Region: PRK05862 999552011142 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 999552011143 substrate binding site [chemical binding]; other site 999552011144 oxyanion hole (OAH) forming residues; other site 999552011145 trimer interface [polypeptide binding]; other site 999552011146 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 999552011147 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 999552011148 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 999552011149 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 999552011150 active site 999552011151 catalytic residues [active] 999552011152 DNA binding site [nucleotide binding] 999552011153 Int/Topo IB signature motif; other site 999552011154 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 999552011155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552011156 Walker A/P-loop; other site 999552011157 ATP binding site [chemical binding]; other site 999552011158 Q-loop/lid; other site 999552011159 ABC transporter signature motif; other site 999552011160 Walker B; other site 999552011161 D-loop; other site 999552011162 H-loop/switch region; other site 999552011163 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 999552011164 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552011165 dimer interface [polypeptide binding]; other site 999552011166 conserved gate region; other site 999552011167 putative PBP binding loops; other site 999552011168 ABC-ATPase subunit interface; other site 999552011169 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 999552011170 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 999552011171 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552011172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011173 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 999552011174 dimerization interface [polypeptide binding]; other site 999552011175 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552011176 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552011177 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552011178 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552011179 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552011180 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552011181 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 999552011182 conserved cys residue [active] 999552011183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552011184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552011185 D-cysteine desulfhydrase; Validated; Region: PRK03910 999552011186 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 999552011187 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011188 catalytic residue [active] 999552011189 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 999552011190 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011191 catalytic residue [active] 999552011192 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 999552011193 aspartate racemase; Region: asp_race; TIGR00035 999552011194 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 999552011195 histidinol dehydrogenase; Region: hisD; TIGR00069 999552011196 NAD binding site [chemical binding]; other site 999552011197 dimerization interface [polypeptide binding]; other site 999552011198 product binding site; other site 999552011199 substrate binding site [chemical binding]; other site 999552011200 zinc binding site [ion binding]; other site 999552011201 catalytic residues [active] 999552011202 Predicted membrane protein [Function unknown]; Region: COG2855 999552011203 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011205 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552011206 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 999552011207 Integrase core domain; Region: rve_3; pfam13683 999552011208 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011210 malonyl-CoA synthase; Validated; Region: PRK07514 999552011211 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 999552011212 acyl-activating enzyme (AAE) consensus motif; other site 999552011213 active site 999552011214 AMP binding site [chemical binding]; other site 999552011215 CoA binding site [chemical binding]; other site 999552011216 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 999552011217 amidase; Provisional; Region: PRK07486 999552011218 Amidase; Region: Amidase; pfam01425 999552011219 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552011220 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552011221 DctM-like transporters; Region: DctM; pfam06808 999552011222 Transcriptional regulators [Transcription]; Region: MarR; COG1846 999552011223 MarR family; Region: MarR_2; cl17246 999552011224 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 999552011225 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 999552011226 active site 999552011227 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 999552011228 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 999552011229 Sulfate transporter family; Region: Sulfate_transp; pfam00916 999552011230 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 999552011231 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 999552011232 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 999552011233 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552011234 NAD(P) binding site [chemical binding]; other site 999552011235 catalytic residues [active] 999552011236 hypothetical protein; Provisional; Region: PRK07481 999552011237 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 999552011238 inhibitor-cofactor binding pocket; inhibition site 999552011239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552011240 catalytic residue [active] 999552011241 Transcriptional regulator [Transcription]; Region: IclR; COG1414 999552011242 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 999552011243 Bacterial transcriptional regulator; Region: IclR; pfam01614 999552011244 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 999552011245 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 999552011246 inhibitor-cofactor binding pocket; inhibition site 999552011247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552011248 catalytic residue [active] 999552011249 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 999552011250 Phosphotransferase enzyme family; Region: APH; pfam01636 999552011251 active site 999552011252 substrate binding site [chemical binding]; other site 999552011253 ATP binding site [chemical binding]; other site 999552011254 HTH DNA binding domain; Region: HTH_13; pfam11972 999552011255 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 999552011256 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 999552011257 catalytic residues [active] 999552011258 catalytic nucleophile [active] 999552011259 Presynaptic Site I dimer interface [polypeptide binding]; other site 999552011260 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 999552011261 Synaptic Flat tetramer interface [polypeptide binding]; other site 999552011262 Synaptic Site I dimer interface [polypeptide binding]; other site 999552011263 DNA binding site [nucleotide binding] 999552011264 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 999552011265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 999552011266 Integrase core domain; Region: rve; pfam00665 999552011267 Caspase domain; Region: Peptidase_C14; pfam00656 999552011268 YceI-like domain; Region: YceI; pfam04264 999552011269 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552011270 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552011271 ligand binding site [chemical binding]; other site 999552011272 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 999552011273 ParB-like nuclease domain; Region: ParBc; pfam02195 999552011274 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 999552011275 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 999552011276 P-loop; other site 999552011277 Magnesium ion binding site [ion binding]; other site 999552011278 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 999552011279 Magnesium ion binding site [ion binding]; other site 999552011280 DnaA N-terminal domain; Region: DnaA_N; pfam11638 999552011281 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 999552011282 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 999552011283 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 999552011284 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 999552011285 Uncharacterized conserved protein [Function unknown]; Region: COG3791 999552011286 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 999552011287 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 999552011288 putative active site [active] 999552011289 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 999552011290 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 999552011291 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 999552011292 active site residue [active] 999552011293 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 999552011294 active site residue [active] 999552011295 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 999552011296 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 999552011297 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 999552011298 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552011299 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 999552011300 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 999552011301 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 999552011302 dimer interface [polypeptide binding]; other site 999552011303 phosphorylation site [posttranslational modification] 999552011304 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 999552011305 ATP binding site [chemical binding]; other site 999552011306 Mg2+ binding site [ion binding]; other site 999552011307 G-X-G motif; other site 999552011308 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552011309 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 999552011310 active site 999552011311 phosphorylation site [posttranslational modification] 999552011312 intermolecular recognition site; other site 999552011313 dimerization interface [polypeptide binding]; other site 999552011314 Response regulator receiver domain; Region: Response_reg; pfam00072 999552011315 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 999552011316 active site 999552011317 phosphorylation site [posttranslational modification] 999552011318 intermolecular recognition site; other site 999552011319 dimerization interface [polypeptide binding]; other site 999552011320 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 999552011321 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 999552011322 ABC-ATPase subunit interface; other site 999552011323 dimer interface [polypeptide binding]; other site 999552011324 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 999552011325 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 999552011326 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 999552011327 metal binding site 2 [ion binding]; metal-binding site 999552011328 putative DNA binding helix; other site 999552011329 metal binding site 1 [ion binding]; metal-binding site 999552011330 dimer interface [polypeptide binding]; other site 999552011331 structural Zn2+ binding site [ion binding]; other site 999552011332 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 999552011333 intersubunit interface [polypeptide binding]; other site 999552011334 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 999552011335 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 999552011336 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552011337 aldehyde dehydrogenase family 7 member; Region: PLN02315 999552011338 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 999552011339 tetrameric interface [polypeptide binding]; other site 999552011340 NAD binding site [chemical binding]; other site 999552011341 catalytic residues [active] 999552011342 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552011343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011344 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 999552011345 dimerization interface [polypeptide binding]; other site 999552011346 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552011347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011348 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 999552011349 dimerization interface [polypeptide binding]; other site 999552011350 aspartate aminotransferase; Provisional; Region: PRK05764 999552011351 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 999552011352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552011353 homodimer interface [polypeptide binding]; other site 999552011354 catalytic residue [active] 999552011355 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552011356 CoA binding site [chemical binding]; other site 999552011357 active site 999552011358 AMP binding site [chemical binding]; other site 999552011359 Acyltransferase family; Region: Acyl_transf_3; pfam01757 999552011360 integron integrase; Region: integrase_gron; TIGR02249 999552011361 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 999552011362 active site 999552011363 Int/Topo IB signature motif; other site 999552011364 DNA binding site [nucleotide binding] 999552011365 Putative transposase; Region: Y2_Tnp; pfam04986 999552011366 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011367 HTH domain; Region: HTH_11; pfam08279 999552011368 WYL domain; Region: WYL; pfam13280 999552011369 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552011370 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 999552011371 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 999552011372 dimer interface [polypeptide binding]; other site 999552011373 N-terminal domain interface [polypeptide binding]; other site 999552011374 putative substrate binding pocket (H-site) [chemical binding]; other site 999552011375 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552011376 DctM-like transporters; Region: DctM; pfam06808 999552011377 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 999552011378 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552011379 DctM-like transporters; Region: DctM; pfam06808 999552011380 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552011381 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 999552011382 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 999552011383 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 999552011384 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 999552011385 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011386 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 999552011387 dimerization interface [polypeptide binding]; other site 999552011388 putative DNA binding site [nucleotide binding]; other site 999552011389 putative Zn2+ binding site [ion binding]; other site 999552011390 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 999552011391 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011392 catalytic residue [active] 999552011393 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 999552011394 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 999552011395 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011396 catalytic residue [active] 999552011397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 999552011398 Transposase; Region: HTH_Tnp_1; cl17663 999552011399 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 999552011400 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 999552011401 Integrase core domain; Region: rve; pfam00665 999552011402 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 999552011403 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 999552011404 active site 999552011405 DNA binding site [nucleotide binding] 999552011406 Int/Topo IB signature motif; other site 999552011407 Transposase; Region: HTH_Tnp_1; cl17663 999552011408 Predicted transcriptional regulators [Transcription]; Region: COG1733 999552011409 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 999552011410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 999552011411 Transposase; Region: DDE_Tnp_ISL3; pfam01610 999552011412 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 999552011413 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 999552011414 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 999552011415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 999552011416 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 999552011417 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 999552011418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552011419 dimer interface [polypeptide binding]; other site 999552011420 conserved gate region; other site 999552011421 putative PBP binding loops; other site 999552011422 ABC-ATPase subunit interface; other site 999552011423 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552011424 dimer interface [polypeptide binding]; other site 999552011425 conserved gate region; other site 999552011426 putative PBP binding loops; other site 999552011427 ABC-ATPase subunit interface; other site 999552011428 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 999552011429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552011430 Walker A/P-loop; other site 999552011431 ATP binding site [chemical binding]; other site 999552011432 Q-loop/lid; other site 999552011433 ABC transporter signature motif; other site 999552011434 Walker B; other site 999552011435 D-loop; other site 999552011436 H-loop/switch region; other site 999552011437 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552011438 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 999552011439 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552011440 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552011441 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 999552011442 Integrase core domain; Region: rve; pfam00665 999552011443 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 999552011444 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 999552011445 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 999552011446 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 999552011447 NAD(P) binding site [chemical binding]; other site 999552011448 catalytic residues [active] 999552011449 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 999552011450 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 999552011451 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 999552011452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552011453 catalytic residue [active] 999552011454 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 999552011455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011456 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 999552011457 dimerization interface [polypeptide binding]; other site 999552011458 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 999552011459 hypothetical protein; Provisional; Region: PRK10621 999552011460 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011461 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 999552011462 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 999552011463 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 999552011464 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 999552011465 active site 999552011466 thymidine phosphorylase; Provisional; Region: PRK04350 999552011467 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 999552011468 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 999552011469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011470 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011471 Winged helix-turn helix; Region: HTH_29; pfam13551 999552011472 Helix-turn-helix domain; Region: HTH_28; pfam13518 999552011473 Homeodomain-like domain; Region: HTH_32; pfam13565 999552011474 Integrase core domain; Region: rve; pfam00665 999552011475 Integrase core domain; Region: rve_3; cl15866 999552011476 choline dehydrogenase; Validated; Region: PRK02106 999552011477 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 999552011478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 999552011479 Transposase; Region: DDE_Tnp_ISL3; pfam01610 999552011480 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 999552011481 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 999552011482 active site 999552011483 Zn binding site [ion binding]; other site 999552011484 Methyltransferase domain; Region: Methyltransf_31; pfam13847 999552011485 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 999552011486 S-adenosylmethionine binding site [chemical binding]; other site 999552011487 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552011488 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 999552011489 conserved cys residue [active] 999552011490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552011491 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011493 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552011494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 999552011495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 999552011496 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011497 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 999552011498 Transposase; Region: HTH_Tnp_1; cl17663 999552011499 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011500 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552011501 HTH-like domain; Region: HTH_21; pfam13276 999552011502 Integrase core domain; Region: rve; pfam00665 999552011503 Integrase core domain; Region: rve_3; pfam13683 999552011504 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 999552011505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011506 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 999552011507 dimerization interface [polypeptide binding]; other site 999552011508 Transposase, Mutator family; Region: Transposase_mut; pfam00872 999552011509 MULE transposase domain; Region: MULE; pfam10551 999552011510 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 999552011511 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 999552011512 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 999552011513 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 999552011514 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552011515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011516 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552011517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011518 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011519 Transposase domain (DUF772); Region: DUF772; pfam05598 999552011520 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011522 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552011523 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011524 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 999552011525 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552011526 Ligand Binding Site [chemical binding]; other site 999552011527 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 999552011528 Protein required for attachment to host cells; Region: Host_attach; pfam10116 999552011529 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 999552011530 Peptidase family M50; Region: Peptidase_M50; pfam02163 999552011531 active site 999552011532 putative substrate binding region [chemical binding]; other site 999552011533 FOG: CBS domain [General function prediction only]; Region: COG0517 999552011534 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 999552011535 CCC1-related family of proteins; Region: CCC1_like; cl00278 999552011536 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 999552011537 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 999552011538 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 999552011539 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 999552011540 Soluble P-type ATPase [General function prediction only]; Region: COG4087 999552011541 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 999552011542 sulfite oxidase; Provisional; Region: PLN00177 999552011543 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 999552011544 Moco binding site; other site 999552011545 metal coordination site [ion binding]; other site 999552011546 dimerization interface [polypeptide binding]; other site 999552011547 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 999552011548 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552011549 Ligand Binding Site [chemical binding]; other site 999552011550 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 999552011551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 999552011552 Beta-Casp domain; Region: Beta-Casp; smart01027 999552011553 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 999552011554 Helix-turn-helix domain; Region: HTH_38; pfam13936 999552011555 Transposase; Region: HTH_Tnp_1; pfam01527 999552011556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 999552011557 HTH-like domain; Region: HTH_21; pfam13276 999552011558 Integrase core domain; Region: rve; pfam00665 999552011559 Integrase core domain; Region: rve_3; pfam13683 999552011560 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 999552011561 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 999552011562 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 999552011563 putative active site [active] 999552011564 putative dimer interface [polypeptide binding]; other site 999552011565 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 999552011566 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 999552011567 ligand binding site [chemical binding]; other site 999552011568 flexible hinge region; other site 999552011569 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 999552011570 non-specific DNA interactions [nucleotide binding]; other site 999552011571 DNA binding site [nucleotide binding] 999552011572 sequence specific DNA binding site [nucleotide binding]; other site 999552011573 putative cAMP binding site [chemical binding]; other site 999552011574 FOG: CBS domain [General function prediction only]; Region: COG0517 999552011575 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_9; cd04622 999552011576 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 999552011577 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 999552011578 putative dimer interface [polypeptide binding]; other site 999552011579 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552011580 Ligand Binding Site [chemical binding]; other site 999552011581 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 999552011582 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 999552011583 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 999552011584 Transposase domain (DUF772); Region: DUF772; pfam05598 999552011585 Phosphopantetheine attachment site; Region: PP-binding; cl09936 999552011586 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 999552011587 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 999552011588 E3 interaction surface; other site 999552011589 lipoyl attachment site [posttranslational modification]; other site 999552011590 e3 binding domain; Region: E3_binding; pfam02817 999552011591 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 999552011592 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 999552011593 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 999552011594 tetramer interface [polypeptide binding]; other site 999552011595 TPP-binding site [chemical binding]; other site 999552011596 heterodimer interface [polypeptide binding]; other site 999552011597 phosphorylation loop region [posttranslational modification] 999552011598 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 999552011599 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 999552011600 alpha subunit interface [polypeptide binding]; other site 999552011601 TPP binding site [chemical binding]; other site 999552011602 heterodimer interface [polypeptide binding]; other site 999552011603 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 999552011604 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 999552011605 acetyl-CoA synthetase; Provisional; Region: PRK04319 999552011606 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552011607 acyl-activating enzyme (AAE) consensus motif; other site 999552011608 AMP binding site [chemical binding]; other site 999552011609 active site 999552011610 CoA binding site [chemical binding]; other site 999552011611 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 999552011612 phosphoenolpyruvate synthase; Validated; Region: PRK06464 999552011613 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 999552011614 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 999552011615 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 999552011616 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 999552011617 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 999552011618 putative substrate binding site [chemical binding]; other site 999552011619 putative ATP binding site [chemical binding]; other site 999552011620 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 999552011621 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011622 guanine deaminase; Provisional; Region: PRK09228 999552011623 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 999552011624 active site 999552011625 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 999552011626 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 999552011627 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 999552011628 XdhC Rossmann domain; Region: XdhC_C; pfam13478 999552011629 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 999552011630 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 999552011631 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 999552011632 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 999552011633 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552011634 catalytic loop [active] 999552011635 iron binding site [ion binding]; other site 999552011636 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 999552011637 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 999552011638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552011639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011640 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552011641 putative effector binding pocket; other site 999552011642 dimerization interface [polypeptide binding]; other site 999552011643 Predicted membrane protein [Function unknown]; Region: COG3748 999552011644 Protein of unknown function (DUF989); Region: DUF989; pfam06181 999552011645 Cytochrome c; Region: Cytochrom_C; pfam00034 999552011646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552011647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011648 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552011649 putative effector binding pocket; other site 999552011650 dimerization interface [polypeptide binding]; other site 999552011651 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 999552011652 active site 999552011653 homotetramer interface [polypeptide binding]; other site 999552011654 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 999552011655 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 999552011656 active site 999552011657 catalytic site [active] 999552011658 tetramer interface [polypeptide binding]; other site 999552011659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 999552011660 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 999552011661 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 999552011662 xanthine permease; Region: pbuX; TIGR03173 999552011663 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 999552011664 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 999552011665 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 999552011666 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 999552011667 dimer interface [polypeptide binding]; other site 999552011668 active site 999552011669 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 999552011670 substrate binding site [chemical binding]; other site 999552011671 catalytic residue [active] 999552011672 serine racemase; Region: PLN02970 999552011673 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 999552011674 tetramer interface [polypeptide binding]; other site 999552011675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552011676 catalytic residue [active] 999552011677 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 999552011678 homodimer interface [polypeptide binding]; other site 999552011679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552011680 catalytic residue [active] 999552011681 Transcriptional regulator [Transcription]; Region: IclR; COG1414 999552011682 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 999552011683 Bacterial transcriptional regulator; Region: IclR; pfam01614 999552011684 hypothetical protein; Provisional; Region: PRK11171 999552011685 Cupin domain; Region: Cupin_2; pfam07883 999552011686 Cupin domain; Region: Cupin_2; cl17218 999552011687 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 999552011688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552011689 Walker A/P-loop; other site 999552011690 ATP binding site [chemical binding]; other site 999552011691 Q-loop/lid; other site 999552011692 ABC transporter signature motif; other site 999552011693 Walker B; other site 999552011694 D-loop; other site 999552011695 H-loop/switch region; other site 999552011696 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 999552011697 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 999552011698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552011699 dimer interface [polypeptide binding]; other site 999552011700 conserved gate region; other site 999552011701 putative PBP binding loops; other site 999552011702 ABC-ATPase subunit interface; other site 999552011703 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 999552011704 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552011705 CheD chemotactic sensory transduction; Region: CheD; pfam03975 999552011706 CheB methylesterase; Region: CheB_methylest; pfam01339 999552011707 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 999552011708 dimerization interface [polypeptide binding]; other site 999552011709 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 999552011710 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552011711 dimer interface [polypeptide binding]; other site 999552011712 putative CheW interface [polypeptide binding]; other site 999552011713 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 999552011714 anti sigma factor interaction site; other site 999552011715 regulatory phosphorylation site [posttranslational modification]; other site 999552011716 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 999552011717 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 999552011718 active site 999552011719 phosphorylation site [posttranslational modification] 999552011720 intermolecular recognition site; other site 999552011721 dimerization interface [polypeptide binding]; other site 999552011722 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 999552011723 putative binding surface; other site 999552011724 active site 999552011725 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 999552011726 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 999552011727 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 999552011728 ATP binding site [chemical binding]; other site 999552011729 Mg2+ binding site [ion binding]; other site 999552011730 G-X-G motif; other site 999552011731 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 999552011732 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 999552011733 putative CheA interaction surface; other site 999552011734 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 999552011735 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 999552011736 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 999552011737 S-adenosylmethionine binding site [chemical binding]; other site 999552011738 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 999552011739 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 999552011740 active site 999552011741 phosphorylation site [posttranslational modification] 999552011742 intermolecular recognition site; other site 999552011743 dimerization interface [polypeptide binding]; other site 999552011744 Caspase domain; Region: Peptidase_C14; pfam00656 999552011745 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 999552011746 Sel1-like repeats; Region: SEL1; smart00671 999552011747 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 999552011748 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 999552011749 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 999552011750 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552011751 ligand binding site [chemical binding]; other site 999552011752 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 999552011753 Catalytic domain of Protein Kinases; Region: PKc; cd00180 999552011754 active site 999552011755 ATP binding site [chemical binding]; other site 999552011756 substrate binding site [chemical binding]; other site 999552011757 activation loop (A-loop); other site 999552011758 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 999552011759 active site 999552011760 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 999552011761 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 999552011762 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 999552011763 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 999552011764 hypothetical protein; Provisional; Region: PRK07033 999552011765 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 999552011766 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 999552011767 ligand binding site [chemical binding]; other site 999552011768 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 999552011769 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 999552011770 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 999552011771 phosphopeptide binding site; other site 999552011772 Uncharacterized conserved protein [Function unknown]; Region: COG4104 999552011773 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 999552011774 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 999552011775 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 999552011776 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 999552011777 Protein of unknown function (DUF770); Region: DUF770; pfam05591 999552011778 Protein of unknown function (DUF770); Region: DUF770; cl01402 999552011779 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 999552011780 Protein of unknown function (DUF877); Region: DUF877; pfam05943 999552011781 Ion transport protein; Region: Ion_trans; pfam00520 999552011782 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 999552011783 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 999552011784 Walker A motif; other site 999552011785 ATP binding site [chemical binding]; other site 999552011786 Walker B motif; other site 999552011787 arginine finger; other site 999552011788 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 999552011789 Walker A motif; other site 999552011790 ATP binding site [chemical binding]; other site 999552011791 Walker B motif; other site 999552011792 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 999552011793 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 999552011794 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 999552011795 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 999552011796 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 999552011797 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 999552011798 ImpE protein; Region: ImpE; pfam07024 999552011799 Protein of unknown function (DUF796); Region: DUF796; pfam05638 999552011800 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 999552011801 Protein of unknown function (DUF877); Region: DUF877; pfam05943 999552011802 Protein of unknown function (DUF770); Region: DUF770; pfam05591 999552011803 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 999552011804 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 999552011805 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 999552011806 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 999552011807 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 999552011808 Putative transposase; Region: Y2_Tnp; pfam04986 999552011809 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 999552011810 mercuric reductase; Region: MerA; TIGR02053 999552011811 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552011812 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552011813 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 999552011814 metal-binding site [ion binding] 999552011815 MerT mercuric transport protein; Region: MerT; cl03578 999552011816 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 999552011817 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 999552011818 DNA binding residues [nucleotide binding] 999552011819 dimer interface [polypeptide binding]; other site 999552011820 putative metal binding site [ion binding]; other site 999552011821 Uncharacterized conserved protein [Function unknown]; Region: COG1742 999552011822 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 999552011823 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 999552011824 Walker A/P-loop; other site 999552011825 ATP binding site [chemical binding]; other site 999552011826 Q-loop/lid; other site 999552011827 ABC transporter signature motif; other site 999552011828 Walker B; other site 999552011829 D-loop; other site 999552011830 H-loop/switch region; other site 999552011831 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 999552011832 ABC-ATPase subunit interface; other site 999552011833 dimer interface [polypeptide binding]; other site 999552011834 putative PBP binding regions; other site 999552011835 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 999552011836 putative PBP binding regions; other site 999552011837 ABC-ATPase subunit interface; other site 999552011838 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 999552011839 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 999552011840 siderophore binding site; other site 999552011841 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 999552011842 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 999552011843 N-terminal plug; other site 999552011844 ligand-binding site [chemical binding]; other site 999552011845 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 999552011846 dimer interface [polypeptide binding]; other site 999552011847 phosphorylation site [posttranslational modification] 999552011848 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 999552011849 ATP binding site [chemical binding]; other site 999552011850 Mg2+ binding site [ion binding]; other site 999552011851 G-X-G motif; other site 999552011852 Response regulator receiver domain; Region: Response_reg; pfam00072 999552011853 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 999552011854 active site 999552011855 phosphorylation site [posttranslational modification] 999552011856 intermolecular recognition site; other site 999552011857 dimerization interface [polypeptide binding]; other site 999552011858 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 999552011859 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552011860 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552011861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011862 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 999552011863 dimerization interface [polypeptide binding]; other site 999552011864 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 999552011865 NMT1-like family; Region: NMT1_2; pfam13379 999552011866 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 999552011867 NMT1-like family; Region: NMT1_2; pfam13379 999552011868 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 999552011869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 999552011870 active site 999552011871 phosphorylation site [posttranslational modification] 999552011872 intermolecular recognition site; other site 999552011873 dimerization interface [polypeptide binding]; other site 999552011874 ANTAR domain; Region: ANTAR; pfam03861 999552011875 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 999552011876 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011877 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552011878 Predicted transcriptional regulator [Transcription]; Region: COG1959 999552011879 Transcriptional regulator; Region: Rrf2; pfam02082 999552011880 Uncharacterized conserved protein [Function unknown]; Region: COG2128 999552011881 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 999552011882 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011883 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 999552011884 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 999552011885 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552011886 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552011887 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 999552011888 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 999552011889 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 999552011890 E3 interaction surface; other site 999552011891 lipoyl attachment site [posttranslational modification]; other site 999552011892 e3 binding domain; Region: E3_binding; pfam02817 999552011893 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 999552011894 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 999552011895 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 999552011896 alpha subunit interface [polypeptide binding]; other site 999552011897 heterodimer interface [polypeptide binding]; other site 999552011898 TPP binding site [chemical binding]; other site 999552011899 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 999552011900 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 999552011901 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 999552011902 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 999552011903 tetramer interface [polypeptide binding]; other site 999552011904 TPP-binding site [chemical binding]; other site 999552011905 heterodimer interface [polypeptide binding]; other site 999552011906 phosphorylation loop region [posttranslational modification] 999552011907 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 999552011908 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 999552011909 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 999552011910 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 999552011911 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 999552011912 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 999552011913 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 999552011914 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 999552011915 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 999552011916 HlyD family secretion protein; Region: HlyD_3; pfam13437 999552011917 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 999552011918 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 999552011919 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 999552011920 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 999552011921 UreD urease accessory protein; Region: UreD; pfam01774 999552011922 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 999552011923 alpha-gamma subunit interface [polypeptide binding]; other site 999552011924 beta-gamma subunit interface [polypeptide binding]; other site 999552011925 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 999552011926 gamma-beta subunit interface [polypeptide binding]; other site 999552011927 alpha-beta subunit interface [polypeptide binding]; other site 999552011928 urease subunit alpha; Reviewed; Region: ureC; PRK13207 999552011929 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 999552011930 subunit interactions [polypeptide binding]; other site 999552011931 active site 999552011932 flap region; other site 999552011933 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 999552011934 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 999552011935 dimer interface [polypeptide binding]; other site 999552011936 catalytic residues [active] 999552011937 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 999552011938 UreF; Region: UreF; pfam01730 999552011939 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 999552011940 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 999552011941 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 999552011942 active site 999552011943 homodimer interface [polypeptide binding]; other site 999552011944 catalytic site [active] 999552011945 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 999552011946 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 999552011947 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 999552011948 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 999552011949 Walker A motif; other site 999552011950 ATP binding site [chemical binding]; other site 999552011951 Walker B motif; other site 999552011952 TrwC relaxase; Region: TrwC; pfam08751 999552011953 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 999552011954 AAA domain; Region: AAA_30; pfam13604 999552011955 Transposase; Region: DEDD_Tnp_IS110; pfam01548 999552011956 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 999552011957 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552011958 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 999552011959 active site 999552011960 catalytic residues [active] 999552011961 DNA binding site [nucleotide binding] 999552011962 Int/Topo IB signature motif; other site 999552011963 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 999552011964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552011965 DNA-binding site [nucleotide binding]; DNA binding site 999552011966 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 999552011967 FCD domain; Region: FCD; pfam07729 999552011968 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 999552011969 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 999552011970 Na binding site [ion binding]; other site 999552011971 substrate binding site [chemical binding]; other site 999552011972 Amidase; Region: Amidase; cl11426 999552011973 indole-3-acetamide amidohydrolase; Region: PLN02722 999552011974 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 999552011975 tetramer interface [polypeptide binding]; other site 999552011976 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 999552011977 active site 999552011978 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 999552011979 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 999552011980 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 999552011981 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552011982 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 999552011983 phosphate binding site [ion binding]; other site 999552011984 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 999552011985 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552011986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552011987 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 999552011988 dimerization interface [polypeptide binding]; other site 999552011989 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 999552011990 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 999552011991 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 999552011992 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 999552011993 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 999552011994 active site 999552011995 catalytic site [active] 999552011996 Zn binding site [ion binding]; other site 999552011997 tetramer interface [polypeptide binding]; other site 999552011998 Amidase; Region: Amidase; cl11426 999552011999 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552012000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552012001 Walker A/P-loop; other site 999552012002 ATP binding site [chemical binding]; other site 999552012003 Q-loop/lid; other site 999552012004 ABC transporter signature motif; other site 999552012005 Walker B; other site 999552012006 D-loop; other site 999552012007 H-loop/switch region; other site 999552012008 TOBE domain; Region: TOBE_2; pfam08402 999552012009 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 999552012010 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 999552012011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012012 ABC-ATPase subunit interface; other site 999552012013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 999552012014 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 999552012015 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552012016 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552012017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012018 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 999552012019 dimerization interface [polypeptide binding]; other site 999552012020 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 999552012021 Response regulator receiver domain; Region: Response_reg; pfam00072 999552012022 active site 999552012023 phosphorylation site [posttranslational modification] 999552012024 intermolecular recognition site; other site 999552012025 dimerization interface [polypeptide binding]; other site 999552012026 HTH DNA binding domain; Region: HTH_13; pfam11972 999552012027 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 999552012028 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 999552012029 Walker A/P-loop; other site 999552012030 ATP binding site [chemical binding]; other site 999552012031 Q-loop/lid; other site 999552012032 ABC transporter signature motif; other site 999552012033 Walker B; other site 999552012034 D-loop; other site 999552012035 H-loop/switch region; other site 999552012036 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 999552012037 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 999552012038 Walker A/P-loop; other site 999552012039 ATP binding site [chemical binding]; other site 999552012040 Q-loop/lid; other site 999552012041 ABC transporter signature motif; other site 999552012042 Walker B; other site 999552012043 D-loop; other site 999552012044 H-loop/switch region; other site 999552012045 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 999552012046 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 999552012047 TM-ABC transporter signature motif; other site 999552012048 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 999552012049 TM-ABC transporter signature motif; other site 999552012050 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 999552012051 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 999552012052 putative ligand binding site [chemical binding]; other site 999552012053 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 999552012054 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 999552012055 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 999552012056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552012057 homodimer interface [polypeptide binding]; other site 999552012058 catalytic residue [active] 999552012059 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 999552012060 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 999552012061 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 999552012062 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 999552012063 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 999552012064 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552012065 NAD binding site [chemical binding]; other site 999552012066 catalytic residues [active] 999552012067 Protein of unknown function (DUF539); Region: DUF539; cl01129 999552012068 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 999552012069 ApbE family; Region: ApbE; pfam02424 999552012070 FOG: CBS domain [General function prediction only]; Region: COG0517 999552012071 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 999552012072 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 999552012073 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552012074 catalytic loop [active] 999552012075 iron binding site [ion binding]; other site 999552012076 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 999552012077 FAD binding pocket [chemical binding]; other site 999552012078 FAD binding motif [chemical binding]; other site 999552012079 phosphate binding motif [ion binding]; other site 999552012080 beta-alpha-beta structure motif; other site 999552012081 NAD binding pocket [chemical binding]; other site 999552012082 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 999552012083 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 999552012084 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 999552012085 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 999552012086 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 999552012087 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 999552012088 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 999552012089 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 999552012090 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 999552012091 metal binding site [ion binding]; metal-binding site 999552012092 substrate binding pocket [chemical binding]; other site 999552012093 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 999552012094 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 999552012095 putative NAD(P) binding site [chemical binding]; other site 999552012096 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552012097 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 999552012098 NAD(P) binding site [chemical binding]; other site 999552012099 catalytic residues [active] 999552012100 catalytic residues [active] 999552012101 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 999552012102 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 999552012103 [2Fe-2S] cluster binding site [ion binding]; other site 999552012104 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 999552012105 alpha subunit interface [polypeptide binding]; other site 999552012106 active site 999552012107 substrate binding site [chemical binding]; other site 999552012108 Fe binding site [ion binding]; other site 999552012109 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552012110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012111 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 999552012112 dimerization interface [polypeptide binding]; other site 999552012113 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 999552012114 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552012115 conserved cys residue [active] 999552012116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552012117 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552012118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552012119 DNA-binding site [nucleotide binding]; DNA binding site 999552012120 FCD domain; Region: FCD; pfam07729 999552012121 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 999552012122 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 999552012123 inhibitor site; inhibition site 999552012124 active site 999552012125 dimer interface [polypeptide binding]; other site 999552012126 catalytic residue [active] 999552012127 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552012128 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 999552012129 NAD(P) binding site [chemical binding]; other site 999552012130 catalytic residues [active] 999552012131 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 999552012132 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552012133 classical (c) SDRs; Region: SDR_c; cd05233 999552012134 NAD(P) binding site [chemical binding]; other site 999552012135 active site 999552012136 classical (c) SDRs; Region: SDR_c; cd05233 999552012137 NAD(P) binding site [chemical binding]; other site 999552012138 active site 999552012139 Mandelate racemase / muconate lactonizing enzyme, C-terminal domain; Region: MR_MLE; smart00922 999552012140 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552012141 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 999552012142 DNA binding residues [nucleotide binding] 999552012143 MerR family regulatory protein; Region: MerR; pfam00376 999552012144 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 999552012145 P-loop; other site 999552012146 Magnesium ion binding site [ion binding]; other site 999552012147 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 999552012148 Magnesium ion binding site [ion binding]; other site 999552012149 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 999552012150 ParB-like nuclease domain; Region: ParB; smart00470 999552012151 replication initiation protein RepC; Provisional; Region: PRK13824 999552012152 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 999552012153 putative DNA binding site [nucleotide binding]; other site 999552012154 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 999552012155 H+ Antiporter protein; Region: 2A0121; TIGR00900 999552012156 imidazolonepropionase; Validated; Region: PRK09356 999552012157 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 999552012158 active site 999552012159 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 999552012160 active sites [active] 999552012161 tetramer interface [polypeptide binding]; other site 999552012162 N-formylglutamate amidohydrolase; Region: FGase; cl01522 999552012163 urocanate hydratase; Provisional; Region: PRK05414 999552012164 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 999552012165 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 999552012166 active site 999552012167 catalytic site [active] 999552012168 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 999552012169 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 999552012170 Walker A/P-loop; other site 999552012171 ATP binding site [chemical binding]; other site 999552012172 Q-loop/lid; other site 999552012173 ABC transporter signature motif; other site 999552012174 Walker B; other site 999552012175 D-loop; other site 999552012176 H-loop/switch region; other site 999552012177 TOBE domain; Region: TOBE_2; pfam08402 999552012178 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 999552012179 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012180 dimer interface [polypeptide binding]; other site 999552012181 conserved gate region; other site 999552012182 putative PBP binding loops; other site 999552012183 ABC-ATPase subunit interface; other site 999552012184 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 999552012185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012186 dimer interface [polypeptide binding]; other site 999552012187 conserved gate region; other site 999552012188 putative PBP binding loops; other site 999552012189 ABC-ATPase subunit interface; other site 999552012190 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 999552012191 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552012192 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012193 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 999552012194 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 999552012195 dimerization interface [polypeptide binding]; other site 999552012196 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552012197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552012198 DNA-binding site [nucleotide binding]; DNA binding site 999552012199 FCD domain; Region: FCD; pfam07729 999552012200 Amino acid synthesis; Region: AA_synth; pfam06684 999552012201 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 999552012202 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 999552012203 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 999552012204 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 999552012205 nudix motif; other site 999552012206 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 999552012207 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 999552012208 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 999552012209 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552012210 NAD(P) binding site [chemical binding]; other site 999552012211 catalytic residues [active] 999552012212 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 999552012213 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 999552012214 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 999552012215 homotrimer interaction site [polypeptide binding]; other site 999552012216 putative active site [active] 999552012217 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 999552012218 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 999552012219 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 999552012220 NAD(P) binding site [chemical binding]; other site 999552012221 catalytic residues [active] 999552012222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552012223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012224 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 999552012225 putative substrate binding pocket [chemical binding]; other site 999552012226 dimerization interface [polypeptide binding]; other site 999552012227 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 999552012228 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 999552012229 FMN binding site [chemical binding]; other site 999552012230 active site 999552012231 homodimer interface [polypeptide binding]; other site 999552012232 putative catalytic residue [active] 999552012233 4Fe-4S cluster binding site [ion binding]; other site 999552012234 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 999552012235 Dodecin; Region: Dodecin; pfam07311 999552012236 acetylornithine deacetylase; Provisional; Region: PRK07522 999552012237 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 999552012238 metal binding site [ion binding]; metal-binding site 999552012239 putative dimer interface [polypeptide binding]; other site 999552012240 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 999552012241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 999552012242 Walker A/P-loop; other site 999552012243 ATP binding site [chemical binding]; other site 999552012244 Q-loop/lid; other site 999552012245 ABC transporter signature motif; other site 999552012246 Walker B; other site 999552012247 D-loop; other site 999552012248 H-loop/switch region; other site 999552012249 TOBE domain; Region: TOBE_2; pfam08402 999552012250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012251 dimer interface [polypeptide binding]; other site 999552012252 conserved gate region; other site 999552012253 putative PBP binding loops; other site 999552012254 ABC-ATPase subunit interface; other site 999552012255 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 999552012256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012257 dimer interface [polypeptide binding]; other site 999552012258 conserved gate region; other site 999552012259 putative PBP binding loops; other site 999552012260 ABC-ATPase subunit interface; other site 999552012261 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 999552012262 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 999552012263 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 999552012264 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 999552012265 putative NAD(P) binding site [chemical binding]; other site 999552012266 active site 999552012267 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 999552012268 conserved cys residue [active] 999552012269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 999552012270 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 999552012271 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 999552012272 acyl-activating enzyme (AAE) consensus motif; other site 999552012273 AMP binding site [chemical binding]; other site 999552012274 active site 999552012275 CoA binding site [chemical binding]; other site 999552012276 Uncharacterized conserved protein [Function unknown]; Region: COG3246 999552012277 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 999552012278 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 999552012279 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 999552012280 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 999552012281 active site 999552012282 BCCT family transporter; Region: BCCT; pfam02028 999552012283 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 999552012284 homotrimer interaction site [polypeptide binding]; other site 999552012285 putative active site [active] 999552012286 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 999552012287 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 999552012288 NAD(P) binding site [chemical binding]; other site 999552012289 catalytic residues [active] 999552012290 acetolactate synthase; Reviewed; Region: PRK08322 999552012291 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552012292 PYR/PP interface [polypeptide binding]; other site 999552012293 dimer interface [polypeptide binding]; other site 999552012294 TPP binding site [chemical binding]; other site 999552012295 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552012296 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 999552012297 TPP-binding site [chemical binding]; other site 999552012298 dimer interface [polypeptide binding]; other site 999552012299 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 999552012300 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 999552012301 active site 999552012302 FMN binding site [chemical binding]; other site 999552012303 substrate binding site [chemical binding]; other site 999552012304 3Fe-4S cluster binding site [ion binding]; other site 999552012305 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 999552012306 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 999552012307 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 999552012308 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 999552012309 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 999552012310 FAD binding pocket [chemical binding]; other site 999552012311 FAD binding motif [chemical binding]; other site 999552012312 phosphate binding motif [ion binding]; other site 999552012313 beta-alpha-beta structure motif; other site 999552012314 NAD binding pocket [chemical binding]; other site 999552012315 Heme binding pocket [chemical binding]; other site 999552012316 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 999552012317 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 999552012318 catalytic loop [active] 999552012319 iron binding site [ion binding]; other site 999552012320 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 999552012321 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 999552012322 putative C-terminal domain interface [polypeptide binding]; other site 999552012323 putative GSH binding site (G-site) [chemical binding]; other site 999552012324 putative dimer interface [polypeptide binding]; other site 999552012325 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 999552012326 putative N-terminal domain interface [polypeptide binding]; other site 999552012327 putative dimer interface [polypeptide binding]; other site 999552012328 putative substrate binding pocket (H-site) [chemical binding]; other site 999552012329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552012330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012331 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 999552012332 putative effector binding pocket; other site 999552012333 dimerization interface [polypeptide binding]; other site 999552012334 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552012335 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 999552012336 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 999552012337 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552012338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012339 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 999552012340 dimerization interface [polypeptide binding]; other site 999552012341 putative addiction module antidote; Region: doc_partner; TIGR02609 999552012342 Fic/DOC family; Region: Fic; cl00960 999552012343 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 999552012344 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552012345 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 999552012346 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 999552012347 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 999552012348 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 999552012349 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 999552012350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 999552012351 catalytic residue [active] 999552012352 hypothetical protein; Provisional; Region: PRK07475 999552012353 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 999552012354 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 999552012355 hydroxyglutarate oxidase; Provisional; Region: PRK11728 999552012356 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552012357 DctM-like transporters; Region: DctM; pfam06808 999552012358 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 999552012359 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 999552012360 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 999552012361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552012362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012363 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 999552012364 dimerization interface [polypeptide binding]; other site 999552012365 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 999552012366 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 999552012367 PYR/PP interface [polypeptide binding]; other site 999552012368 dimer interface [polypeptide binding]; other site 999552012369 TPP binding site [chemical binding]; other site 999552012370 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 999552012371 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 999552012372 TPP-binding site [chemical binding]; other site 999552012373 cystathionine gamma-lyase; Validated; Region: PRK07582 999552012374 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 999552012375 homodimer interface [polypeptide binding]; other site 999552012376 substrate-cofactor binding pocket; other site 999552012377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 999552012378 catalytic residue [active] 999552012379 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 999552012380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012381 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 999552012382 dimerization interface [polypeptide binding]; other site 999552012383 choline dehydrogenase; Validated; Region: PRK02106 999552012384 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 999552012385 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 999552012386 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 999552012387 active site pocket [active] 999552012388 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 999552012389 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 999552012390 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 999552012391 agmatinase; Region: agmatinase; TIGR01230 999552012392 oligomer interface [polypeptide binding]; other site 999552012393 putative active site [active] 999552012394 Mn binding site [ion binding]; other site 999552012395 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 999552012396 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 999552012397 DNA binding residues [nucleotide binding] 999552012398 dimerization interface [polypeptide binding]; other site 999552012399 Hint domain; Region: Hint_2; pfam13403 999552012400 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 999552012401 Ligand Binding Site [chemical binding]; other site 999552012402 DctM-like transporters; Region: DctM; pfam06808 999552012403 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 999552012404 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 999552012405 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 999552012406 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 999552012407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 999552012408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 999552012409 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 999552012410 dimerization interface [polypeptide binding]; other site 999552012411 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 999552012412 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 999552012413 putative DNA binding site [nucleotide binding]; other site 999552012414 putative Zn2+ binding site [ion binding]; other site 999552012415 AsnC family; Region: AsnC_trans_reg; pfam01037 999552012416 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 999552012417 dimerization interface [polypeptide binding]; other site 999552012418 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 999552012419 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 999552012420 dimer interface [polypeptide binding]; other site 999552012421 putative CheW interface [polypeptide binding]; other site 999552012422 Integrase core domain; Region: rve; pfam00665 999552012423 Integrase core domain; Region: rve_2; pfam13333 999552012424 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 999552012425 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552012426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552012427 DNA-binding site [nucleotide binding]; DNA binding site 999552012428 FCD domain; Region: FCD; pfam07729 999552012429 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 999552012430 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 999552012431 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 999552012432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012433 dimer interface [polypeptide binding]; other site 999552012434 conserved gate region; other site 999552012435 putative PBP binding loops; other site 999552012436 ABC-ATPase subunit interface; other site 999552012437 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 999552012438 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 999552012439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 999552012440 dimer interface [polypeptide binding]; other site 999552012441 conserved gate region; other site 999552012442 putative PBP binding loops; other site 999552012443 ABC-ATPase subunit interface; other site 999552012444 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 999552012445 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552012446 Walker A/P-loop; other site 999552012447 ATP binding site [chemical binding]; other site 999552012448 Q-loop/lid; other site 999552012449 ABC transporter signature motif; other site 999552012450 Walker B; other site 999552012451 D-loop; other site 999552012452 H-loop/switch region; other site 999552012453 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 999552012454 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 999552012455 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 999552012456 Walker A/P-loop; other site 999552012457 ATP binding site [chemical binding]; other site 999552012458 Q-loop/lid; other site 999552012459 ABC transporter signature motif; other site 999552012460 Walker B; other site 999552012461 D-loop; other site 999552012462 H-loop/switch region; other site 999552012463 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 999552012464 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 999552012465 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 999552012466 cytosine deaminase; Provisional; Region: PRK05985 999552012467 active site 999552012468 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 999552012469 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 999552012470 active site 999552012471 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 999552012472 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 999552012473 active site 999552012474 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 999552012475 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 999552012476 Na binding site [ion binding]; other site 999552012477 substrate binding site [chemical binding]; other site 999552012478 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 999552012479 Transcriptional regulators [Transcription]; Region: GntR; COG1802 999552012480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 999552012481 DNA-binding site [nucleotide binding]; DNA binding site 999552012482 FCD domain; Region: FCD; pfam07729 999552012483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 999552012484 HTH-like domain; Region: HTH_21; pfam13276 999552012485 Integrase core domain; Region: rve; pfam00665 999552012486 Integrase core domain; Region: rve_3; pfam13683 999552012487 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 999552012488 active site 999552012489 SAM binding site [chemical binding]; other site 999552012490 homodimer interface [polypeptide binding]; other site 999552012491 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 999552012492 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 999552012493 [4Fe-4S] binding site [ion binding]; other site 999552012494 molybdopterin cofactor binding site; other site 999552012495 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 999552012496 molybdopterin cofactor binding site; other site 999552012497 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 999552012498 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 999552012499 [2Fe-2S] cluster binding site [ion binding]; other site 999552012500 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 999552012501 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 999552012502 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 999552012503 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 999552012504 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 999552012505 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 999552012506 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 999552012507 Walker A/P-loop; other site 999552012508 ATP binding site [chemical binding]; other site 999552012509 Q-loop/lid; other site 999552012510 ABC transporter signature motif; other site 999552012511 Walker B; other site 999552012512 D-loop; other site 999552012513 H-loop/switch region; other site 999552012514 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 999552012515 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 999552012516 Walker A/P-loop; other site 999552012517 ATP binding site [chemical binding]; other site 999552012518 Q-loop/lid; other site 999552012519 ABC transporter signature motif; other site 999552012520 Walker B; other site 999552012521 D-loop; other site 999552012522 H-loop/switch region; other site