-- dump date 20140618_194334 -- class Genbank::misc_feature -- table misc_feature_note -- id note 350688000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 350688000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 350688000003 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 350688000004 Walker A motif; other site 350688000005 ATP binding site [chemical binding]; other site 350688000006 Walker B motif; other site 350688000007 arginine finger; other site 350688000008 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 350688000009 DnaA box-binding interface [nucleotide binding]; other site 350688000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 350688000011 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 350688000012 putative DNA binding surface [nucleotide binding]; other site 350688000013 dimer interface [polypeptide binding]; other site 350688000014 beta-clamp/clamp loader binding surface; other site 350688000015 beta-clamp/translesion DNA polymerase binding surface; other site 350688000016 S4 domain; Region: S4_2; pfam13275 350688000017 recombination protein F; Reviewed; Region: recF; PRK00064 350688000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 350688000019 Walker A/P-loop; other site 350688000020 ATP binding site [chemical binding]; other site 350688000021 Q-loop/lid; other site 350688000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688000023 ABC transporter signature motif; other site 350688000024 Walker B; other site 350688000025 D-loop; other site 350688000026 H-loop/switch region; other site 350688000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 350688000028 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 350688000029 Mg2+ binding site [ion binding]; other site 350688000030 G-X-G motif; other site 350688000031 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 350688000032 anchoring element; other site 350688000033 dimer interface [polypeptide binding]; other site 350688000034 ATP binding site [chemical binding]; other site 350688000035 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 350688000036 active site 350688000037 putative metal-binding site [ion binding]; other site 350688000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 350688000039 DNA gyrase subunit A; Validated; Region: PRK05560 350688000040 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 350688000041 CAP-like domain; other site 350688000042 active site 350688000043 primary dimer interface [polypeptide binding]; other site 350688000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350688000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350688000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350688000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350688000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350688000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350688000050 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 350688000051 anti sigma factor interaction site; other site 350688000052 regulatory phosphorylation site [posttranslational modification]; other site 350688000053 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 350688000054 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350688000055 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 350688000056 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688000057 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350688000058 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 350688000059 DNA binding residues [nucleotide binding] 350688000060 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 350688000061 HTH domain; Region: HTH_11; pfam08279 350688000062 3H domain; Region: 3H; pfam02829 350688000063 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 350688000064 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 350688000065 seryl-tRNA synthetase; Provisional; Region: PRK05431 350688000066 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 350688000067 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 350688000068 dimer interface [polypeptide binding]; other site 350688000069 active site 350688000070 motif 1; other site 350688000071 motif 2; other site 350688000072 motif 3; other site 350688000073 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 350688000074 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 350688000075 Active site serine [active] 350688000076 YCII-related domain; Region: YCII; cl00999 350688000077 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 350688000078 nucleoside/Zn binding site; other site 350688000079 dimer interface [polypeptide binding]; other site 350688000080 catalytic motif [active] 350688000081 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 350688000082 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 350688000083 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 350688000084 Uncharacterized conserved protein [Function unknown]; Region: COG3595 350688000085 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 350688000086 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 350688000087 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 350688000088 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350688000089 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 350688000090 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 350688000091 CPxP motif; other site 350688000092 DsrE/DsrF-like family; Region: DrsE; pfam02635 350688000093 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 350688000094 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 350688000095 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 350688000096 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 350688000097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688000098 homodimer interface [polypeptide binding]; other site 350688000099 catalytic residue [active] 350688000100 FOG: CBS domain [General function prediction only]; Region: COG0517 350688000101 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_13; cd04626 350688000102 PAS domain S-box; Region: sensory_box; TIGR00229 350688000103 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 350688000104 putative active site [active] 350688000105 heme pocket [chemical binding]; other site 350688000106 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688000107 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 350688000108 Walker A motif; other site 350688000109 ATP binding site [chemical binding]; other site 350688000110 Walker B motif; other site 350688000111 arginine finger; other site 350688000112 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688000113 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 350688000114 SLBB domain; Region: SLBB; pfam10531 350688000115 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 350688000116 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 350688000117 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 350688000118 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 350688000119 proline racemase; Provisional; Region: PRK13969 350688000120 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 350688000121 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350688000122 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 350688000123 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 350688000124 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 350688000125 dimer interface [polypeptide binding]; other site 350688000126 ssDNA binding site [nucleotide binding]; other site 350688000127 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350688000128 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 350688000129 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350688000130 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 350688000131 Walker A/P-loop; other site 350688000132 ATP binding site [chemical binding]; other site 350688000133 Q-loop/lid; other site 350688000134 ABC transporter signature motif; other site 350688000135 Walker B; other site 350688000136 D-loop; other site 350688000137 H-loop/switch region; other site 350688000138 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688000139 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 350688000140 Walker A/P-loop; other site 350688000141 ATP binding site [chemical binding]; other site 350688000142 Q-loop/lid; other site 350688000143 ABC transporter signature motif; other site 350688000144 Walker B; other site 350688000145 D-loop; other site 350688000146 H-loop/switch region; other site 350688000147 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 350688000148 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 350688000149 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 350688000150 active site 350688000151 phosphorylation site [posttranslational modification] 350688000152 intermolecular recognition site; other site 350688000153 dimerization interface [polypeptide binding]; other site 350688000154 LytTr DNA-binding domain; Region: LytTR; pfam04397 350688000155 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 350688000156 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 350688000157 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 350688000158 shikimate binding site; other site 350688000159 NAD(P) binding site [chemical binding]; other site 350688000160 Bacterial transcriptional regulator; Region: IclR; pfam01614 350688000161 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 350688000162 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 350688000163 5S rRNA interface [nucleotide binding]; other site 350688000164 CTC domain interface [polypeptide binding]; other site 350688000165 L16 interface [polypeptide binding]; other site 350688000166 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 350688000167 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 350688000168 5S rRNA interface [nucleotide binding]; other site 350688000169 CTC domain interface [polypeptide binding]; other site 350688000170 L16 interface [polypeptide binding]; other site 350688000171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000172 Coenzyme A binding pocket [chemical binding]; other site 350688000173 QueT transporter; Region: QueT; pfam06177 350688000174 Propionate catabolism activator; Region: PrpR_N; pfam06506 350688000175 PAS domain; Region: PAS; smart00091 350688000176 PAS domain; Region: PAS_9; pfam13426 350688000177 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 350688000178 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688000179 Walker A motif; other site 350688000180 ATP binding site [chemical binding]; other site 350688000181 Walker B motif; other site 350688000182 arginine finger; other site 350688000183 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 350688000184 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 350688000185 dimer interface [polypeptide binding]; other site 350688000186 PYR/PP interface [polypeptide binding]; other site 350688000187 TPP binding site [chemical binding]; other site 350688000188 substrate binding site [chemical binding]; other site 350688000189 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 350688000190 TPP-binding site; other site 350688000191 4Fe-4S binding domain; Region: Fer4; pfam00037 350688000192 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 350688000193 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 350688000194 Predicted membrane protein [Function unknown]; Region: COG2364 350688000195 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688000196 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688000197 dimer interface [polypeptide binding]; other site 350688000198 putative CheW interface [polypeptide binding]; other site 350688000199 Cache domain; Region: Cache_1; pfam02743 350688000200 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 350688000201 putative homodimer interface [polypeptide binding]; other site 350688000202 putative homotetramer interface [polypeptide binding]; other site 350688000203 allosteric switch controlling residues; other site 350688000204 putative metal binding site [ion binding]; other site 350688000205 putative homodimer-homodimer interface [polypeptide binding]; other site 350688000206 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350688000207 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 350688000208 metal-binding site [ion binding] 350688000209 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350688000210 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 350688000211 metal-binding site [ion binding] 350688000212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350688000213 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 350688000214 motif II; other site 350688000215 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 350688000216 metal-binding site [ion binding] 350688000217 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 350688000218 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 350688000219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688000220 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 350688000221 YceG-like family; Region: YceG; pfam02618 350688000222 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 350688000223 dimerization interface [polypeptide binding]; other site 350688000224 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 350688000225 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350688000226 Orn/Lys/Arg decarboxylase, major domain; Region: OKR_DC_1; pfam01276 350688000227 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 350688000228 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688000229 catalytic residue [active] 350688000230 thymidylate kinase; Validated; Region: tmk; PRK00698 350688000231 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 350688000232 TMP-binding site; other site 350688000233 ATP-binding site [chemical binding]; other site 350688000234 Protein of unknown function (DUF970); Region: DUF970; pfam06153 350688000235 DNA polymerase III subunit delta'; Validated; Region: PRK05564 350688000236 DNA polymerase III subunit delta'; Validated; Region: PRK08485 350688000237 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 350688000238 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 350688000239 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 350688000240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688000241 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 350688000242 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 350688000243 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 350688000244 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350688000245 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 350688000246 lipoyl attachment site [posttranslational modification]; other site 350688000247 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 350688000248 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 350688000249 tetramer interface [polypeptide binding]; other site 350688000250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688000251 catalytic residue [active] 350688000252 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 350688000253 tetramer interface [polypeptide binding]; other site 350688000254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688000255 catalytic residue [active] 350688000256 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 350688000257 putative active site [active] 350688000258 heme pocket [chemical binding]; other site 350688000259 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 350688000260 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688000261 Walker A motif; other site 350688000262 ATP binding site [chemical binding]; other site 350688000263 Walker B motif; other site 350688000264 arginine finger; other site 350688000265 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 350688000266 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 350688000267 dimer interface [polypeptide binding]; other site 350688000268 PYR/PP interface [polypeptide binding]; other site 350688000269 TPP binding site [chemical binding]; other site 350688000270 substrate binding site [chemical binding]; other site 350688000271 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 350688000272 TPP-binding site; other site 350688000273 4Fe-4S binding domain; Region: Fer4; pfam00037 350688000274 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 350688000275 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 350688000276 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350688000277 butyrate kinase; Provisional; Region: PRK03011 350688000278 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 350688000279 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 350688000280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688000281 homodimer interface [polypeptide binding]; other site 350688000282 catalytic residue [active] 350688000283 Uncharacterized conserved protein [Function unknown]; Region: COG2461 350688000284 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 350688000285 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 350688000286 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 350688000287 S-adenosylmethionine binding site [chemical binding]; other site 350688000288 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350688000289 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350688000290 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350688000291 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350688000292 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350688000293 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 350688000294 FAD binding site [chemical binding]; other site 350688000295 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 350688000296 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 350688000297 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 350688000298 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 350688000299 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 350688000300 substrate binding pocket [chemical binding]; other site 350688000301 dimer interface [polypeptide binding]; other site 350688000302 inhibitor binding site; inhibition site 350688000303 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 350688000304 B12 binding site [chemical binding]; other site 350688000305 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 350688000306 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 350688000307 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 350688000308 Predicted transcriptional regulators [Transcription]; Region: COG1695 350688000309 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350688000310 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350688000311 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350688000312 putative acyltransferase; Provisional; Region: PRK05790 350688000313 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 350688000314 dimer interface [polypeptide binding]; other site 350688000315 active site 350688000316 PAS fold; Region: PAS; pfam00989 350688000317 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 350688000318 putative active site [active] 350688000319 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688000320 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 350688000321 Walker A motif; other site 350688000322 ATP binding site [chemical binding]; other site 350688000323 Walker B motif; other site 350688000324 arginine finger; other site 350688000325 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688000326 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 350688000327 Coenzyme A transferase; Region: CoA_trans; smart00882 350688000328 Coenzyme A transferase; Region: CoA_trans; cl17247 350688000329 Citrate transporter; Region: CitMHS; pfam03600 350688000330 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 350688000331 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350688000332 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 350688000333 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 350688000334 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350688000335 NAD(P) binding site [chemical binding]; other site 350688000336 homotetramer interface [polypeptide binding]; other site 350688000337 homodimer interface [polypeptide binding]; other site 350688000338 active site 350688000339 (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 350688000340 dimer interaction site [polypeptide binding]; other site 350688000341 substrate-binding tunnel; other site 350688000342 active site 350688000343 catalytic site [active] 350688000344 substrate binding site [chemical binding]; other site 350688000345 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350688000346 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 350688000347 FAD binding site [chemical binding]; other site 350688000348 homotetramer interface [polypeptide binding]; other site 350688000349 substrate binding pocket [chemical binding]; other site 350688000350 catalytic base [active] 350688000351 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 350688000352 Ligand binding site [chemical binding]; other site 350688000353 Electron transfer flavoprotein domain; Region: ETF; pfam01012 350688000354 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 350688000355 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 350688000356 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 350688000357 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 350688000358 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 350688000359 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688000360 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 350688000361 active site 350688000362 phosphorylation site [posttranslational modification] 350688000363 intermolecular recognition site; other site 350688000364 dimerization interface [polypeptide binding]; other site 350688000365 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 350688000366 DNA binding site [nucleotide binding] 350688000367 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688000368 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 350688000369 dimerization interface [polypeptide binding]; other site 350688000370 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 350688000371 dimer interface [polypeptide binding]; other site 350688000372 phosphorylation site [posttranslational modification] 350688000373 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 350688000374 ATP binding site [chemical binding]; other site 350688000375 Mg2+ binding site [ion binding]; other site 350688000376 G-X-G motif; other site 350688000377 BclB C-terminal domain; Region: exospore_TM; TIGR03721 350688000378 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350688000379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688000380 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688000381 ABC transporter; Region: ABC_tran_2; pfam12848 350688000382 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688000383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000384 Coenzyme A binding pocket [chemical binding]; other site 350688000385 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 350688000386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000387 Coenzyme A binding pocket [chemical binding]; other site 350688000388 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 350688000389 S-adenosylmethionine binding site [chemical binding]; other site 350688000390 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350688000391 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 350688000392 S-adenosylmethionine binding site [chemical binding]; other site 350688000393 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350688000394 Methyltransferase domain; Region: Methyltransf_11; pfam08241 350688000395 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350688000396 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350688000397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000398 Coenzyme A binding pocket [chemical binding]; other site 350688000399 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 350688000400 active site pocket [active] 350688000401 oxyanion hole [active] 350688000402 catalytic triad [active] 350688000403 active site nucleophile [active] 350688000404 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688000405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000406 Coenzyme A binding pocket [chemical binding]; other site 350688000407 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 350688000408 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 350688000409 active site 350688000410 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 350688000411 Predicted acetyltransferase [General function prediction only]; Region: COG3981 350688000412 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688000413 Coenzyme A binding pocket [chemical binding]; other site 350688000414 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688000415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000416 Coenzyme A binding pocket [chemical binding]; other site 350688000417 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350688000418 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350688000419 Coenzyme A binding pocket [chemical binding]; other site 350688000420 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688000421 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 350688000422 active site 350688000423 phosphorylation site [posttranslational modification] 350688000424 intermolecular recognition site; other site 350688000425 dimerization interface [polypeptide binding]; other site 350688000426 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 350688000427 DNA binding site [nucleotide binding] 350688000428 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350688000429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688000430 Walker A/P-loop; other site 350688000431 ATP binding site [chemical binding]; other site 350688000432 Q-loop/lid; other site 350688000433 ABC transporter signature motif; other site 350688000434 Walker B; other site 350688000435 D-loop; other site 350688000436 H-loop/switch region; other site 350688000437 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 350688000438 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688000439 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 350688000440 dimer interface [polypeptide binding]; other site 350688000441 phosphorylation site [posttranslational modification] 350688000442 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 350688000443 ATP binding site [chemical binding]; other site 350688000444 Mg2+ binding site [ion binding]; other site 350688000445 G-X-G motif; other site 350688000446 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 350688000447 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 350688000448 Walker A/P-loop; other site 350688000449 ATP binding site [chemical binding]; other site 350688000450 Q-loop/lid; other site 350688000451 ABC transporter signature motif; other site 350688000452 Walker B; other site 350688000453 D-loop; other site 350688000454 H-loop/switch region; other site 350688000455 NIL domain; Region: NIL; pfam09383 350688000456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688000457 dimer interface [polypeptide binding]; other site 350688000458 conserved gate region; other site 350688000459 ABC-ATPase subunit interface; other site 350688000460 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 350688000461 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 350688000462 putative catalytic cysteine [active] 350688000463 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 350688000464 gamma-glutamyl kinase; Provisional; Region: PRK05429 350688000465 nucleotide binding site [chemical binding]; other site 350688000466 homotetrameric interface [polypeptide binding]; other site 350688000467 putative phosphate binding site [ion binding]; other site 350688000468 putative allosteric binding site; other site 350688000469 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 350688000470 pyrroline-5-carboxylate reductase; Region: PLN02688 350688000471 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 350688000472 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 350688000473 Catalytic site [active] 350688000474 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 350688000475 FeS/SAM binding site; other site 350688000476 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 350688000477 Isochorismatase family; Region: Isochorismatase; pfam00857 350688000478 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 350688000479 catalytic triad [active] 350688000480 dimer interface [polypeptide binding]; other site 350688000481 conserved cis-peptide bond; other site 350688000482 Protein of unknown function (DUF975); Region: DUF975; cl10504 350688000483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688000484 Coenzyme A binding pocket [chemical binding]; other site 350688000485 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 350688000486 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688000487 Walker A motif; other site 350688000488 ATP binding site [chemical binding]; other site 350688000489 Walker B motif; other site 350688000490 arginine finger; other site 350688000491 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 350688000492 Walker A motif; other site 350688000493 ATP binding site [chemical binding]; other site 350688000494 Walker B motif; other site 350688000495 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 350688000496 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350688000497 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350688000498 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 350688000499 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688000500 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350688000501 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 350688000502 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 350688000503 lipoyl-biotinyl attachment site [posttranslational modification]; other site 350688000504 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688000505 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688000506 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688000507 Walker A/P-loop; other site 350688000508 ATP binding site [chemical binding]; other site 350688000509 Q-loop/lid; other site 350688000510 ABC transporter signature motif; other site 350688000511 Walker B; other site 350688000512 D-loop; other site 350688000513 H-loop/switch region; other site 350688000514 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350688000515 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688000516 FtsX-like permease family; Region: FtsX; pfam02687 350688000517 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 350688000518 Alkaline phosphatase homologues; Region: alkPPc; smart00098 350688000519 active site 350688000520 dimer interface [polypeptide binding]; other site 350688000521 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 350688000522 YibE/F-like protein; Region: YibE_F; pfam07907 350688000523 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 350688000524 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 350688000525 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 350688000526 DNA binding site [nucleotide binding] 350688000527 active site 350688000528 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 350688000529 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 350688000530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688000531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688000532 AlkA N-terminal domain; Region: AlkA_N; pfam06029 350688000533 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 350688000534 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350688000535 minor groove reading motif; other site 350688000536 helix-hairpin-helix signature motif; other site 350688000537 substrate binding pocket [chemical binding]; other site 350688000538 active site 350688000539 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 350688000540 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 350688000541 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 350688000542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688000543 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 350688000544 Walker A/P-loop; other site 350688000545 ATP binding site [chemical binding]; other site 350688000546 Q-loop/lid; other site 350688000547 ABC transporter signature motif; other site 350688000548 Walker B; other site 350688000549 D-loop; other site 350688000550 H-loop/switch region; other site 350688000551 Transposase; Region: HTH_Tnp_1; pfam01527 350688000552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688000553 putative transposase OrfB; Reviewed; Region: PHA02517 350688000554 HTH-like domain; Region: HTH_21; pfam13276 350688000555 Integrase core domain; Region: rve; pfam00665 350688000556 Integrase core domain; Region: rve_3; pfam13683 350688000557 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350688000558 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 350688000559 active site 350688000560 metal binding site [ion binding]; metal-binding site 350688000561 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 350688000562 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350688000563 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 350688000564 Helix-turn-helix domain; Region: HTH_16; pfam12645 350688000565 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 350688000566 amidase catalytic site [active] 350688000567 Zn binding residues [ion binding]; other site 350688000568 substrate binding site [chemical binding]; other site 350688000569 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 350688000570 TPR repeat; Region: TPR_11; pfam13414 350688000571 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350688000572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688000573 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 350688000574 DNA binding residues [nucleotide binding] 350688000575 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 350688000576 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 350688000577 substrate binding site [chemical binding]; other site 350688000578 oxyanion hole (OAH) forming residues; other site 350688000579 trimer interface [polypeptide binding]; other site 350688000580 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 350688000581 fructuronate transporter; Provisional; Region: PRK10034; cl15264 350688000582 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 350688000583 Coenzyme A transferase; Region: CoA_trans; smart00882 350688000584 Coenzyme A transferase; Region: CoA_trans; cl17247 350688000585 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350688000586 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 350688000587 FAD binding site [chemical binding]; other site 350688000588 homotetramer interface [polypeptide binding]; other site 350688000589 substrate binding pocket [chemical binding]; other site 350688000590 catalytic base [active] 350688000591 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 350688000592 Ligand binding site [chemical binding]; other site 350688000593 Electron transfer flavoprotein domain; Region: ETF; pfam01012 350688000594 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 350688000595 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 350688000596 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 350688000597 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 350688000598 PAS domain; Region: PAS_9; pfam13426 350688000599 putative active site [active] 350688000600 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688000601 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 350688000602 Walker A motif; other site 350688000603 ATP binding site [chemical binding]; other site 350688000604 Walker B motif; other site 350688000605 arginine finger; other site 350688000606 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688000607 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 350688000608 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 350688000609 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350688000610 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 350688000611 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 350688000612 [2Fe-2S] cluster binding site [ion binding]; other site 350688000613 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 350688000614 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 350688000615 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688000616 active site 350688000617 HIGH motif; other site 350688000618 nucleotide binding site [chemical binding]; other site 350688000619 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 350688000620 KMSKS motif; other site 350688000621 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 350688000622 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688000623 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 350688000624 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 350688000625 L-aspartate oxidase; Provisional; Region: PRK06175 350688000626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688000627 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 350688000628 dimerization interface [polypeptide binding]; other site 350688000629 Histidine kinase; Region: His_kinase; pfam06580 350688000630 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 350688000631 ATP binding site [chemical binding]; other site 350688000632 Mg2+ binding site [ion binding]; other site 350688000633 G-X-G motif; other site 350688000634 Response regulator receiver domain; Region: Response_reg; pfam00072 350688000635 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 350688000636 active site 350688000637 phosphorylation site [posttranslational modification] 350688000638 intermolecular recognition site; other site 350688000639 dimerization interface [polypeptide binding]; other site 350688000640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688000641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688000642 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 350688000643 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 350688000644 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350688000645 Peptidase family M23; Region: Peptidase_M23; pfam01551 350688000646 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 350688000647 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350688000648 substrate binding pocket [chemical binding]; other site 350688000649 membrane-bound complex binding site; other site 350688000650 hinge residues; other site 350688000651 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350688000652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688000653 dimer interface [polypeptide binding]; other site 350688000654 conserved gate region; other site 350688000655 putative PBP binding loops; other site 350688000656 ABC-ATPase subunit interface; other site 350688000657 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350688000658 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350688000659 Walker A/P-loop; other site 350688000660 ATP binding site [chemical binding]; other site 350688000661 Q-loop/lid; other site 350688000662 ABC transporter signature motif; other site 350688000663 Walker B; other site 350688000664 D-loop; other site 350688000665 H-loop/switch region; other site 350688000666 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 350688000667 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688000668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688000669 dimer interface [polypeptide binding]; other site 350688000670 putative CheW interface [polypeptide binding]; other site 350688000671 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688000672 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 350688000673 Walker A motif; other site 350688000674 ATP binding site [chemical binding]; other site 350688000675 Walker B motif; other site 350688000676 arginine finger; other site 350688000677 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 350688000678 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 350688000679 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 350688000680 putative metal binding site [ion binding]; other site 350688000681 putative dimer interface [polypeptide binding]; other site 350688000682 AzlC protein; Region: AzlC; cl00570 350688000683 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 350688000684 Bacterial Ig-like domain; Region: Big_5; pfam13205 350688000685 S-layer homology domain; Region: SLH; pfam00395 350688000686 Bacterial Ig-like domain; Region: Big_5; pfam13205 350688000687 S-layer homology domain; Region: SLH; pfam00395 350688000688 S-layer homology domain; Region: SLH; pfam00395 350688000689 S-layer homology domain; Region: SLH; pfam00395 350688000690 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 350688000691 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 350688000692 ABC-ATPase subunit interface; other site 350688000693 dimer interface [polypeptide binding]; other site 350688000694 putative PBP binding regions; other site 350688000695 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688000696 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688000697 Walker A/P-loop; other site 350688000698 ATP binding site [chemical binding]; other site 350688000699 Q-loop/lid; other site 350688000700 ABC transporter signature motif; other site 350688000701 Walker B; other site 350688000702 D-loop; other site 350688000703 H-loop/switch region; other site 350688000704 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688000705 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 350688000706 intersubunit interface [polypeptide binding]; other site 350688000707 Predicted dehydrogenase [General function prediction only]; Region: COG0579 350688000708 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350688000709 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350688000710 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 350688000711 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 350688000712 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 350688000713 dimerization interface [polypeptide binding]; other site 350688000714 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 350688000715 dimer interface [polypeptide binding]; other site 350688000716 phosphorylation site [posttranslational modification] 350688000717 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 350688000718 ATP binding site [chemical binding]; other site 350688000719 Mg2+ binding site [ion binding]; other site 350688000720 G-X-G motif; other site 350688000721 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 350688000722 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 350688000723 active site 350688000724 phosphorylation site [posttranslational modification] 350688000725 intermolecular recognition site; other site 350688000726 dimerization interface [polypeptide binding]; other site 350688000727 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 350688000728 Walker A motif; other site 350688000729 ATP binding site [chemical binding]; other site 350688000730 Walker B motif; other site 350688000731 arginine finger; other site 350688000732 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688000733 tetrathionate reductase subunit A; Provisional; Region: PRK14991 350688000734 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 350688000735 putative [Fe4-S4] binding site [ion binding]; other site 350688000736 putative molybdopterin cofactor binding site [chemical binding]; other site 350688000737 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 350688000738 molybdopterin cofactor binding site; other site 350688000739 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 350688000740 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 350688000741 4Fe-4S binding domain; Region: Fer4; cl02805 350688000742 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 350688000743 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 350688000744 GTP binding site; other site 350688000745 Ferredoxin [Energy production and conversion]; Region: COG1146 350688000746 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688000747 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350688000748 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 350688000749 dimer interface [polypeptide binding]; other site 350688000750 putative functional site; other site 350688000751 putative MPT binding site; other site 350688000752 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 350688000753 Walker A motif; other site 350688000754 Uncharacterized conserved protein [Function unknown]; Region: COG2014 350688000755 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 350688000756 Domain of unknown function (DUF364); Region: DUF364; pfam04016 350688000757 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688000758 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 350688000759 ABC-ATPase subunit interface; other site 350688000760 dimer interface [polypeptide binding]; other site 350688000761 putative PBP binding regions; other site 350688000762 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688000763 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688000764 Walker A/P-loop; other site 350688000765 ATP binding site [chemical binding]; other site 350688000766 Q-loop/lid; other site 350688000767 ABC transporter signature motif; other site 350688000768 Walker B; other site 350688000769 D-loop; other site 350688000770 H-loop/switch region; other site 350688000771 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688000772 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 350688000773 putative ligand binding residues [chemical binding]; other site 350688000774 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 350688000775 Domain of unknown function (DUF364); Region: DUF364; pfam04016 350688000776 Radical SAM superfamily; Region: Radical_SAM; pfam04055 350688000777 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 350688000778 FeS/SAM binding site; other site 350688000779 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688000780 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 350688000781 intersubunit interface [polypeptide binding]; other site 350688000782 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 350688000783 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350688000784 dimer interface [polypeptide binding]; other site 350688000785 putative functional site; other site 350688000786 putative MPT binding site; other site 350688000787 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688000788 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 350688000789 putative ligand binding residues [chemical binding]; other site 350688000790 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 350688000791 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688000792 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 350688000793 Walker A/P-loop; other site 350688000794 ATP binding site [chemical binding]; other site 350688000795 Q-loop/lid; other site 350688000796 ABC transporter signature motif; other site 350688000797 Walker B; other site 350688000798 D-loop; other site 350688000799 H-loop/switch region; other site 350688000800 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 350688000801 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 350688000802 NPCBM/NEW2 domain; Region: NPCBM; cl07060 350688000803 Arginase family; Region: Arginase; cd09989 350688000804 active site 350688000805 Mn binding site [ion binding]; other site 350688000806 oligomer interface [polypeptide binding]; other site 350688000807 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 350688000808 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 350688000809 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 350688000810 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 350688000811 active site 350688000812 Zn binding site [ion binding]; other site 350688000813 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688000814 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 350688000815 active site 350688000816 phosphorylation site [posttranslational modification] 350688000817 intermolecular recognition site; other site 350688000818 dimerization interface [polypeptide binding]; other site 350688000819 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 350688000820 DNA binding site [nucleotide binding] 350688000821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688000822 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 350688000823 dimerization interface [polypeptide binding]; other site 350688000824 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 350688000825 dimer interface [polypeptide binding]; other site 350688000826 phosphorylation site [posttranslational modification] 350688000827 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 350688000828 ATP binding site [chemical binding]; other site 350688000829 Mg2+ binding site [ion binding]; other site 350688000830 G-X-G motif; other site 350688000831 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 350688000832 dimer interface [polypeptide binding]; other site 350688000833 active site 350688000834 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688000835 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688000836 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 350688000837 Walker A/P-loop; other site 350688000838 ATP binding site [chemical binding]; other site 350688000839 Q-loop/lid; other site 350688000840 ABC transporter signature motif; other site 350688000841 Walker B; other site 350688000842 D-loop; other site 350688000843 H-loop/switch region; other site 350688000844 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350688000845 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 350688000846 non-specific DNA binding site [nucleotide binding]; other site 350688000847 salt bridge; other site 350688000848 sequence-specific DNA binding site [nucleotide binding]; other site 350688000849 Accessory gene regulator B; Region: AgrB; pfam04647 350688000850 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 350688000851 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 350688000852 ATP binding site [chemical binding]; other site 350688000853 Mg2+ binding site [ion binding]; other site 350688000854 G-X-G motif; other site 350688000855 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 350688000856 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 350688000857 dimer interface [polypeptide binding]; other site 350688000858 PYR/PP interface [polypeptide binding]; other site 350688000859 TPP binding site [chemical binding]; other site 350688000860 substrate binding site [chemical binding]; other site 350688000861 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350688000862 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 350688000863 Domain of unknown function; Region: EKR; pfam10371 350688000864 4Fe-4S binding domain; Region: Fer4_6; pfam12837 350688000865 4Fe-4S binding domain; Region: Fer4; pfam00037 350688000866 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 350688000867 TPP-binding site [chemical binding]; other site 350688000868 dimer interface [polypeptide binding]; other site 350688000869 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 350688000870 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 350688000871 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 350688000872 putative active site [active] 350688000873 catalytic site [active] 350688000874 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 350688000875 putative active site [active] 350688000876 catalytic site [active] 350688000877 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 350688000878 non-heme iron binding site [ion binding]; other site 350688000879 tetramer interface [polypeptide binding]; other site 350688000880 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 350688000881 Cache domain; Region: Cache_1; pfam02743 350688000882 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688000883 HAMP domain; Region: HAMP; pfam00672 350688000884 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688000885 dimer interface [polypeptide binding]; other site 350688000886 putative CheW interface [polypeptide binding]; other site 350688000887 hypothetical protein; Provisional; Region: PRK05590 350688000888 dUTPase; Region: dUTPase_2; pfam08761 350688000889 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 350688000890 active site 350688000891 homodimer interface [polypeptide binding]; other site 350688000892 metal binding site [ion binding]; metal-binding site 350688000893 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688000894 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 350688000895 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350688000896 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 350688000897 putative [4Fe-4S] binding site [ion binding]; other site 350688000898 putative molybdopterin cofactor binding site [chemical binding]; other site 350688000899 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 350688000900 molybdopterin cofactor binding site; other site 350688000901 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688000902 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350688000903 active site 350688000904 metal binding site [ion binding]; metal-binding site 350688000905 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 350688000906 dimer interface [polypeptide binding]; other site 350688000907 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 350688000908 dimer interface [polypeptide binding]; other site 350688000909 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 350688000910 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 350688000911 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 350688000912 homodimer interface [polypeptide binding]; other site 350688000913 NADP binding site [chemical binding]; other site 350688000914 substrate binding site [chemical binding]; other site 350688000915 Cache domain; Region: Cache_1; pfam02743 350688000916 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688000917 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 350688000918 dimerization interface [polypeptide binding]; other site 350688000919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688000920 dimer interface [polypeptide binding]; other site 350688000921 putative CheW interface [polypeptide binding]; other site 350688000922 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 350688000923 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; pfam14403 350688000924 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 350688000925 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 350688000926 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 350688000927 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 350688000928 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350688000929 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350688000930 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 350688000931 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350688000932 NAD(P) binding site [chemical binding]; other site 350688000933 homotetramer interface [polypeptide binding]; other site 350688000934 homodimer interface [polypeptide binding]; other site 350688000935 active site 350688000936 putative acyltransferase; Provisional; Region: PRK05790 350688000937 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 350688000938 dimer interface [polypeptide binding]; other site 350688000939 active site 350688000940 EamA-like transporter family; Region: EamA; pfam00892 350688000941 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 350688000942 EamA-like transporter family; Region: EamA; pfam00892 350688000943 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 350688000944 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 350688000945 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 350688000946 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 350688000947 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 350688000948 gating phenylalanine in ion channel; other site 350688000949 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350688000950 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 350688000951 catalytic loop [active] 350688000952 iron binding site [ion binding]; other site 350688000953 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350688000954 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 350688000955 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 350688000956 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350688000957 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350688000958 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350688000959 Cache domain; Region: Cache_1; pfam02743 350688000960 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 350688000961 dimerization interface [polypeptide binding]; other site 350688000962 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688000963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688000964 dimer interface [polypeptide binding]; other site 350688000965 putative CheW interface [polypeptide binding]; other site 350688000966 PBP superfamily domain; Region: PBP_like_2; cl17296 350688000967 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 350688000968 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 350688000969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688000970 dimer interface [polypeptide binding]; other site 350688000971 conserved gate region; other site 350688000972 putative PBP binding loops; other site 350688000973 ABC-ATPase subunit interface; other site 350688000974 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 350688000975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688000976 dimer interface [polypeptide binding]; other site 350688000977 conserved gate region; other site 350688000978 putative PBP binding loops; other site 350688000979 ABC-ATPase subunit interface; other site 350688000980 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 350688000981 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 350688000982 Walker A/P-loop; other site 350688000983 ATP binding site [chemical binding]; other site 350688000984 Q-loop/lid; other site 350688000985 ABC transporter signature motif; other site 350688000986 Walker B; other site 350688000987 D-loop; other site 350688000988 H-loop/switch region; other site 350688000989 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 350688000990 PhoU domain; Region: PhoU; pfam01895 350688000991 PhoU domain; Region: PhoU; pfam01895 350688000992 Uncharacterized conserved protein [Function unknown]; Region: COG5663 350688000993 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 350688000994 non-specific DNA binding site [nucleotide binding]; other site 350688000995 salt bridge; other site 350688000996 sequence-specific DNA binding site [nucleotide binding]; other site 350688000997 FMN-binding domain; Region: FMN_bind; cl01081 350688000998 FMN-binding domain; Region: FMN_bind; pfam04205 350688000999 FMN-binding domain; Region: FMN_bind; cl01081 350688001000 FMN-binding domain; Region: FMN_bind; cl01081 350688001001 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 350688001002 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 350688001003 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 350688001004 putative dimer interface [polypeptide binding]; other site 350688001005 [2Fe-2S] cluster binding site [ion binding]; other site 350688001006 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 350688001007 dimer interface [polypeptide binding]; other site 350688001008 [2Fe-2S] cluster binding site [ion binding]; other site 350688001009 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350688001010 SLBB domain; Region: SLBB; pfam10531 350688001011 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 350688001012 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 350688001013 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688001014 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 350688001015 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 350688001016 catalytic loop [active] 350688001017 iron binding site [ion binding]; other site 350688001018 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350688001019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688001020 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 350688001021 4Fe-4S binding domain; Region: Fer4; pfam00037 350688001022 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688001023 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 350688001024 molybdopterin cofactor binding site; other site 350688001025 multifunctional aminopeptidase A; Provisional; Region: PRK00913 350688001026 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 350688001027 interface (dimer of trimers) [polypeptide binding]; other site 350688001028 Substrate-binding/catalytic site; other site 350688001029 Zn-binding sites [ion binding]; other site 350688001030 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 350688001031 Stage II sporulation protein; Region: SpoIID; pfam08486 350688001032 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 350688001033 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350688001034 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 350688001035 active site 350688001036 metal binding site [ion binding]; metal-binding site 350688001037 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 350688001038 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 350688001039 GIY-YIG motif/motif A; other site 350688001040 putative active site [active] 350688001041 putative metal binding site [ion binding]; other site 350688001042 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 350688001043 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 350688001044 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 350688001045 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 350688001046 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688001047 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 350688001048 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 350688001049 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 350688001050 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350688001051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688001052 DNA-binding site [nucleotide binding]; DNA binding site 350688001053 FCD domain; Region: FCD; pfam07729 350688001054 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 350688001055 active site 350688001056 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 350688001057 Spore germination protein; Region: Spore_permease; cl17796 350688001058 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 350688001059 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 350688001060 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 350688001061 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 350688001062 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 350688001063 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 350688001064 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 350688001065 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 350688001066 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350688001067 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 350688001068 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350688001069 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 350688001070 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 350688001071 dimer interface [polypeptide binding]; other site 350688001072 decamer (pentamer of dimers) interface [polypeptide binding]; other site 350688001073 catalytic triad [active] 350688001074 peroxidatic and resolving cysteines [active] 350688001075 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 350688001076 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 350688001077 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 350688001078 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350688001079 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688001080 peptidase T; Region: peptidase-T; TIGR01882 350688001081 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 350688001082 metal binding site [ion binding]; metal-binding site 350688001083 dimer interface [polypeptide binding]; other site 350688001084 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688001085 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 350688001086 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 350688001087 putative hydrolase; Validated; Region: PRK09248 350688001088 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 350688001089 active site 350688001090 NMT1-like family; Region: NMT1_2; pfam13379 350688001091 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 350688001092 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350688001093 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688001094 dimer interface [polypeptide binding]; other site 350688001095 conserved gate region; other site 350688001096 putative PBP binding loops; other site 350688001097 ABC-ATPase subunit interface; other site 350688001098 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350688001099 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350688001100 Walker A/P-loop; other site 350688001101 ATP binding site [chemical binding]; other site 350688001102 Q-loop/lid; other site 350688001103 ABC transporter signature motif; other site 350688001104 Walker B; other site 350688001105 D-loop; other site 350688001106 H-loop/switch region; other site 350688001107 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 350688001108 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688001109 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 350688001110 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 350688001111 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350688001112 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 350688001113 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 350688001114 intersubunit interface [polypeptide binding]; other site 350688001115 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688001116 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 350688001117 ABC-ATPase subunit interface; other site 350688001118 dimer interface [polypeptide binding]; other site 350688001119 putative PBP binding regions; other site 350688001120 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688001121 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688001122 Walker A/P-loop; other site 350688001123 ATP binding site [chemical binding]; other site 350688001124 Q-loop/lid; other site 350688001125 ABC transporter signature motif; other site 350688001126 Walker B; other site 350688001127 D-loop; other site 350688001128 H-loop/switch region; other site 350688001129 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 350688001130 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 350688001131 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 350688001132 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 350688001133 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 350688001134 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 350688001135 Spore germination protein; Region: Spore_permease; cl17796 350688001136 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 350688001137 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688001138 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 350688001139 intersubunit interface [polypeptide binding]; other site 350688001140 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688001141 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 350688001142 ABC-ATPase subunit interface; other site 350688001143 dimer interface [polypeptide binding]; other site 350688001144 putative PBP binding regions; other site 350688001145 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688001146 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688001147 Walker A/P-loop; other site 350688001148 ATP binding site [chemical binding]; other site 350688001149 Q-loop/lid; other site 350688001150 ABC transporter signature motif; other site 350688001151 Walker B; other site 350688001152 D-loop; other site 350688001153 H-loop/switch region; other site 350688001154 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350688001155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688001156 Walker A/P-loop; other site 350688001157 ATP binding site [chemical binding]; other site 350688001158 Q-loop/lid; other site 350688001159 ABC transporter signature motif; other site 350688001160 Walker B; other site 350688001161 D-loop; other site 350688001162 H-loop/switch region; other site 350688001163 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350688001164 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350688001165 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 350688001166 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 350688001167 active site 350688001168 C-terminal domain interface [polypeptide binding]; other site 350688001169 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 350688001170 active site 350688001171 N-terminal domain interface [polypeptide binding]; other site 350688001172 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688001173 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 350688001174 active site 350688001175 phosphorylation site [posttranslational modification] 350688001176 intermolecular recognition site; other site 350688001177 dimerization interface [polypeptide binding]; other site 350688001178 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 350688001179 DNA binding site [nucleotide binding] 350688001180 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 350688001181 dimer interface [polypeptide binding]; other site 350688001182 phosphorylation site [posttranslational modification] 350688001183 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 350688001184 ATP binding site [chemical binding]; other site 350688001185 Mg2+ binding site [ion binding]; other site 350688001186 G-X-G motif; other site 350688001187 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 350688001188 active site 350688001189 dimer interfaces [polypeptide binding]; other site 350688001190 catalytic residues [active] 350688001191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 350688001192 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688001193 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 350688001194 EcsC protein family; Region: EcsC; pfam12787 350688001195 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350688001196 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 350688001197 dimer interface [polypeptide binding]; other site 350688001198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688001199 catalytic residue [active] 350688001200 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 350688001201 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 350688001202 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 350688001203 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 350688001204 Repair protein; Region: Repair_PSII; pfam04536 350688001205 endonuclease IV; Provisional; Region: PRK01060 350688001206 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 350688001207 AP (apurinic/apyrimidinic) site pocket; other site 350688001208 DNA interaction; other site 350688001209 Metal-binding active site; metal-binding site 350688001210 histidinol-phosphatase; Provisional; Region: PRK07328 350688001211 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 350688001212 active site 350688001213 dimer interface [polypeptide binding]; other site 350688001214 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 350688001215 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 350688001216 active site 350688001217 substrate binding site [chemical binding]; other site 350688001218 ATP binding site [chemical binding]; other site 350688001219 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688001220 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350688001221 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 350688001222 catalytic triad [active] 350688001223 conserved cis-peptide bond; other site 350688001224 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350688001225 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 350688001226 motif II; other site 350688001227 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 350688001228 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 350688001229 Coenzyme A binding pocket [chemical binding]; other site 350688001230 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 350688001231 putative dimer interface [polypeptide binding]; other site 350688001232 catalytic triad [active] 350688001233 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350688001234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688001235 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 350688001236 DNA binding residues [nucleotide binding] 350688001237 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 350688001238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688001239 Coenzyme A binding pocket [chemical binding]; other site 350688001240 EamA-like transporter family; Region: EamA; pfam00892 350688001241 Cache domain; Region: Cache_1; pfam02743 350688001242 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688001243 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 350688001244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688001245 dimer interface [polypeptide binding]; other site 350688001246 putative CheW interface [polypeptide binding]; other site 350688001247 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688001248 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 350688001249 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 350688001250 GIY-YIG motif/motif A; other site 350688001251 active site 350688001252 catalytic site [active] 350688001253 putative DNA binding site [nucleotide binding]; other site 350688001254 metal binding site [ion binding]; metal-binding site 350688001255 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350688001256 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_family; cd02803 350688001257 active site 350688001258 FMN binding site [chemical binding]; other site 350688001259 substrate binding site [chemical binding]; other site 350688001260 putative catalytic residue [active] 350688001261 Putative cyclase; Region: Cyclase; pfam04199 350688001262 glutamate formiminotransferase; Region: FtcD; TIGR02024 350688001263 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 350688001264 Formiminotransferase domain; Region: FTCD; pfam02971 350688001265 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 350688001266 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 350688001267 active site 350688001268 Isochorismatase family; Region: Isochorismatase; pfam00857 350688001269 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 350688001270 catalytic triad [active] 350688001271 conserved cis-peptide bond; other site 350688001272 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 350688001273 Flavoprotein; Region: Flavoprotein; pfam02441 350688001274 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 350688001275 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688001276 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350688001277 Hexamer interface [polypeptide binding]; other site 350688001278 Hexagonal pore residue; other site 350688001279 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688001280 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350688001281 Hexamer interface [polypeptide binding]; other site 350688001282 Hexagonal pore residue; other site 350688001283 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688001284 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 350688001285 Hexamer interface [polypeptide binding]; other site 350688001286 Putative hexagonal pore residue; other site 350688001287 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 350688001288 Hexamer/Pentamer interface [polypeptide binding]; other site 350688001289 central pore; other site 350688001290 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 350688001291 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 350688001292 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 350688001293 active site 350688001294 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 350688001295 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 350688001296 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 350688001297 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 350688001298 active site 350688001299 putative substrate binding pocket [chemical binding]; other site 350688001300 FAD binding domain; Region: FAD_binding_4; pfam01565 350688001301 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 350688001302 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 350688001303 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350688001304 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350688001305 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350688001306 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350688001307 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350688001308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350688001309 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 350688001310 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 350688001311 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 350688001312 active site 350688001313 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 350688001314 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 350688001315 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 350688001316 Ligand binding site; other site 350688001317 metal-binding site 350688001318 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 350688001319 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 350688001320 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 350688001321 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688001322 catalytic residue [active] 350688001323 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 350688001324 spermidine synthase; Provisional; Region: PRK00811 350688001325 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 350688001326 S-adenosylmethionine binding site [chemical binding]; other site 350688001327 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688001328 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688001329 dimer interface [polypeptide binding]; other site 350688001330 putative CheW interface [polypeptide binding]; other site 350688001331 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 350688001332 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 350688001333 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 350688001334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688001335 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 350688001336 active site 350688001337 phosphorylation site [posttranslational modification] 350688001338 intermolecular recognition site; other site 350688001339 dimerization interface [polypeptide binding]; other site 350688001340 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 350688001341 DNA binding site [nucleotide binding] 350688001342 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 350688001343 dimer interface [polypeptide binding]; other site 350688001344 phosphorylation site [posttranslational modification] 350688001345 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 350688001346 ATP binding site [chemical binding]; other site 350688001347 Mg2+ binding site [ion binding]; other site 350688001348 G-X-G motif; other site 350688001349 FMN-binding domain; Region: FMN_bind; pfam04205 350688001350 L-aspartate oxidase; Provisional; Region: PRK06175 350688001351 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 350688001352 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350688001353 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350688001354 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 350688001355 active site 350688001356 FMN binding site [chemical binding]; other site 350688001357 substrate binding site [chemical binding]; other site 350688001358 homotetramer interface [polypeptide binding]; other site 350688001359 catalytic residue [active] 350688001360 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350688001361 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 350688001362 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 350688001363 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 350688001364 carboxyltransferase (CT) interaction site; other site 350688001365 biotinylation site [posttranslational modification]; other site 350688001366 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 350688001367 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350688001368 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 350688001369 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350688001370 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350688001371 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 350688001372 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 350688001373 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350688001374 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 350688001375 active site residue [active] 350688001376 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 350688001377 active site residue [active] 350688001378 Haemolysin-III related; Region: HlyIII; cl03831 350688001379 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 350688001380 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 350688001381 EamA-like transporter family; Region: EamA; pfam00892 350688001382 EamA-like transporter family; Region: EamA; pfam00892 350688001383 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 350688001384 dimer interface [polypeptide binding]; other site 350688001385 catalytic triad [active] 350688001386 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 350688001387 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 350688001388 metal binding site [ion binding]; metal-binding site 350688001389 dimer interface [polypeptide binding]; other site 350688001390 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 350688001391 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 350688001392 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350688001393 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 350688001394 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688001395 catalytic residue [active] 350688001396 Hemerythrin; Region: Hemerythrin; cd12107 350688001397 Fe binding site [ion binding]; other site 350688001398 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 350688001399 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 350688001400 homodimer interface [polypeptide binding]; other site 350688001401 substrate-cofactor binding pocket; other site 350688001402 catalytic residue [active] 350688001403 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688001404 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 350688001405 Glyco_18 domain; Region: Glyco_18; smart00636 350688001406 active site 350688001407 FOG: CBS domain [General function prediction only]; Region: COG0517 350688001408 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 350688001409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688001410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688001411 metal binding site [ion binding]; metal-binding site 350688001412 active site 350688001413 I-site; other site 350688001414 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 350688001415 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 350688001416 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 350688001417 Predicted flavoprotein [General function prediction only]; Region: COG0431 350688001418 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350688001419 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350688001420 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688001421 putative active site [active] 350688001422 putative metal binding site [ion binding]; other site 350688001423 PAS fold; Region: PAS; pfam00989 350688001424 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 350688001425 putative active site [active] 350688001426 heme pocket [chemical binding]; other site 350688001427 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688001428 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 350688001429 Walker A motif; other site 350688001430 ATP binding site [chemical binding]; other site 350688001431 Walker B motif; other site 350688001432 arginine finger; other site 350688001433 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688001434 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 350688001435 NAD(P) binding site [chemical binding]; other site 350688001436 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 350688001437 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 350688001438 FeS/SAM binding site; other site 350688001439 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 350688001440 MutS domain III; Region: MutS_III; pfam05192 350688001441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688001442 Walker A/P-loop; other site 350688001443 ATP binding site [chemical binding]; other site 350688001444 Q-loop/lid; other site 350688001445 ABC transporter signature motif; other site 350688001446 Walker B; other site 350688001447 D-loop; other site 350688001448 H-loop/switch region; other site 350688001449 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 350688001450 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 350688001451 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 350688001452 B12 binding site [chemical binding]; other site 350688001453 cobalt ligand [ion binding]; other site 350688001454 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 350688001455 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 350688001456 active site 350688001457 phosphorylation site [posttranslational modification] 350688001458 intermolecular recognition site; other site 350688001459 dimerization interface [polypeptide binding]; other site 350688001460 LytTr DNA-binding domain; Region: LytTR; smart00850 350688001461 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 350688001462 ATP binding site [chemical binding]; other site 350688001463 Mg2+ binding site [ion binding]; other site 350688001464 G-X-G motif; other site 350688001465 Accessory gene regulator B; Region: AgrB; pfam04647 350688001466 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 350688001467 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 350688001468 metal ion-dependent adhesion site (MIDAS); other site 350688001469 Protein kinase domain; Region: Pkinase; pfam00069 350688001470 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350688001471 active site 350688001472 ATP binding site [chemical binding]; other site 350688001473 substrate binding site [chemical binding]; other site 350688001474 activation loop (A-loop); other site 350688001475 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 350688001476 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 350688001477 Ligand Binding Site [chemical binding]; other site 350688001478 TilS substrate binding domain; Region: TilS; pfam09179 350688001479 TilS substrate C-terminal domain; Region: TilS_C; smart00977 350688001480 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 350688001481 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 350688001482 Walker A motif; other site 350688001483 ATP binding site [chemical binding]; other site 350688001484 Walker B motif; other site 350688001485 arginine finger; other site 350688001486 Peptidase family M41; Region: Peptidase_M41; pfam01434 350688001487 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 350688001488 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 350688001489 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 350688001490 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 350688001491 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 350688001492 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 350688001493 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 350688001494 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 350688001495 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 350688001496 B12 binding site [chemical binding]; other site 350688001497 cobalt ligand [ion binding]; other site 350688001498 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 350688001499 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 350688001500 Walker A; other site 350688001501 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350688001502 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 350688001503 dimer interface [polypeptide binding]; other site 350688001504 substrate binding site [chemical binding]; other site 350688001505 metal binding site [ion binding]; metal-binding site 350688001506 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 350688001507 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350688001508 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 350688001509 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350688001510 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 350688001511 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 350688001512 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 350688001513 carboxyltransferase (CT) interaction site; other site 350688001514 biotinylation site [posttranslational modification]; other site 350688001515 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 350688001516 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 350688001517 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 350688001518 putative DNA binding site [nucleotide binding]; other site 350688001519 putative Zn2+ binding site [ion binding]; other site 350688001520 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 350688001521 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 350688001522 Predicted membrane protein [Function unknown]; Region: COG4684 350688001523 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350688001524 nucleotide binding site [chemical binding]; other site 350688001525 Type III pantothenate kinase; Region: Pan_kinase; cl17198 350688001526 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 350688001527 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 350688001528 FMN binding site [chemical binding]; other site 350688001529 active site 350688001530 catalytic residues [active] 350688001531 substrate binding site [chemical binding]; other site 350688001532 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 350688001533 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 350688001534 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 350688001535 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 350688001536 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 350688001537 dimer interface [polypeptide binding]; other site 350688001538 putative anticodon binding site; other site 350688001539 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 350688001540 motif 1; other site 350688001541 active site 350688001542 motif 2; other site 350688001543 motif 3; other site 350688001544 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350688001545 ATP cone domain; Region: ATP-cone; pfam03477 350688001546 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 350688001547 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 350688001548 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 350688001549 elongation factor G; Reviewed; Region: PRK12740 350688001550 G1 box; other site 350688001551 putative GEF interaction site [polypeptide binding]; other site 350688001552 GTP/Mg2+ binding site [chemical binding]; other site 350688001553 Switch I region; other site 350688001554 G2 box; other site 350688001555 G3 box; other site 350688001556 Switch II region; other site 350688001557 G4 box; other site 350688001558 G5 box; other site 350688001559 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 350688001560 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 350688001561 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 350688001562 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 350688001563 UvrB/uvrC motif; Region: UVR; pfam02151 350688001564 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 350688001565 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 350688001566 ADP binding site [chemical binding]; other site 350688001567 phosphagen binding site; other site 350688001568 substrate specificity loop; other site 350688001569 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 350688001570 Clp amino terminal domain; Region: Clp_N; pfam02861 350688001571 Clp amino terminal domain; Region: Clp_N; pfam02861 350688001572 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 350688001573 Walker A motif; other site 350688001574 ATP binding site [chemical binding]; other site 350688001575 Walker B motif; other site 350688001576 arginine finger; other site 350688001577 UvrB/uvrC motif; Region: UVR; pfam02151 350688001578 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 350688001579 Walker A motif; other site 350688001580 ATP binding site [chemical binding]; other site 350688001581 Walker B motif; other site 350688001582 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 350688001583 DNA repair protein RadA; Provisional; Region: PRK11823 350688001584 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 350688001585 Walker A motif/ATP binding site; other site 350688001586 ATP binding site [chemical binding]; other site 350688001587 Walker B motif; other site 350688001588 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 350688001589 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 350688001590 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 350688001591 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 350688001592 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 350688001593 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 350688001594 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 350688001595 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 350688001596 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 350688001597 putative active site [active] 350688001598 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 350688001599 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 350688001600 4Fe-4S binding domain; Region: Fer4; pfam00037 350688001601 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 350688001602 substrate binding site; other site 350688001603 dimer interface; other site 350688001604 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 350688001605 homotrimer interaction site [polypeptide binding]; other site 350688001606 zinc binding site [ion binding]; other site 350688001607 CDP-binding sites; other site 350688001608 prolyl-tRNA synthetase; Provisional; Region: PRK08661 350688001609 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 350688001610 dimer interface [polypeptide binding]; other site 350688001611 motif 1; other site 350688001612 active site 350688001613 motif 2; other site 350688001614 motif 3; other site 350688001615 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 350688001616 anticodon binding site; other site 350688001617 zinc-binding site [ion binding]; other site 350688001618 Predicted secreted protein [Function unknown]; Region: COG4086 350688001619 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 350688001620 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 350688001621 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 350688001622 active site 350688001623 HIGH motif; other site 350688001624 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 350688001625 active site 350688001626 KMSKS motif; other site 350688001627 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 350688001628 serine O-acetyltransferase; Region: cysE; TIGR01172 350688001629 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 350688001630 trimer interface [polypeptide binding]; other site 350688001631 active site 350688001632 substrate binding site [chemical binding]; other site 350688001633 CoA binding site [chemical binding]; other site 350688001634 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 350688001635 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350688001636 active site 350688001637 HIGH motif; other site 350688001638 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350688001639 KMSKS motif; other site 350688001640 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 350688001641 tRNA binding surface [nucleotide binding]; other site 350688001642 anticodon binding site; other site 350688001643 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 350688001644 active site 350688001645 metal binding site [ion binding]; metal-binding site 350688001646 dimerization interface [polypeptide binding]; other site 350688001647 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 350688001648 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 350688001649 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 350688001650 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350688001651 YacP-like NYN domain; Region: NYN_YacP; pfam05991 350688001652 RNA polymerase factor sigma-70; Validated; Region: PRK08295 350688001653 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688001654 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350688001655 elongation factor Tu; Reviewed; Region: PRK00049 350688001656 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 350688001657 G1 box; other site 350688001658 GEF interaction site [polypeptide binding]; other site 350688001659 GTP/Mg2+ binding site [chemical binding]; other site 350688001660 Switch I region; other site 350688001661 G2 box; other site 350688001662 G3 box; other site 350688001663 Switch II region; other site 350688001664 G4 box; other site 350688001665 G5 box; other site 350688001666 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 350688001667 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 350688001668 Antibiotic Binding Site [chemical binding]; other site 350688001669 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 350688001670 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 350688001671 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 350688001672 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 350688001673 putative homodimer interface [polypeptide binding]; other site 350688001674 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 350688001675 heterodimer interface [polypeptide binding]; other site 350688001676 homodimer interface [polypeptide binding]; other site 350688001677 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 350688001678 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 350688001679 23S rRNA interface [nucleotide binding]; other site 350688001680 L7/L12 interface [polypeptide binding]; other site 350688001681 putative thiostrepton binding site; other site 350688001682 L25 interface [polypeptide binding]; other site 350688001683 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 350688001684 mRNA/rRNA interface [nucleotide binding]; other site 350688001685 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 350688001686 23S rRNA interface [nucleotide binding]; other site 350688001687 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 350688001688 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 350688001689 core dimer interface [polypeptide binding]; other site 350688001690 peripheral dimer interface [polypeptide binding]; other site 350688001691 L10 interface [polypeptide binding]; other site 350688001692 L11 interface [polypeptide binding]; other site 350688001693 putative EF-Tu interaction site [polypeptide binding]; other site 350688001694 putative EF-G interaction site [polypeptide binding]; other site 350688001695 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 350688001696 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 350688001697 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 350688001698 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 350688001699 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 350688001700 RPB1 interaction site [polypeptide binding]; other site 350688001701 RPB12 interaction site [polypeptide binding]; other site 350688001702 RPB10 interaction site [polypeptide binding]; other site 350688001703 RPB11 interaction site [polypeptide binding]; other site 350688001704 RPB3 interaction site [polypeptide binding]; other site 350688001705 RPB12 interaction site [polypeptide binding]; other site 350688001706 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 350688001707 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 350688001708 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 350688001709 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 350688001710 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 350688001711 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 350688001712 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 350688001713 G-loop; other site 350688001714 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 350688001715 DNA binding site [nucleotide binding] 350688001716 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 350688001717 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 350688001718 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 350688001719 S17 interaction site [polypeptide binding]; other site 350688001720 S8 interaction site; other site 350688001721 16S rRNA interaction site [nucleotide binding]; other site 350688001722 streptomycin interaction site [chemical binding]; other site 350688001723 23S rRNA interaction site [nucleotide binding]; other site 350688001724 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 350688001725 30S ribosomal protein S7; Validated; Region: PRK05302 350688001726 elongation factor G; Reviewed; Region: PRK00007 350688001727 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 350688001728 G1 box; other site 350688001729 putative GEF interaction site [polypeptide binding]; other site 350688001730 GTP/Mg2+ binding site [chemical binding]; other site 350688001731 Switch I region; other site 350688001732 G2 box; other site 350688001733 G3 box; other site 350688001734 Switch II region; other site 350688001735 G4 box; other site 350688001736 G5 box; other site 350688001737 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 350688001738 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 350688001739 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 350688001740 elongation factor Tu; Reviewed; Region: PRK00049 350688001741 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 350688001742 G1 box; other site 350688001743 GEF interaction site [polypeptide binding]; other site 350688001744 GTP/Mg2+ binding site [chemical binding]; other site 350688001745 Switch I region; other site 350688001746 G2 box; other site 350688001747 G3 box; other site 350688001748 Switch II region; other site 350688001749 G4 box; other site 350688001750 G5 box; other site 350688001751 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 350688001752 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 350688001753 Antibiotic Binding Site [chemical binding]; other site 350688001754 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 350688001755 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 350688001756 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 350688001757 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 350688001758 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 350688001759 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 350688001760 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 350688001761 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 350688001762 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 350688001763 putative translocon binding site; other site 350688001764 protein-rRNA interface [nucleotide binding]; other site 350688001765 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 350688001766 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 350688001767 G-X-X-G motif; other site 350688001768 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 350688001769 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 350688001770 23S rRNA interface [nucleotide binding]; other site 350688001771 5S rRNA interface [nucleotide binding]; other site 350688001772 putative antibiotic binding site [chemical binding]; other site 350688001773 L25 interface [polypeptide binding]; other site 350688001774 L27 interface [polypeptide binding]; other site 350688001775 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 350688001776 23S rRNA interface [nucleotide binding]; other site 350688001777 putative translocon interaction site; other site 350688001778 signal recognition particle (SRP54) interaction site; other site 350688001779 L23 interface [polypeptide binding]; other site 350688001780 trigger factor interaction site; other site 350688001781 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 350688001782 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 350688001783 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 350688001784 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 350688001785 RNA binding site [nucleotide binding]; other site 350688001786 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 350688001787 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 350688001788 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 350688001789 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 350688001790 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 350688001791 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 350688001792 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 350688001793 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 350688001794 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 350688001795 5S rRNA interface [nucleotide binding]; other site 350688001796 L27 interface [polypeptide binding]; other site 350688001797 23S rRNA interface [nucleotide binding]; other site 350688001798 L5 interface [polypeptide binding]; other site 350688001799 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 350688001800 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 350688001801 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 350688001802 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 350688001803 23S rRNA binding site [nucleotide binding]; other site 350688001804 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 350688001805 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 350688001806 SecY translocase; Region: SecY; pfam00344 350688001807 adenylate kinase; Reviewed; Region: adk; PRK00279 350688001808 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 350688001809 AMP-binding site [chemical binding]; other site 350688001810 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 350688001811 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 350688001812 active site 350688001813 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 350688001814 RNA binding site [nucleotide binding]; other site 350688001815 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 350688001816 rRNA binding site [nucleotide binding]; other site 350688001817 predicted 30S ribosome binding site; other site 350688001818 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 350688001819 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 350688001820 30S ribosomal protein S13; Region: bact_S13; TIGR03631 350688001821 30S ribosomal protein S11; Validated; Region: PRK05309 350688001822 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 350688001823 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 350688001824 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 350688001825 RNA binding surface [nucleotide binding]; other site 350688001826 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 350688001827 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 350688001828 alphaNTD homodimer interface [polypeptide binding]; other site 350688001829 alphaNTD - beta interaction site [polypeptide binding]; other site 350688001830 alphaNTD - beta' interaction site [polypeptide binding]; other site 350688001831 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 350688001832 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 350688001833 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 350688001834 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350688001835 Walker A/P-loop; other site 350688001836 ATP binding site [chemical binding]; other site 350688001837 Q-loop/lid; other site 350688001838 ABC transporter signature motif; other site 350688001839 Walker B; other site 350688001840 D-loop; other site 350688001841 H-loop/switch region; other site 350688001842 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 350688001843 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350688001844 Walker A/P-loop; other site 350688001845 ATP binding site [chemical binding]; other site 350688001846 Q-loop/lid; other site 350688001847 ABC transporter signature motif; other site 350688001848 Walker B; other site 350688001849 D-loop; other site 350688001850 H-loop/switch region; other site 350688001851 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 350688001852 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 350688001853 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 350688001854 dimerization interface 3.5A [polypeptide binding]; other site 350688001855 active site 350688001856 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 350688001857 23S rRNA interface [nucleotide binding]; other site 350688001858 L3 interface [polypeptide binding]; other site 350688001859 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 350688001860 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350688001861 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 350688001862 active site 350688001863 metal binding site [ion binding]; metal-binding site 350688001864 Membrane protein of unknown function; Region: DUF360; pfam04020 350688001865 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 350688001866 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 350688001867 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 350688001868 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 350688001869 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 350688001870 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 350688001871 active site 350688001872 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 350688001873 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 350688001874 ATP Binding subdomain [chemical binding]; other site 350688001875 Ligand Binding sites [chemical binding]; other site 350688001876 Dimerization subdomain; other site 350688001877 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 350688001878 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 350688001879 ATP-grasp domain; Region: ATP-grasp; pfam02222 350688001880 AIR carboxylase; Region: AIRC; pfam00731 350688001881 amidophosphoribosyltransferase; Provisional; Region: PRK05793 350688001882 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 350688001883 active site 350688001884 tetramer interface [polypeptide binding]; other site 350688001885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688001886 active site 350688001887 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 350688001888 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 350688001889 dimerization interface [polypeptide binding]; other site 350688001890 putative ATP binding site [chemical binding]; other site 350688001891 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 350688001892 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 350688001893 active site 350688001894 substrate binding site [chemical binding]; other site 350688001895 cosubstrate binding site; other site 350688001896 catalytic site [active] 350688001897 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 350688001898 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 350688001899 purine monophosphate binding site [chemical binding]; other site 350688001900 dimer interface [polypeptide binding]; other site 350688001901 putative catalytic residues [active] 350688001902 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 350688001903 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 350688001904 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 350688001905 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 350688001906 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 350688001907 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 350688001908 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688001909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688001910 dimer interface [polypeptide binding]; other site 350688001911 putative CheW interface [polypeptide binding]; other site 350688001912 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 350688001913 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 350688001914 aspartate kinase I; Reviewed; Region: PRK08210 350688001915 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 350688001916 nucleotide binding site [chemical binding]; other site 350688001917 substrate binding site [chemical binding]; other site 350688001918 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 350688001919 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 350688001920 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 350688001921 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 350688001922 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 350688001923 aspartate racemase; Region: asp_race; TIGR00035 350688001924 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 350688001925 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 350688001926 Part of AAA domain; Region: AAA_19; pfam13245 350688001927 Family description; Region: UvrD_C_2; pfam13538 350688001928 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 350688001929 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 350688001930 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 350688001931 nucleotide binding pocket [chemical binding]; other site 350688001932 K-X-D-G motif; other site 350688001933 catalytic site [active] 350688001934 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 350688001935 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 350688001936 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 350688001937 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 350688001938 Dimer interface [polypeptide binding]; other site 350688001939 BRCT sequence motif; other site 350688001940 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 350688001941 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 350688001942 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 350688001943 dimerization interface [polypeptide binding]; other site 350688001944 putative ATP binding site [chemical binding]; other site 350688001945 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688001946 AMIN domain; Region: AMIN; pfam11741 350688001947 AMIN domain; Region: AMIN; pfam11741 350688001948 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350688001949 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 350688001950 active site 350688001951 metal binding site [ion binding]; metal-binding site 350688001952 hypothetical protein; Provisional; Region: PRK04164 350688001953 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 350688001954 Sporulation and spore germination; Region: Germane; pfam10646 350688001955 Sporulation and spore germination; Region: Germane; pfam10646 350688001956 ribonuclease PH; Reviewed; Region: rph; PRK00173 350688001957 Ribonuclease PH; Region: RNase_PH_bact; cd11362 350688001958 hexamer interface [polypeptide binding]; other site 350688001959 active site 350688001960 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 350688001961 active site 350688001962 dimerization interface [polypeptide binding]; other site 350688001963 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 350688001964 active site 350688001965 metal binding site [ion binding]; metal-binding site 350688001966 homotetramer interface [polypeptide binding]; other site 350688001967 Predicted membrane protein [Function unknown]; Region: COG2261 350688001968 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 350688001969 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 350688001970 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 350688001971 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 350688001972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 350688001973 WYL domain; Region: WYL; cl14852 350688001974 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 350688001975 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 350688001976 metal binding site [ion binding]; metal-binding site 350688001977 dimer interface [polypeptide binding]; other site 350688001978 HDOD domain; Region: HDOD; pfam08668 350688001979 HD domain; Region: HD; pfam01966 350688001980 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 350688001981 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 350688001982 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 350688001983 FeS/SAM binding site; other site 350688001984 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 350688001985 molybdenum cofactor biosynthesis protein MoaC/MOSC-domain-containing protein; Provisional; Region: PRK14499 350688001986 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 350688001987 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350688001988 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 350688001989 FAD binding domain; Region: FAD_binding_4; pfam01565 350688001990 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 350688001991 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 350688001992 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 350688001993 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 350688001994 phosphate binding site [ion binding]; other site 350688001995 putative substrate binding pocket [chemical binding]; other site 350688001996 dimer interface [polypeptide binding]; other site 350688001997 uracil transporter; Provisional; Region: PRK10720 350688001998 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 350688001999 active site 350688002000 Ap6A binding site [chemical binding]; other site 350688002001 nudix motif; other site 350688002002 metal binding site [ion binding]; metal-binding site 350688002003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 350688002004 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 350688002005 urocanate hydratase; Provisional; Region: PRK05414 350688002006 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 350688002007 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 350688002008 Formiminotransferase domain; Region: FTCD; pfam02971 350688002009 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350688002010 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350688002011 metal binding site [ion binding]; metal-binding site 350688002012 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 350688002013 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 350688002014 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 350688002015 FeS/SAM binding site; other site 350688002016 TRAM domain; Region: TRAM; cl01282 350688002017 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 350688002018 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 350688002019 active site 350688002020 PHP Thumb interface [polypeptide binding]; other site 350688002021 metal binding site [ion binding]; metal-binding site 350688002022 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 350688002023 generic binding surface II; other site 350688002024 generic binding surface I; other site 350688002025 6-phosphofructokinase; Provisional; Region: PRK03202 350688002026 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 350688002027 active site 350688002028 ADP/pyrophosphate binding site [chemical binding]; other site 350688002029 dimerization interface [polypeptide binding]; other site 350688002030 allosteric effector site; other site 350688002031 fructose-1,6-bisphosphate binding site; other site 350688002032 pyruvate kinase; Provisional; Region: PRK06354 350688002033 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 350688002034 domain interfaces; other site 350688002035 active site 350688002036 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 350688002037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688002038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688002039 FMN-binding domain; Region: FMN_bind; cl01081 350688002040 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 350688002041 Predicted oxidoreductase [General function prediction only]; Region: COG3573 350688002042 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350688002043 Sporulation and spore germination; Region: Germane; pfam10646 350688002044 Sporulation and spore germination; Region: Germane; smart00909 350688002045 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 350688002046 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 350688002047 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 350688002048 S-adenosylmethionine binding site [chemical binding]; other site 350688002049 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688002050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688002051 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 350688002052 HD domain; Region: HD_4; pfam13328 350688002053 Transposase; Region: HTH_Tnp_1; pfam01527 350688002054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688002055 putative transposase OrfB; Reviewed; Region: PHA02517 350688002056 HTH-like domain; Region: HTH_21; pfam13276 350688002057 Integrase core domain; Region: rve; pfam00665 350688002058 Integrase core domain; Region: rve_3; pfam13683 350688002059 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688002060 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688002061 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 350688002062 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350688002063 iron-sulfur cluster [ion binding]; other site 350688002064 [2Fe-2S] cluster binding site [ion binding]; other site 350688002065 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350688002066 hydrophobic ligand binding site; other site 350688002067 AAA domain; Region: AAA_18; pfam13238 350688002068 Helix-turn-helix domain; Region: HTH_17; pfam12728 350688002069 PBP superfamily domain; Region: PBP_like; pfam12727 350688002070 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 350688002071 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350688002072 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350688002073 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 350688002074 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 350688002075 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 350688002076 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 350688002077 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 350688002078 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 350688002079 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 350688002080 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 350688002081 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 350688002082 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 350688002083 GAF domain; Region: GAF_2; pfam13185 350688002084 GAF domain; Region: GAF; cl17456 350688002085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688002086 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 350688002087 dimer interface [polypeptide binding]; other site 350688002088 phosphorylation site [posttranslational modification] 350688002089 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 350688002090 ATP binding site [chemical binding]; other site 350688002091 Mg2+ binding site [ion binding]; other site 350688002092 G-X-G motif; other site 350688002093 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688002094 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 350688002095 active site 350688002096 phosphorylation site [posttranslational modification] 350688002097 intermolecular recognition site; other site 350688002098 dimerization interface [polypeptide binding]; other site 350688002099 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 350688002100 DNA binding site [nucleotide binding] 350688002101 HEAT repeats; Region: HEAT_2; pfam13646 350688002102 HEAT repeats; Region: HEAT_2; pfam13646 350688002103 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 350688002104 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350688002105 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 350688002106 DXD motif; other site 350688002107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002108 AAA domain; Region: AAA_21; pfam13304 350688002109 Walker A/P-loop; other site 350688002110 ATP binding site [chemical binding]; other site 350688002111 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 350688002112 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688002113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688002114 metal binding site [ion binding]; metal-binding site 350688002115 active site 350688002116 I-site; other site 350688002117 Rubrerythrin [Energy production and conversion]; Region: COG1592 350688002118 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 350688002119 binuclear metal center [ion binding]; other site 350688002120 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 350688002121 iron binding site [ion binding]; other site 350688002122 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350688002123 metal binding site 2 [ion binding]; metal-binding site 350688002124 putative DNA binding helix; other site 350688002125 metal binding site 1 [ion binding]; metal-binding site 350688002126 dimer interface [polypeptide binding]; other site 350688002127 structural Zn2+ binding site [ion binding]; other site 350688002128 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 350688002129 dimer interface [polypeptide binding]; other site 350688002130 putative tRNA-binding site [nucleotide binding]; other site 350688002131 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 350688002132 dimer interface [polypeptide binding]; other site 350688002133 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 350688002134 active site 350688002135 metal binding site [ion binding]; metal-binding site 350688002136 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 350688002137 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 350688002138 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 350688002139 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 350688002140 CoA-ligase; Region: Ligase_CoA; pfam00549 350688002141 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 350688002142 CoA binding domain; Region: CoA_binding; pfam02629 350688002143 CoA-ligase; Region: Ligase_CoA; pfam00549 350688002144 PAS domain S-box; Region: sensory_box; TIGR00229 350688002145 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 350688002146 putative active site [active] 350688002147 heme pocket [chemical binding]; other site 350688002148 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688002149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688002150 metal binding site [ion binding]; metal-binding site 350688002151 active site 350688002152 I-site; other site 350688002153 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 350688002154 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 350688002155 NAD(P) binding site [chemical binding]; other site 350688002156 catalytic residues [active] 350688002157 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 350688002158 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 350688002159 nucleophile elbow; other site 350688002160 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 350688002161 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 350688002162 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 350688002163 Walker A/P-loop; other site 350688002164 ATP binding site [chemical binding]; other site 350688002165 Q-loop/lid; other site 350688002166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002167 ATP binding site [chemical binding]; other site 350688002168 Q-loop/lid; other site 350688002169 ABC transporter signature motif; other site 350688002170 Walker B; other site 350688002171 D-loop; other site 350688002172 H-loop/switch region; other site 350688002173 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 350688002174 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 350688002175 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688002176 TM-ABC transporter signature motif; other site 350688002177 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 350688002178 TM-ABC transporter signature motif; other site 350688002179 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 350688002180 ArsC family; Region: ArsC; pfam03960 350688002181 putative ArsC-like catalytic residues; other site 350688002182 putative TRX-like catalytic residues [active] 350688002183 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 350688002184 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 350688002185 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 350688002186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350688002187 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 350688002188 FAD binding site [chemical binding]; other site 350688002189 homotetramer interface [polypeptide binding]; other site 350688002190 substrate binding pocket [chemical binding]; other site 350688002191 catalytic base [active] 350688002192 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 350688002193 Ligand binding site [chemical binding]; other site 350688002194 Electron transfer flavoprotein domain; Region: ETF; pfam01012 350688002195 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 350688002196 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 350688002197 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 350688002198 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 350688002199 putative metal binding site; other site 350688002200 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 350688002201 binding surface 350688002202 TPR motif; other site 350688002203 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 350688002204 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 350688002205 FeS/SAM binding site; other site 350688002206 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 350688002207 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 350688002208 ligand binding site [chemical binding]; other site 350688002209 active site 350688002210 UGI interface [polypeptide binding]; other site 350688002211 catalytic site [active] 350688002212 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350688002213 Cation efflux family; Region: Cation_efflux; cl00316 350688002214 Nitroreductase family; Region: Nitroreductase; pfam00881 350688002215 FMN binding site [chemical binding]; other site 350688002216 dimer interface [polypeptide binding]; other site 350688002217 Predicted transcriptional regulators [Transcription]; Region: COG1725 350688002218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688002219 DNA-binding site [nucleotide binding]; DNA binding site 350688002220 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350688002221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688002222 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 350688002223 DNA binding residues [nucleotide binding] 350688002224 Putative amidase domain; Region: Amidase_6; pfam12671 350688002225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688002226 DNA-binding site [nucleotide binding]; DNA binding site 350688002227 putative kinase; Provisional; Region: PRK09954 350688002228 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 350688002229 putative DNA binding site [nucleotide binding]; other site 350688002230 putative Zn2+ binding site [ion binding]; other site 350688002231 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 350688002232 substrate binding site [chemical binding]; other site 350688002233 ATP binding site [chemical binding]; other site 350688002234 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 350688002235 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 350688002236 catalytic residues [active] 350688002237 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 350688002238 zinc transporter ZupT; Provisional; Region: PRK04201 350688002239 ZIP Zinc transporter; Region: Zip; pfam02535 350688002240 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 350688002241 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 350688002242 oligoendopeptidase F; Region: pepF; TIGR00181 350688002243 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 350688002244 active site 350688002245 Zn binding site [ion binding]; other site 350688002246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 350688002247 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 350688002248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002249 Walker A/P-loop; other site 350688002250 ATP binding site [chemical binding]; other site 350688002251 Q-loop/lid; other site 350688002252 ABC transporter signature motif; other site 350688002253 Walker B; other site 350688002254 D-loop; other site 350688002255 H-loop/switch region; other site 350688002256 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 350688002257 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 350688002258 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 350688002259 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 350688002260 motif II; other site 350688002261 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 350688002262 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 350688002263 D-serine dehydratase; Provisional; Region: PRK02991 350688002264 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 350688002265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688002266 catalytic residue [active] 350688002267 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 350688002268 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350688002269 DNA binding residues [nucleotide binding] 350688002270 dimer interface [polypeptide binding]; other site 350688002271 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 350688002272 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 350688002273 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 350688002274 active site 350688002275 phosphorylation site [posttranslational modification] 350688002276 intermolecular recognition site; other site 350688002277 dimerization interface [polypeptide binding]; other site 350688002278 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 350688002279 DNA binding site [nucleotide binding] 350688002280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688002281 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 350688002282 dimerization interface [polypeptide binding]; other site 350688002283 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 350688002284 dimer interface [polypeptide binding]; other site 350688002285 phosphorylation site [posttranslational modification] 350688002286 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 350688002287 ATP binding site [chemical binding]; other site 350688002288 Mg2+ binding site [ion binding]; other site 350688002289 G-X-G motif; other site 350688002290 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 350688002291 hybrid cluster protein; Provisional; Region: PRK05290 350688002292 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 350688002293 ACS interaction site; other site 350688002294 CODH interaction site; other site 350688002295 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 350688002296 ACS interaction site; other site 350688002297 CODH interaction site; other site 350688002298 metal cluster binding site [ion binding]; other site 350688002299 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 350688002300 Domain of unknown function DUF21; Region: DUF21; pfam01595 350688002301 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 350688002302 Transporter associated domain; Region: CorC_HlyC; smart01091 350688002303 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 350688002304 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688002305 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688002306 ABC transporter; Region: ABC_tran_2; pfam12848 350688002307 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688002308 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 350688002309 TrkA-N domain; Region: TrkA_N; pfam02254 350688002310 TrkA-C domain; Region: TrkA_C; pfam02080 350688002311 TrkA-N domain; Region: TrkA_N; pfam02254 350688002312 TrkA-C domain; Region: TrkA_C; pfam02080 350688002313 Cation transport protein; Region: TrkH; cl17365 350688002314 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 350688002315 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 350688002316 dimer interface [polypeptide binding]; other site 350688002317 catalytic triad [active] 350688002318 peroxidatic and resolving cysteines [active] 350688002319 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 350688002320 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 350688002321 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 350688002322 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 350688002323 DctM-like transporters; Region: DctM; pfam06808 350688002324 Predicted membrane protein [Function unknown]; Region: COG2364 350688002325 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 350688002326 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 350688002327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688002328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688002329 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688002330 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688002331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002332 Walker A/P-loop; other site 350688002333 ATP binding site [chemical binding]; other site 350688002334 Q-loop/lid; other site 350688002335 ABC transporter signature motif; other site 350688002336 Walker B; other site 350688002337 D-loop; other site 350688002338 H-loop/switch region; other site 350688002339 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688002340 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688002341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002342 Walker A/P-loop; other site 350688002343 ATP binding site [chemical binding]; other site 350688002344 Q-loop/lid; other site 350688002345 ABC transporter signature motif; other site 350688002346 Walker B; other site 350688002347 D-loop; other site 350688002348 H-loop/switch region; other site 350688002349 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 350688002350 putative active site [active] 350688002351 heme pocket [chemical binding]; other site 350688002352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688002353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688002354 metal binding site [ion binding]; metal-binding site 350688002355 active site 350688002356 I-site; other site 350688002357 Uncharacterized conserved protein [Function unknown]; Region: COG1633 350688002358 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 350688002359 diiron binding motif [ion binding]; other site 350688002360 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 350688002361 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 350688002362 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 350688002363 S-adenosylmethionine binding site [chemical binding]; other site 350688002364 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 350688002365 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 350688002366 active site 350688002367 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 350688002368 Part of AAA domain; Region: AAA_19; pfam13245 350688002369 Family description; Region: UvrD_C_2; pfam13538 350688002370 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 350688002371 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 350688002372 dimer interface [polypeptide binding]; other site 350688002373 active site 350688002374 metal binding site [ion binding]; metal-binding site 350688002375 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350688002376 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688002377 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 350688002378 DNA binding residues [nucleotide binding] 350688002379 Putative zinc-finger; Region: zf-HC2; pfam13490 350688002380 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 350688002381 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 350688002382 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 350688002383 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 350688002384 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 350688002385 putative metal binding site [ion binding]; other site 350688002386 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 350688002387 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 350688002388 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 350688002389 putative metal binding site [ion binding]; other site 350688002390 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 350688002391 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 350688002392 putative metal binding site [ion binding]; other site 350688002393 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 350688002394 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 350688002395 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 350688002396 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 350688002397 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350688002398 Walker A/P-loop; other site 350688002399 ATP binding site [chemical binding]; other site 350688002400 Q-loop/lid; other site 350688002401 ABC transporter signature motif; other site 350688002402 Walker B; other site 350688002403 D-loop; other site 350688002404 H-loop/switch region; other site 350688002405 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 350688002406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688002407 DNA-binding site [nucleotide binding]; DNA binding site 350688002408 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350688002409 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350688002410 Walker A/P-loop; other site 350688002411 ATP binding site [chemical binding]; other site 350688002412 Q-loop/lid; other site 350688002413 ABC transporter signature motif; other site 350688002414 Walker B; other site 350688002415 D-loop; other site 350688002416 H-loop/switch region; other site 350688002417 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 350688002418 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 350688002419 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 350688002420 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 350688002421 G1 box; other site 350688002422 putative GEF interaction site [polypeptide binding]; other site 350688002423 GTP/Mg2+ binding site [chemical binding]; other site 350688002424 Switch I region; other site 350688002425 G2 box; other site 350688002426 G3 box; other site 350688002427 Switch II region; other site 350688002428 G4 box; other site 350688002429 G5 box; other site 350688002430 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 350688002431 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 350688002432 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 350688002433 putative ligand binding site [chemical binding]; other site 350688002434 NAD binding site [chemical binding]; other site 350688002435 catalytic site [active] 350688002436 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 350688002437 Ligand Binding Site [chemical binding]; other site 350688002438 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 350688002439 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 350688002440 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 350688002441 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 350688002442 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350688002443 synthetase active site [active] 350688002444 NTP binding site [chemical binding]; other site 350688002445 metal binding site [ion binding]; metal-binding site 350688002446 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 350688002447 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688002448 putative active site [active] 350688002449 putative metal binding site [ion binding]; other site 350688002450 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 350688002451 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 350688002452 intersubunit interface [polypeptide binding]; other site 350688002453 active site 350688002454 zinc binding site [ion binding]; other site 350688002455 Na+ binding site [ion binding]; other site 350688002456 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 350688002457 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 350688002458 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 350688002459 pseudouridine synthase; Region: TIGR00093 350688002460 active site 350688002461 uracil binding [chemical binding]; other site 350688002462 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 350688002463 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350688002464 substrate binding pocket [chemical binding]; other site 350688002465 membrane-bound complex binding site; other site 350688002466 hinge residues; other site 350688002467 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350688002468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688002469 dimer interface [polypeptide binding]; other site 350688002470 conserved gate region; other site 350688002471 putative PBP binding loops; other site 350688002472 ABC-ATPase subunit interface; other site 350688002473 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350688002474 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350688002475 Walker A/P-loop; other site 350688002476 ATP binding site [chemical binding]; other site 350688002477 Q-loop/lid; other site 350688002478 ABC transporter signature motif; other site 350688002479 Walker B; other site 350688002480 D-loop; other site 350688002481 H-loop/switch region; other site 350688002482 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 350688002483 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 350688002484 S-adenosylmethionine binding site [chemical binding]; other site 350688002485 Response regulator receiver domain; Region: Response_reg; pfam00072 350688002486 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 350688002487 active site 350688002488 phosphorylation site [posttranslational modification] 350688002489 intermolecular recognition site; other site 350688002490 dimerization interface [polypeptide binding]; other site 350688002491 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 350688002492 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688002493 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 350688002494 dimer interface [polypeptide binding]; other site 350688002495 phosphorylation site [posttranslational modification] 350688002496 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 350688002497 ATP binding site [chemical binding]; other site 350688002498 G-X-G motif; other site 350688002499 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688002500 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688002501 Walker A/P-loop; other site 350688002502 ATP binding site [chemical binding]; other site 350688002503 Q-loop/lid; other site 350688002504 ABC transporter signature motif; other site 350688002505 Walker B; other site 350688002506 D-loop; other site 350688002507 H-loop/switch region; other site 350688002508 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 350688002509 FtsX-like permease family; Region: FtsX; pfam02687 350688002510 Uncharacterized conserved protein [Function unknown]; Region: COG1262 350688002511 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 350688002512 transposase/IS protein; Provisional; Region: PRK09183 350688002513 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 350688002514 Walker A motif; other site 350688002515 ATP binding site [chemical binding]; other site 350688002516 Walker B motif; other site 350688002517 arginine finger; other site 350688002518 putative transposase OrfB; Reviewed; Region: PHA02517 350688002519 HTH-like domain; Region: HTH_21; pfam13276 350688002520 Integrase core domain; Region: rve; pfam00665 350688002521 Integrase core domain; Region: rve_3; pfam13683 350688002522 Transposase; Region: HTH_Tnp_1; pfam01527 350688002523 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688002524 spore photoproduct lyase; Region: photo_TT_lyase; TIGR04070 350688002525 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 350688002526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350688002527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350688002528 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 350688002529 dimerization interface [polypeptide binding]; other site 350688002530 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 350688002531 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 350688002532 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 350688002533 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688002534 Nitroreductase family; Region: Nitroreductase; pfam00881 350688002535 FMN binding site [chemical binding]; other site 350688002536 dimer interface [polypeptide binding]; other site 350688002537 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350688002538 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 350688002539 substrate binding pocket [chemical binding]; other site 350688002540 membrane-bound complex binding site; other site 350688002541 hinge residues; other site 350688002542 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 350688002543 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 350688002544 dimer interface [polypeptide binding]; other site 350688002545 phosphorylation site [posttranslational modification] 350688002546 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 350688002547 ATP binding site [chemical binding]; other site 350688002548 Mg2+ binding site [ion binding]; other site 350688002549 G-X-G motif; other site 350688002550 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 350688002551 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 350688002552 active site 350688002553 phosphorylation site [posttranslational modification] 350688002554 intermolecular recognition site; other site 350688002555 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 350688002556 Walker A motif; other site 350688002557 ATP binding site [chemical binding]; other site 350688002558 Walker B motif; other site 350688002559 arginine finger; other site 350688002560 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 350688002561 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 350688002562 amino acid carrier protein; Region: agcS; TIGR00835 350688002563 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 350688002564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002565 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688002566 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688002567 H+ Antiporter protein; Region: 2A0121; TIGR00900 350688002568 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 350688002569 putative substrate translocation pore; other site 350688002570 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688002571 FtsX-like permease family; Region: FtsX; pfam02687 350688002572 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688002573 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688002574 Walker A/P-loop; other site 350688002575 ATP binding site [chemical binding]; other site 350688002576 Q-loop/lid; other site 350688002577 ABC transporter signature motif; other site 350688002578 Walker B; other site 350688002579 D-loop; other site 350688002580 H-loop/switch region; other site 350688002581 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 350688002582 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350688002583 DNA binding residues [nucleotide binding] 350688002584 dimer interface [polypeptide binding]; other site 350688002585 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 350688002586 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350688002587 RibD C-terminal domain; Region: RibD_C; cl17279 350688002588 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350688002589 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 350688002590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688002591 myosin-cross-reactive antigen; Provisional; Region: PRK13977 350688002592 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 350688002593 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 350688002594 metal ion-dependent adhesion site (MIDAS); other site 350688002595 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 350688002596 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 350688002597 trimer interface [polypeptide binding]; other site 350688002598 active site 350688002599 substrate binding site [chemical binding]; other site 350688002600 CoA binding site [chemical binding]; other site 350688002601 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 350688002602 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 350688002603 ThiC family; Region: ThiC; pfam01964 350688002604 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 350688002605 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 350688002606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688002607 DNA-binding site [nucleotide binding]; DNA binding site 350688002608 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 350688002609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688002610 homodimer interface [polypeptide binding]; other site 350688002611 catalytic residue [active] 350688002612 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350688002613 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 350688002614 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 350688002615 active site 350688002616 AAA domain; Region: AAA_33; pfam13671 350688002617 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 350688002618 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 350688002619 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 350688002620 Domain of unknown function (DUF378); Region: DUF378; pfam04070 350688002621 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 350688002622 salt bridge; other site 350688002623 non-specific DNA binding site [nucleotide binding]; other site 350688002624 sequence-specific DNA binding site [nucleotide binding]; other site 350688002625 CAAX protease self-immunity; Region: Abi; pfam02517 350688002626 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350688002627 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 350688002628 DNA binding residues [nucleotide binding] 350688002629 dimer interface [polypeptide binding]; other site 350688002630 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350688002631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688002632 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 350688002633 DNA binding residues [nucleotide binding] 350688002634 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 350688002635 Predicted membrane protein [Function unknown]; Region: COG3212 350688002636 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 350688002637 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 350688002638 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350688002639 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 350688002640 putative Zn2+ binding site [ion binding]; other site 350688002641 putative DNA binding site [nucleotide binding]; other site 350688002642 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 350688002643 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688002644 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 350688002645 active site 350688002646 phosphorylation site [posttranslational modification] 350688002647 intermolecular recognition site; other site 350688002648 dimerization interface [polypeptide binding]; other site 350688002649 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 350688002650 DNA binding site [nucleotide binding] 350688002651 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688002652 HAMP domain; Region: HAMP; pfam00672 350688002653 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 350688002654 dimer interface [polypeptide binding]; other site 350688002655 phosphorylation site [posttranslational modification] 350688002656 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 350688002657 ATP binding site [chemical binding]; other site 350688002658 Mg2+ binding site [ion binding]; other site 350688002659 G-X-G motif; other site 350688002660 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 350688002661 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350688002662 catalytic residues [active] 350688002663 4Fe-4S binding domain; Region: Fer4_5; pfam12801 350688002664 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 350688002665 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 350688002666 putative hexamer interface [polypeptide binding]; other site 350688002667 putative hexagonal pore; other site 350688002668 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 350688002669 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 350688002670 G1 box; other site 350688002671 GTP/Mg2+ binding site [chemical binding]; other site 350688002672 G2 box; other site 350688002673 Switch I region; other site 350688002674 G3 box; other site 350688002675 Switch II region; other site 350688002676 G4 box; other site 350688002677 G5 box; other site 350688002678 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 350688002679 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 350688002680 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 350688002681 active site 350688002682 NAD binding site [chemical binding]; other site 350688002683 metal binding site [ion binding]; metal-binding site 350688002684 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 350688002685 putative hexamer interface [polypeptide binding]; other site 350688002686 putative hexagonal pore; other site 350688002687 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 350688002688 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 350688002689 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 350688002690 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 350688002691 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 350688002692 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 350688002693 putative hexamer interface [polypeptide binding]; other site 350688002694 putative hexagonal pore; other site 350688002695 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 350688002696 Hexamer interface [polypeptide binding]; other site 350688002697 Hexagonal pore residue; other site 350688002698 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688002699 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350688002700 Hexamer interface [polypeptide binding]; other site 350688002701 Hexagonal pore residue; other site 350688002702 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 350688002703 putative catalytic cysteine [active] 350688002704 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688002705 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 350688002706 Hexamer interface [polypeptide binding]; other site 350688002707 Putative hexagonal pore residue; other site 350688002708 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 350688002709 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 350688002710 Propanediol utilisation protein PduL; Region: PduL; pfam06130 350688002711 Propanediol utilisation protein PduL; Region: PduL; pfam06130 350688002712 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 350688002713 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 350688002714 Hexamer/Pentamer interface [polypeptide binding]; other site 350688002715 central pore; other site 350688002716 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 350688002717 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 350688002718 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 350688002719 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 350688002720 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 350688002721 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 350688002722 PAS domain; Region: PAS_9; pfam13426 350688002723 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688002724 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 350688002725 Walker A motif; other site 350688002726 ATP binding site [chemical binding]; other site 350688002727 Walker B motif; other site 350688002728 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688002729 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350688002730 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350688002731 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 350688002732 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 350688002733 active site 350688002734 catalytic residues [active] 350688002735 metal binding site [ion binding]; metal-binding site 350688002736 Predicted transcriptional regulator [Transcription]; Region: COG2378 350688002737 HTH domain; Region: HTH_11; pfam08279 350688002738 WYL domain; Region: WYL; pfam13280 350688002739 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 350688002740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688002741 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688002742 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 350688002743 Walker A/P-loop; other site 350688002744 ATP binding site [chemical binding]; other site 350688002745 Q-loop/lid; other site 350688002746 ABC transporter signature motif; other site 350688002747 Walker B; other site 350688002748 D-loop; other site 350688002749 H-loop/switch region; other site 350688002750 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688002751 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688002752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688002753 Walker A/P-loop; other site 350688002754 ATP binding site [chemical binding]; other site 350688002755 Q-loop/lid; other site 350688002756 ABC transporter signature motif; other site 350688002757 Walker B; other site 350688002758 D-loop; other site 350688002759 H-loop/switch region; other site 350688002760 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350688002761 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 350688002762 DNA binding residues [nucleotide binding] 350688002763 dimer interface [polypeptide binding]; other site 350688002764 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 350688002765 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350688002766 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688002767 putative active site [active] 350688002768 putative metal binding site [ion binding]; other site 350688002769 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 350688002770 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 350688002771 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350688002772 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 350688002773 dimer interface [polypeptide binding]; other site 350688002774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688002775 catalytic residue [active] 350688002776 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688002777 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350688002778 Beta-lactamase; Region: Beta-lactamase; pfam00144 350688002779 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 350688002780 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 350688002781 Chromate transporter; Region: Chromate_transp; pfam02417 350688002782 Chromate transporter; Region: Chromate_transp; pfam02417 350688002783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350688002784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350688002785 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 350688002786 putative dimerization interface [polypeptide binding]; other site 350688002787 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 350688002788 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 350688002789 dimerization interface [polypeptide binding]; other site 350688002790 DPS ferroxidase diiron center [ion binding]; other site 350688002791 ion pore; other site 350688002792 Predicted transcriptional regulators [Transcription]; Region: COG1733 350688002793 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350688002794 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350688002795 Putative serine esterase (DUF676); Region: DUF676; pfam05057 350688002796 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 350688002797 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 350688002798 putative active site [active] 350688002799 heme pocket [chemical binding]; other site 350688002800 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 350688002801 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 350688002802 putative active site [active] 350688002803 heme pocket [chemical binding]; other site 350688002804 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 350688002805 putative active site [active] 350688002806 heme pocket [chemical binding]; other site 350688002807 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688002808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688002809 metal binding site [ion binding]; metal-binding site 350688002810 active site 350688002811 I-site; other site 350688002812 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 350688002813 DHHW protein; Region: DHHW; pfam14286 350688002814 DHHW protein; Region: DHHW; pfam14286 350688002815 Predicted membrane protein [Function unknown]; Region: COG2510 350688002816 VanW like protein; Region: VanW; pfam04294 350688002817 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 350688002818 H+ Antiporter protein; Region: 2A0121; TIGR00900 350688002819 putative substrate translocation pore; other site 350688002820 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 350688002821 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 350688002822 homodimer interface [polypeptide binding]; other site 350688002823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688002824 catalytic residue [active] 350688002825 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 350688002826 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 350688002827 ligand binding site [chemical binding]; other site 350688002828 active site 350688002829 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 350688002830 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 350688002831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 350688002832 Nucleoside recognition; Region: Gate; pfam07670 350688002833 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 350688002834 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 350688002835 tetramer interface [polypeptide binding]; other site 350688002836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688002837 catalytic residue [active] 350688002838 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 350688002839 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 350688002840 NADP binding site [chemical binding]; other site 350688002841 dimer interface [polypeptide binding]; other site 350688002842 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350688002843 MarR family; Region: MarR; pfam01047 350688002844 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 350688002845 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 350688002846 NADP binding site [chemical binding]; other site 350688002847 homodimer interface [polypeptide binding]; other site 350688002848 active site 350688002849 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 350688002850 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350688002851 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 350688002852 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 350688002853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688002854 homodimer interface [polypeptide binding]; other site 350688002855 catalytic residue [active] 350688002856 Pirin-related protein [General function prediction only]; Region: COG1741 350688002857 Pirin; Region: Pirin; pfam02678 350688002858 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 350688002859 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 350688002860 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350688002861 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350688002862 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 350688002863 EamA-like transporter family; Region: EamA; pfam00892 350688002864 EamA-like transporter family; Region: EamA; pfam00892 350688002865 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688002866 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 350688002867 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 350688002868 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 350688002869 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350688002870 TrkA-N domain; Region: TrkA_N; pfam02254 350688002871 TrkA-C domain; Region: TrkA_C; pfam02080 350688002872 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 350688002873 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 350688002874 dimer interface [polypeptide binding]; other site 350688002875 phosphorylation site [posttranslational modification] 350688002876 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 350688002877 ATP binding site [chemical binding]; other site 350688002878 Mg2+ binding site [ion binding]; other site 350688002879 G-X-G motif; other site 350688002880 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688002881 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 350688002882 active site 350688002883 phosphorylation site [posttranslational modification] 350688002884 intermolecular recognition site; other site 350688002885 dimerization interface [polypeptide binding]; other site 350688002886 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 350688002887 DNA binding site [nucleotide binding] 350688002888 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 350688002889 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 350688002890 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 350688002891 catalytic triad [active] 350688002892 cobyric acid synthase; Provisional; Region: PRK00784 350688002893 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 350688002894 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 350688002895 catalytic triad [active] 350688002896 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 350688002897 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 350688002898 active site 350688002899 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 350688002900 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 350688002901 uracil transporter; Provisional; Region: PRK10720 350688002902 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 350688002903 CoA binding domain; Region: CoA_binding; pfam02629 350688002904 CoA-ligase; Region: Ligase_CoA; pfam00549 350688002905 membrane protein FdrA; Validated; Region: PRK06091 350688002906 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 350688002907 Putative cyclase; Region: Cyclase; pfam04199 350688002908 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350688002909 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 350688002910 active site 350688002911 catalytic triad [active] 350688002912 dimer interface [polypeptide binding]; other site 350688002913 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350688002914 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350688002915 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 350688002916 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 350688002917 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350688002918 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350688002919 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350688002920 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350688002921 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350688002922 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 350688002923 Ligand binding site; other site 350688002924 metal-binding site 350688002925 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688002926 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688002927 dimer interface [polypeptide binding]; other site 350688002928 putative CheW interface [polypeptide binding]; other site 350688002929 Predicted membrane protein [Function unknown]; Region: COG1971 350688002930 Domain of unknown function DUF; Region: DUF204; pfam02659 350688002931 Domain of unknown function DUF; Region: DUF204; pfam02659 350688002932 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 350688002933 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688002934 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 350688002935 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 350688002936 active site 350688002937 substrate-binding site [chemical binding]; other site 350688002938 metal-binding site [ion binding] 350688002939 ATP binding site [chemical binding]; other site 350688002940 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 350688002941 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350688002942 PYR/PP interface [polypeptide binding]; other site 350688002943 dimer interface [polypeptide binding]; other site 350688002944 TPP binding site [chemical binding]; other site 350688002945 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350688002946 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 350688002947 TPP-binding site [chemical binding]; other site 350688002948 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 350688002949 ApbE family; Region: ApbE; pfam02424 350688002950 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 350688002951 Uncharacterized conserved protein [Function unknown]; Region: COG1284 350688002952 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 350688002953 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 350688002954 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 350688002955 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 350688002956 Ligand Binding Site [chemical binding]; other site 350688002957 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350688002958 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688002959 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 350688002960 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 350688002961 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 350688002962 active site 350688002963 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 350688002964 active site 2 [active] 350688002965 active site 1 [active] 350688002966 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 350688002967 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688002968 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688002969 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350688002970 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 350688002971 active site residue [active] 350688002972 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 350688002973 dimerization interface [polypeptide binding]; other site 350688002974 putative DNA binding site [nucleotide binding]; other site 350688002975 putative Zn2+ binding site [ion binding]; other site 350688002976 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688002977 dimer interface [polypeptide binding]; other site 350688002978 putative CheW interface [polypeptide binding]; other site 350688002979 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 350688002980 active site 350688002981 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 350688002982 dimanganese center [ion binding]; other site 350688002983 CotJB protein; Region: CotJB; pfam12652 350688002984 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 350688002985 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 350688002986 S-adenosylmethionine binding site [chemical binding]; other site 350688002987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688002988 Coenzyme A binding pocket [chemical binding]; other site 350688002989 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 350688002990 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 350688002991 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 350688002992 Catalytic site [active] 350688002993 epoxyqueuosine reductase; Region: TIGR00276 350688002994 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 350688002995 AAA domain; Region: AAA_32; pfam13654 350688002996 ATP-dependent protease Lon; Provisional; Region: PRK13765 350688002997 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350688002998 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 350688002999 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 350688003000 substrate-cofactor binding pocket; other site 350688003001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688003002 catalytic residue [active] 350688003003 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 350688003004 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350688003005 minor groove reading motif; other site 350688003006 helix-hairpin-helix signature motif; other site 350688003007 substrate binding pocket [chemical binding]; other site 350688003008 active site 350688003009 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 350688003010 cell division protein FtsA; Region: ftsA; TIGR01174 350688003011 Cell division protein FtsA; Region: FtsA; smart00842 350688003012 Cell division protein FtsA; Region: FtsA; pfam14450 350688003013 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 350688003014 VanW like protein; Region: VanW; pfam04294 350688003015 G5 domain; Region: G5; pfam07501 350688003016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 350688003017 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 350688003018 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 350688003019 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688003020 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 350688003021 cobalamin binding residues [chemical binding]; other site 350688003022 putative BtuC binding residues; other site 350688003023 dimer interface [polypeptide binding]; other site 350688003024 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688003025 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 350688003026 ABC-ATPase subunit interface; other site 350688003027 dimer interface [polypeptide binding]; other site 350688003028 putative PBP binding regions; other site 350688003029 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688003030 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688003031 Walker A/P-loop; other site 350688003032 ATP binding site [chemical binding]; other site 350688003033 Q-loop/lid; other site 350688003034 ABC transporter signature motif; other site 350688003035 Walker B; other site 350688003036 D-loop; other site 350688003037 H-loop/switch region; other site 350688003038 ferric uptake regulator; Provisional; Region: fur; PRK09462 350688003039 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350688003040 metal binding site 2 [ion binding]; metal-binding site 350688003041 putative DNA binding helix; other site 350688003042 metal binding site 1 [ion binding]; metal-binding site 350688003043 dimer interface [polypeptide binding]; other site 350688003044 structural Zn2+ binding site [ion binding]; other site 350688003045 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 350688003046 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 350688003047 active site 350688003048 motif I; other site 350688003049 motif II; other site 350688003050 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350688003051 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 350688003052 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 350688003053 putative active site [active] 350688003054 putative metal binding site [ion binding]; other site 350688003055 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 350688003056 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688003057 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 350688003058 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 350688003059 active site 350688003060 HIGH motif; other site 350688003061 dimer interface [polypeptide binding]; other site 350688003062 KMSKS motif; other site 350688003063 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 350688003064 RNA binding surface [nucleotide binding]; other site 350688003065 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 350688003066 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 350688003067 Predicted integral membrane protein [Function unknown]; Region: COG5505 350688003068 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 350688003069 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350688003070 NlpC/P60 family; Region: NLPC_P60; cl17555 350688003071 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 350688003072 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 350688003073 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 350688003074 active site 350688003075 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 350688003076 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 350688003077 putative dimer interface [polypeptide binding]; other site 350688003078 [2Fe-2S] cluster binding site [ion binding]; other site 350688003079 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 350688003080 dimer interface [polypeptide binding]; other site 350688003081 [2Fe-2S] cluster binding site [ion binding]; other site 350688003082 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350688003083 SLBB domain; Region: SLBB; pfam10531 350688003084 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 350688003085 4Fe-4S binding domain; Region: Fer4; pfam00037 350688003086 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688003087 4Fe-4S binding domain; Region: Fer4; pfam00037 350688003088 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 350688003089 catalytic loop [active] 350688003090 iron binding site [ion binding]; other site 350688003091 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350688003092 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 350688003093 4Fe-4S binding domain; Region: Fer4; pfam00037 350688003094 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 350688003095 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 350688003096 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 350688003097 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 350688003098 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 350688003099 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350688003100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 350688003101 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 350688003102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688003103 Walker A/P-loop; other site 350688003104 ATP binding site [chemical binding]; other site 350688003105 Q-loop/lid; other site 350688003106 ABC transporter signature motif; other site 350688003107 Walker B; other site 350688003108 D-loop; other site 350688003109 H-loop/switch region; other site 350688003110 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350688003111 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350688003112 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 350688003113 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 350688003114 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 350688003115 DNA binding site [nucleotide binding] 350688003116 active site 350688003117 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 350688003118 putative deacylase active site [active] 350688003119 Putative zinc-finger; Region: zf-HC2; pfam13490 350688003120 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350688003121 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688003122 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 350688003123 DNA binding residues [nucleotide binding] 350688003124 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 350688003125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688003126 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 350688003127 active site 350688003128 phosphorylation site [posttranslational modification] 350688003129 intermolecular recognition site; other site 350688003130 dimerization interface [polypeptide binding]; other site 350688003131 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 350688003132 DNA binding site [nucleotide binding] 350688003133 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 350688003134 dimerization interface [polypeptide binding]; other site 350688003135 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 350688003136 dimer interface [polypeptide binding]; other site 350688003137 phosphorylation site [posttranslational modification] 350688003138 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 350688003139 ATP binding site [chemical binding]; other site 350688003140 Mg2+ binding site [ion binding]; other site 350688003141 G-X-G motif; other site 350688003142 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350688003143 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688003144 ABC transporter; Region: ABC_tran_2; pfam12848 350688003145 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688003146 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 350688003147 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688003148 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 350688003149 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 350688003150 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 350688003151 intersubunit interface [polypeptide binding]; other site 350688003152 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688003153 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 350688003154 ABC-ATPase subunit interface; other site 350688003155 dimer interface [polypeptide binding]; other site 350688003156 putative PBP binding regions; other site 350688003157 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688003158 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688003159 Walker A/P-loop; other site 350688003160 ATP binding site [chemical binding]; other site 350688003161 Q-loop/lid; other site 350688003162 ABC transporter signature motif; other site 350688003163 Walker B; other site 350688003164 D-loop; other site 350688003165 H-loop/switch region; other site 350688003166 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 350688003167 EDD domain protein, DegV family; Region: DegV; TIGR00762 350688003168 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 350688003169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 350688003170 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 350688003171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688003172 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688003173 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 350688003174 catalytic residues [active] 350688003175 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 350688003176 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 350688003177 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 350688003178 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 350688003179 "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 350688003180 dimer interface [polypeptide binding]; other site 350688003181 active site 350688003182 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 350688003183 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 350688003184 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 350688003185 ligand binding site [chemical binding]; other site 350688003186 Protein of unknown function (DUF3029); Region: DUF3029; pfam11230 350688003187 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 350688003188 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 350688003189 FeS/SAM binding site; other site 350688003190 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 350688003191 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 350688003192 Walker A/P-loop; other site 350688003193 ATP binding site [chemical binding]; other site 350688003194 Q-loop/lid; other site 350688003195 ABC transporter signature motif; other site 350688003196 Walker B; other site 350688003197 D-loop; other site 350688003198 H-loop/switch region; other site 350688003199 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 350688003200 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688003201 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 350688003202 TM-ABC transporter signature motif; other site 350688003203 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688003204 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 350688003205 TM-ABC transporter signature motif; other site 350688003206 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 350688003207 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 350688003208 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 350688003209 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 350688003210 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 350688003211 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 350688003212 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 350688003213 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 350688003214 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 350688003215 Phosphoglycerate kinase; Region: PGK; pfam00162 350688003216 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 350688003217 substrate binding site [chemical binding]; other site 350688003218 hinge regions; other site 350688003219 ADP binding site [chemical binding]; other site 350688003220 catalytic site [active] 350688003221 triosephosphate isomerase; Provisional; Region: PRK14567 350688003222 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 350688003223 substrate binding site [chemical binding]; other site 350688003224 dimer interface [polypeptide binding]; other site 350688003225 catalytic triad [active] 350688003226 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 350688003227 phosphoglyceromutase; Provisional; Region: PRK05434 350688003228 enolase; Provisional; Region: eno; PRK00077 350688003229 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 350688003230 dimer interface [polypeptide binding]; other site 350688003231 metal binding site [ion binding]; metal-binding site 350688003232 substrate binding pocket [chemical binding]; other site 350688003233 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 350688003234 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 350688003235 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 350688003236 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 350688003237 ribonuclease R; Region: RNase_R; TIGR02063 350688003238 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 350688003239 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 350688003240 RNB domain; Region: RNB; pfam00773 350688003241 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 350688003242 RNA binding site [nucleotide binding]; other site 350688003243 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 350688003244 SmpB-tmRNA interface; other site 350688003245 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 350688003246 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 350688003247 ATP binding site [chemical binding]; other site 350688003248 putative Mg++ binding site [ion binding]; other site 350688003249 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 350688003250 nucleotide binding region [chemical binding]; other site 350688003251 ATP-binding site [chemical binding]; other site 350688003252 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 350688003253 HRDC domain; Region: HRDC; pfam00570 350688003254 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688003255 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688003256 Walker A/P-loop; other site 350688003257 ATP binding site [chemical binding]; other site 350688003258 Q-loop/lid; other site 350688003259 ABC transporter signature motif; other site 350688003260 Walker B; other site 350688003261 D-loop; other site 350688003262 H-loop/switch region; other site 350688003263 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688003264 FtsX-like permease family; Region: FtsX; pfam02687 350688003265 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688003266 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 350688003267 active site 350688003268 phosphorylation site [posttranslational modification] 350688003269 intermolecular recognition site; other site 350688003270 dimerization interface [polypeptide binding]; other site 350688003271 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 350688003272 DNA binding site [nucleotide binding] 350688003273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688003274 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 350688003275 ATP binding site [chemical binding]; other site 350688003276 Mg2+ binding site [ion binding]; other site 350688003277 G-X-G motif; other site 350688003278 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 350688003279 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 350688003280 FMN binding site [chemical binding]; other site 350688003281 active site 350688003282 catalytic residues [active] 350688003283 substrate binding site [chemical binding]; other site 350688003284 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688003285 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 350688003286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 350688003287 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 350688003288 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 350688003289 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 350688003290 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 350688003291 putative dimer interface [polypeptide binding]; other site 350688003292 [2Fe-2S] cluster binding site [ion binding]; other site 350688003293 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 350688003294 dimer interface [polypeptide binding]; other site 350688003295 [2Fe-2S] cluster binding site [ion binding]; other site 350688003296 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350688003297 SLBB domain; Region: SLBB; pfam10531 350688003298 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 350688003299 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688003300 4Fe-4S binding domain; Region: Fer4; pfam00037 350688003301 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 350688003302 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 350688003303 catalytic loop [active] 350688003304 iron binding site [ion binding]; other site 350688003305 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350688003306 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 350688003307 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 350688003308 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 350688003309 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 350688003310 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 350688003311 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 350688003312 FeS/SAM binding site; other site 350688003313 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 350688003314 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 350688003315 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 350688003316 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 350688003317 G1 box; other site 350688003318 GTP/Mg2+ binding site [chemical binding]; other site 350688003319 Switch I region; other site 350688003320 G2 box; other site 350688003321 Switch II region; other site 350688003322 G3 box; other site 350688003323 G4 box; other site 350688003324 G5 box; other site 350688003325 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 350688003326 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; cl09940 350688003327 RNA binding surface [nucleotide binding]; other site 350688003328 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 350688003329 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 350688003330 S-adenosylmethionine binding site [chemical binding]; other site 350688003331 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 350688003332 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 350688003333 HflX GTPase family; Region: HflX; cd01878 350688003334 G1 box; other site 350688003335 GTP/Mg2+ binding site [chemical binding]; other site 350688003336 Switch I region; other site 350688003337 G2 box; other site 350688003338 G3 box; other site 350688003339 Switch II region; other site 350688003340 G4 box; other site 350688003341 G5 box; other site 350688003342 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 350688003343 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 350688003344 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 350688003345 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 350688003346 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 350688003347 FOG: CBS domain [General function prediction only]; Region: COG0517 350688003348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688003349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688003350 metal binding site [ion binding]; metal-binding site 350688003351 active site 350688003352 I-site; other site 350688003353 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688003354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688003355 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 350688003356 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688003357 active site 350688003358 HIGH motif; other site 350688003359 nucleotide binding site [chemical binding]; other site 350688003360 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688003361 KMSKS motif; other site 350688003362 glycerol kinase; Provisional; Region: glpK; PRK00047 350688003363 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 350688003364 N- and C-terminal domain interface [polypeptide binding]; other site 350688003365 active site 350688003366 MgATP binding site [chemical binding]; other site 350688003367 catalytic site [active] 350688003368 metal binding site [ion binding]; metal-binding site 350688003369 glycerol binding site [chemical binding]; other site 350688003370 homotetramer interface [polypeptide binding]; other site 350688003371 homodimer interface [polypeptide binding]; other site 350688003372 FBP binding site [chemical binding]; other site 350688003373 protein IIAGlc interface [polypeptide binding]; other site 350688003374 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 350688003375 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 350688003376 active site 350688003377 HIGH motif; other site 350688003378 KMSKS motif; other site 350688003379 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 350688003380 tRNA binding surface [nucleotide binding]; other site 350688003381 anticodon binding site; other site 350688003382 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350688003383 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 350688003384 S-adenosylmethionine binding site [chemical binding]; other site 350688003385 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 350688003386 SxDxEG motif; other site 350688003387 active site 350688003388 metal binding site [ion binding]; metal-binding site 350688003389 homopentamer interface [polypeptide binding]; other site 350688003390 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 350688003391 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 350688003392 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350688003393 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 350688003394 putative active site [active] 350688003395 catalytic triad [active] 350688003396 putative dimer interface [polypeptide binding]; other site 350688003397 TOBE domain; Region: TOBE; cl01440 350688003398 cobalt transport protein CbiM; Validated; Region: PRK08319 350688003399 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 350688003400 cobalt transport protein CbiN; Provisional; Region: PRK02898 350688003401 Cobalt transport protein; Region: CbiQ; cl00463 350688003402 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 350688003403 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350688003404 Walker A/P-loop; other site 350688003405 ATP binding site [chemical binding]; other site 350688003406 Q-loop/lid; other site 350688003407 ABC transporter signature motif; other site 350688003408 Walker B; other site 350688003409 D-loop; other site 350688003410 H-loop/switch region; other site 350688003411 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 350688003412 Precorrin-8X methylmutase; Region: CbiC; pfam02570 350688003413 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 350688003414 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 350688003415 active site 350688003416 putative homodimer interface [polypeptide binding]; other site 350688003417 SAM binding site [chemical binding]; other site 350688003418 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 350688003419 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 350688003420 S-adenosylmethionine binding site [chemical binding]; other site 350688003421 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 350688003422 active site 350688003423 SAM binding site [chemical binding]; other site 350688003424 homodimer interface [polypeptide binding]; other site 350688003425 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 350688003426 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 350688003427 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 350688003428 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 350688003429 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 350688003430 active site 350688003431 SAM binding site [chemical binding]; other site 350688003432 homodimer interface [polypeptide binding]; other site 350688003433 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 350688003434 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 350688003435 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 350688003436 active site 350688003437 SAM binding site [chemical binding]; other site 350688003438 homodimer interface [polypeptide binding]; other site 350688003439 Chromate transporter; Region: Chromate_transp; pfam02417 350688003440 Chromate transporter; Region: Chromate_transp; pfam02417 350688003441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350688003442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350688003443 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 350688003444 putative dimerization interface [polypeptide binding]; other site 350688003445 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 350688003446 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 350688003447 CPxP motif; other site 350688003448 Sulphur transport; Region: Sulf_transp; pfam04143 350688003449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350688003450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350688003451 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 350688003452 putative dimerization interface [polypeptide binding]; other site 350688003453 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 350688003454 DNA topoisomerase III; Provisional; Region: PRK07726 350688003455 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 350688003456 active site 350688003457 putative interdomain interaction site [polypeptide binding]; other site 350688003458 putative metal-binding site [ion binding]; other site 350688003459 putative nucleotide binding site [chemical binding]; other site 350688003460 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 350688003461 domain I; other site 350688003462 DNA binding groove [nucleotide binding] 350688003463 phosphate binding site [ion binding]; other site 350688003464 domain II; other site 350688003465 domain III; other site 350688003466 nucleotide binding site [chemical binding]; other site 350688003467 catalytic site [active] 350688003468 domain IV; other site 350688003469 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350688003470 MarR family; Region: MarR_2; pfam12802 350688003471 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350688003472 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 350688003473 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 350688003474 E3 interaction surface; other site 350688003475 lipoyl attachment site [posttranslational modification]; other site 350688003476 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 350688003477 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688003478 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350688003479 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 350688003480 Ligand Binding Site [chemical binding]; other site 350688003481 SWIM zinc finger; Region: SWIM; pfam04434 350688003482 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 350688003483 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 350688003484 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 350688003485 ATP binding site [chemical binding]; other site 350688003486 putative Mg++ binding site [ion binding]; other site 350688003487 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 350688003488 nucleotide binding region [chemical binding]; other site 350688003489 ATP-binding site [chemical binding]; other site 350688003490 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 350688003491 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 350688003492 dimer interface [polypeptide binding]; other site 350688003493 PYR/PP interface [polypeptide binding]; other site 350688003494 TPP binding site [chemical binding]; other site 350688003495 substrate binding site [chemical binding]; other site 350688003496 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 350688003497 TPP-binding site; other site 350688003498 4Fe-4S binding domain; Region: Fer4; pfam00037 350688003499 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 350688003500 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 350688003501 PspC domain; Region: PspC; pfam04024 350688003502 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 350688003503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 350688003504 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 350688003505 integrase; Provisional; Region: int; PHA02601 350688003506 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 350688003507 Int/Topo IB signature motif; other site 350688003508 Domain of unknown function (DUF955); Region: DUF955; pfam06114 350688003509 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350688003510 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 350688003511 non-specific DNA binding site [nucleotide binding]; other site 350688003512 salt bridge; other site 350688003513 sequence-specific DNA binding site [nucleotide binding]; other site 350688003514 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 350688003515 non-specific DNA binding site [nucleotide binding]; other site 350688003516 salt bridge; other site 350688003517 sequence-specific DNA binding site [nucleotide binding]; other site 350688003518 HTH domain; Region: HTH_11; cl17392 350688003519 Helix-turn-helix domain; Region: HTH_17; pfam12728 350688003520 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 350688003521 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 350688003522 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688003523 Walker A motif; other site 350688003524 ATP binding site [chemical binding]; other site 350688003525 Walker B motif; other site 350688003526 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 350688003527 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 350688003528 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688003529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688003530 dimer interface [polypeptide binding]; other site 350688003531 putative CheW interface [polypeptide binding]; other site 350688003532 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 350688003533 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 350688003534 S-adenosylmethionine binding site [chemical binding]; other site 350688003535 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 350688003536 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 350688003537 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 350688003538 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 350688003539 structural tetrad; other site 350688003540 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 350688003541 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 350688003542 putative homodimer interface [polypeptide binding]; other site 350688003543 putative homotetramer interface [polypeptide binding]; other site 350688003544 allosteric switch controlling residues; other site 350688003545 putative metal binding site [ion binding]; other site 350688003546 putative homodimer-homodimer interface [polypeptide binding]; other site 350688003547 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350688003548 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 350688003549 metal-binding site [ion binding] 350688003550 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350688003551 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 350688003552 metal-binding site [ion binding] 350688003553 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350688003554 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 350688003555 motif II; other site 350688003556 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 350688003557 metal-binding site [ion binding] 350688003558 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 350688003559 dimer interface [polypeptide binding]; other site 350688003560 [2Fe-2S] cluster binding site [ion binding]; other site 350688003561 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 350688003562 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 350688003563 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350688003564 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350688003565 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350688003566 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 350688003567 dimer interface [polypeptide binding]; other site 350688003568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688003569 catalytic residue [active] 350688003570 cystathionine beta-lyase; Provisional; Region: PRK07671 350688003571 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 350688003572 homodimer interface [polypeptide binding]; other site 350688003573 substrate-cofactor binding pocket; other site 350688003574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688003575 catalytic residue [active] 350688003576 S-ribosylhomocysteinase; Provisional; Region: PRK02260 350688003577 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 350688003578 S-adenosylmethionine binding site [chemical binding]; other site 350688003579 Double zinc ribbon; Region: DZR; pfam12773 350688003580 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 350688003581 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 350688003582 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 350688003583 dimer interface [polypeptide binding]; other site 350688003584 phosphorylation site [posttranslational modification] 350688003585 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 350688003586 ATP binding site [chemical binding]; other site 350688003587 Mg2+ binding site [ion binding]; other site 350688003588 G-X-G motif; other site 350688003589 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 350688003590 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 350688003591 active site 350688003592 phosphorylation site [posttranslational modification] 350688003593 intermolecular recognition site; other site 350688003594 dimerization interface [polypeptide binding]; other site 350688003595 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 350688003596 Walker A motif; other site 350688003597 ATP binding site [chemical binding]; other site 350688003598 Walker B motif; other site 350688003599 arginine finger; other site 350688003600 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688003601 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 350688003602 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 350688003603 S-adenosylmethionine binding site [chemical binding]; other site 350688003604 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 350688003605 ZIP Zinc transporter; Region: Zip; pfam02535 350688003606 lipoprotein signal peptidase; Provisional; Region: PRK14786 350688003607 lipoprotein signal peptidase; Provisional; Region: PRK14787 350688003608 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 350688003609 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 350688003610 S-adenosylmethionine binding site [chemical binding]; other site 350688003611 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 350688003612 dimerization interface [polypeptide binding]; other site 350688003613 putative DNA binding site [nucleotide binding]; other site 350688003614 putative Zn2+ binding site [ion binding]; other site 350688003615 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 350688003616 dimerization interface [polypeptide binding]; other site 350688003617 putative DNA binding site [nucleotide binding]; other site 350688003618 putative Zn2+ binding site [ion binding]; other site 350688003619 Heavy-metal-associated domain; Region: HMA; pfam00403 350688003620 metal-binding site [ion binding] 350688003621 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 350688003622 metal-binding site [ion binding] 350688003623 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350688003624 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 350688003625 metal-binding site [ion binding] 350688003626 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350688003627 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350688003628 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350688003629 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 350688003630 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 350688003631 DNA binding residues [nucleotide binding] 350688003632 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 350688003633 dimer interface [polypeptide binding]; other site 350688003634 mercury binding site [ion binding]; other site 350688003635 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350688003636 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350688003637 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688003638 Walker A/P-loop; other site 350688003639 ATP binding site [chemical binding]; other site 350688003640 Q-loop/lid; other site 350688003641 ABC transporter signature motif; other site 350688003642 Walker B; other site 350688003643 D-loop; other site 350688003644 H-loop/switch region; other site 350688003645 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 350688003646 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688003647 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 350688003648 DNA binding residues [nucleotide binding] 350688003649 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350688003650 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 350688003651 S-adenosylmethionine binding site [chemical binding]; other site 350688003652 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 350688003653 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 350688003654 GTP binding site; other site 350688003655 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350688003656 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 350688003657 putative [Fe4-S4] binding site [ion binding]; other site 350688003658 putative molybdopterin cofactor binding site [chemical binding]; other site 350688003659 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 350688003660 putative molybdopterin cofactor binding site; other site 350688003661 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 350688003662 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 350688003663 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688003664 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688003665 MOSC domain; Region: MOSC; pfam03473 350688003666 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 350688003667 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 350688003668 putative MPT binding site; other site 350688003669 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350688003670 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 350688003671 dimer interface [polypeptide binding]; other site 350688003672 putative functional site; other site 350688003673 putative MPT binding site; other site 350688003674 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 350688003675 Walker A motif; other site 350688003676 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 350688003677 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688003678 active site 350688003679 metal binding site [ion binding]; metal-binding site 350688003680 homotetramer interface [polypeptide binding]; other site 350688003681 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 350688003682 dimerization interface [polypeptide binding]; other site 350688003683 putative DNA binding site [nucleotide binding]; other site 350688003684 putative Zn2+ binding site [ion binding]; other site 350688003685 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 350688003686 dimerization interface [polypeptide binding]; other site 350688003687 putative DNA binding site [nucleotide binding]; other site 350688003688 putative Zn2+ binding site [ion binding]; other site 350688003689 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 350688003690 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 350688003691 FeS/SAM binding site; other site 350688003692 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 350688003693 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 350688003694 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 350688003695 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350688003696 P loop; other site 350688003697 Nucleotide binding site [chemical binding]; other site 350688003698 DTAP/Switch II; other site 350688003699 Switch I; other site 350688003700 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350688003701 P loop; other site 350688003702 Nucleotide binding site [chemical binding]; other site 350688003703 DTAP/Switch II; other site 350688003704 Switch I; other site 350688003705 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 350688003706 dimerization interface [polypeptide binding]; other site 350688003707 putative DNA binding site [nucleotide binding]; other site 350688003708 putative Zn2+ binding site [ion binding]; other site 350688003709 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350688003710 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350688003711 active site 350688003712 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 350688003713 Sodium Bile acid symporter family; Region: SBF; cl17470 350688003714 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 350688003715 active site residue [active] 350688003716 PBP superfamily domain; Region: PBP_like_2; cl17296 350688003717 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 350688003718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688003719 dimer interface [polypeptide binding]; other site 350688003720 conserved gate region; other site 350688003721 putative PBP binding loops; other site 350688003722 ABC-ATPase subunit interface; other site 350688003723 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 350688003724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688003725 dimer interface [polypeptide binding]; other site 350688003726 conserved gate region; other site 350688003727 putative PBP binding loops; other site 350688003728 ABC-ATPase subunit interface; other site 350688003729 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 350688003730 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 350688003731 Walker A/P-loop; other site 350688003732 ATP binding site [chemical binding]; other site 350688003733 Q-loop/lid; other site 350688003734 ABC transporter signature motif; other site 350688003735 Walker B; other site 350688003736 D-loop; other site 350688003737 H-loop/switch region; other site 350688003738 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 350688003739 PhoU domain; Region: PhoU; pfam01895 350688003740 PhoU domain; Region: PhoU; pfam01895 350688003741 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 350688003742 dimerization interface [polypeptide binding]; other site 350688003743 putative DNA binding site [nucleotide binding]; other site 350688003744 putative Zn2+ binding site [ion binding]; other site 350688003745 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 350688003746 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688003747 active site 350688003748 metal binding site [ion binding]; metal-binding site 350688003749 homotetramer interface [polypeptide binding]; other site 350688003750 Predicted permeases [General function prediction only]; Region: COG0701 350688003751 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 350688003752 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 350688003753 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 350688003754 Peptidase M15; Region: Peptidase_M15_3; cl01194 350688003755 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 350688003756 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 350688003757 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 350688003758 DctM-like transporters; Region: DctM; pfam06808 350688003759 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 350688003760 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 350688003761 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 350688003762 active site 350688003763 motif I; other site 350688003764 motif II; other site 350688003765 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 350688003766 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 350688003767 Predicted dehydrogenase [General function prediction only]; Region: COG0579 350688003768 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350688003769 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350688003770 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350688003771 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688003772 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 350688003773 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 350688003774 MgtC family; Region: MgtC; pfam02308 350688003775 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688003776 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688003777 SnoaL-like domain; Region: SnoaL_2; pfam12680 350688003778 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 350688003779 ATP cone domain; Region: ATP-cone; pfam03477 350688003780 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 350688003781 Class III ribonucleotide reductase; Region: RNR_III; cd01675 350688003782 active site 350688003783 Zn binding site [ion binding]; other site 350688003784 glycine loop; other site 350688003785 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 350688003786 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 350688003787 FeS/SAM binding site; other site 350688003788 Helix-turn-helix domain; Region: HTH_17; cl17695 350688003789 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 350688003790 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 350688003791 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 350688003792 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 350688003793 nudix motif; other site 350688003794 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 350688003795 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688003796 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 350688003797 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 350688003798 catalytic core [active] 350688003799 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 350688003800 putative FMN binding site [chemical binding]; other site 350688003801 NADPH bind site [chemical binding]; other site 350688003802 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350688003803 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350688003804 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350688003805 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 350688003806 active site 350688003807 YusW-like protein; Region: YusW; pfam14039 350688003808 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 350688003809 active site 350688003810 DNA binding site [nucleotide binding] 350688003811 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 350688003812 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 350688003813 active site 350688003814 FMN binding site [chemical binding]; other site 350688003815 substrate binding site [chemical binding]; other site 350688003816 putative catalytic residues [active] 350688003817 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 350688003818 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 350688003819 NodB motif; other site 350688003820 active site 350688003821 catalytic site [active] 350688003822 Zn binding site [ion binding]; other site 350688003823 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688003824 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 350688003825 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 350688003826 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350688003827 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 350688003828 dihydrodipicolinate synthase; Region: dapA; TIGR00674 350688003829 dimer interface [polypeptide binding]; other site 350688003830 active site 350688003831 catalytic residue [active] 350688003832 dihydrodipicolinate reductase; Provisional; Region: PRK00048 350688003833 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350688003834 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 350688003835 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 350688003836 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 350688003837 oligoendopeptidase F; Region: pepF; TIGR00181 350688003838 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 350688003839 active site 350688003840 Zn binding site [ion binding]; other site 350688003841 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 350688003842 ATP-NAD kinase; Region: NAD_kinase; pfam01513 350688003843 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 350688003844 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 350688003845 active site 350688003846 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 350688003847 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 350688003848 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 350688003849 Walker A motif; other site 350688003850 ATP binding site [chemical binding]; other site 350688003851 Walker B motif; other site 350688003852 arginine finger; other site 350688003853 Peptidase family M41; Region: Peptidase_M41; pfam01434 350688003854 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350688003855 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 350688003856 dimer interface [polypeptide binding]; other site 350688003857 putative functional site; other site 350688003858 putative MPT binding site; other site 350688003859 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 350688003860 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 350688003861 dimer interface [polypeptide binding]; other site 350688003862 putative functional site; other site 350688003863 putative MPT binding site; other site 350688003864 PBP superfamily domain; Region: PBP_like; pfam12727 350688003865 MOSC domain; Region: MOSC; pfam03473 350688003866 stage V sporulation protein B; Region: spore_V_B; TIGR02900 350688003867 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 350688003868 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688003869 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688003870 metal binding site [ion binding]; metal-binding site 350688003871 active site 350688003872 I-site; other site 350688003873 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688003874 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688003875 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 350688003876 Walker A/P-loop; other site 350688003877 ATP binding site [chemical binding]; other site 350688003878 Q-loop/lid; other site 350688003879 ABC transporter signature motif; other site 350688003880 Walker B; other site 350688003881 D-loop; other site 350688003882 H-loop/switch region; other site 350688003883 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688003884 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688003885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688003886 Walker A/P-loop; other site 350688003887 ATP binding site [chemical binding]; other site 350688003888 Q-loop/lid; other site 350688003889 ABC transporter signature motif; other site 350688003890 Walker B; other site 350688003891 D-loop; other site 350688003892 H-loop/switch region; other site 350688003893 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 350688003894 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688003895 DNA-binding site [nucleotide binding]; DNA binding site 350688003896 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 350688003897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688003898 homodimer interface [polypeptide binding]; other site 350688003899 catalytic residue [active] 350688003900 putative lipid kinase; Reviewed; Region: PRK13337 350688003901 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350688003902 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350688003903 MarR family; Region: MarR; pfam01047 350688003904 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 350688003905 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 350688003906 active site 350688003907 ATP binding site [chemical binding]; other site 350688003908 substrate binding site [chemical binding]; other site 350688003909 activation loop (A-loop); other site 350688003910 Predicted ATPase [General function prediction only]; Region: COG3899 350688003911 AAA ATPase domain; Region: AAA_16; pfam13191 350688003912 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 350688003913 TPR motif; other site 350688003914 binding surface 350688003915 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 350688003916 TPR motif; other site 350688003917 Tetratricopeptide repeat; Region: TPR_12; pfam13424 350688003918 binding surface 350688003919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688003920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688003921 metal binding site [ion binding]; metal-binding site 350688003922 active site 350688003923 I-site; other site 350688003924 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 350688003925 active sites [active] 350688003926 tetramer interface [polypeptide binding]; other site 350688003927 imidazolonepropionase; Validated; Region: PRK09356 350688003928 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 350688003929 active site 350688003930 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 350688003931 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 350688003932 putative CheA interaction surface; other site 350688003933 Sensor protein DegS; Region: DegS; pfam05384 350688003934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350688003935 Histidine kinase; Region: HisKA_3; pfam07730 350688003936 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 350688003937 ATP binding site [chemical binding]; other site 350688003938 Mg2+ binding site [ion binding]; other site 350688003939 G-X-G motif; other site 350688003940 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350688003941 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 350688003942 active site 350688003943 phosphorylation site [posttranslational modification] 350688003944 intermolecular recognition site; other site 350688003945 dimerization interface [polypeptide binding]; other site 350688003946 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 350688003947 DNA binding residues [nucleotide binding] 350688003948 dimerization interface [polypeptide binding]; other site 350688003949 EDD domain protein, DegV family; Region: DegV; TIGR00762 350688003950 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 350688003951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350688003952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350688003953 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 350688003954 putative dimerization interface [polypeptide binding]; other site 350688003955 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350688003956 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 350688003957 synthetase active site [active] 350688003958 NTP binding site [chemical binding]; other site 350688003959 metal binding site [ion binding]; metal-binding site 350688003960 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 350688003961 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 350688003962 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688003963 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688003964 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688003965 Walker A/P-loop; other site 350688003966 ATP binding site [chemical binding]; other site 350688003967 Q-loop/lid; other site 350688003968 ABC transporter signature motif; other site 350688003969 Walker B; other site 350688003970 D-loop; other site 350688003971 H-loop/switch region; other site 350688003972 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350688003973 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688003974 FtsX-like permease family; Region: FtsX; pfam02687 350688003975 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688003976 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 350688003977 active site 350688003978 phosphorylation site [posttranslational modification] 350688003979 intermolecular recognition site; other site 350688003980 dimerization interface [polypeptide binding]; other site 350688003981 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 350688003982 DNA binding site [nucleotide binding] 350688003983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688003984 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 350688003985 dimerization interface [polypeptide binding]; other site 350688003986 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 350688003987 dimer interface [polypeptide binding]; other site 350688003988 phosphorylation site [posttranslational modification] 350688003989 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 350688003990 ATP binding site [chemical binding]; other site 350688003991 Mg2+ binding site [ion binding]; other site 350688003992 G-X-G motif; other site 350688003993 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 350688003994 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688003995 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 350688003996 DNA binding residues [nucleotide binding] 350688003997 Putative zinc-finger; Region: zf-HC2; pfam13490 350688003998 DNA polymerase I; Provisional; Region: PRK05755 350688003999 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 350688004000 active site 350688004001 metal binding site 1 [ion binding]; metal-binding site 350688004002 putative 5' ssDNA interaction site; other site 350688004003 metal binding site 3; metal-binding site 350688004004 metal binding site 2 [ion binding]; metal-binding site 350688004005 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 350688004006 putative DNA binding site [nucleotide binding]; other site 350688004007 putative metal binding site [ion binding]; other site 350688004008 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 350688004009 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 350688004010 active site 350688004011 DNA binding site [nucleotide binding] 350688004012 catalytic site [active] 350688004013 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 350688004014 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 350688004015 CoA-binding site [chemical binding]; other site 350688004016 ATP-binding [chemical binding]; other site 350688004017 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 350688004018 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 350688004019 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350688004020 catalytic residue [active] 350688004021 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350688004022 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 350688004023 peptide binding site [polypeptide binding]; other site 350688004024 dimer interface [polypeptide binding]; other site 350688004025 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 350688004026 active site 350688004027 catalytic residues [active] 350688004028 metal binding site [ion binding]; metal-binding site 350688004029 putative deaminase; Validated; Region: PRK06846 350688004030 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 350688004031 active site 350688004032 Hemerythrin; Region: Hemerythrin; cd12107 350688004033 Fe binding site [ion binding]; other site 350688004034 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 350688004035 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 350688004036 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 350688004037 active site 350688004038 catalytic tetrad [active] 350688004039 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 350688004040 hypothetical protein; Provisional; Region: PRK06851 350688004041 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 350688004042 active site 350688004043 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 350688004044 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 350688004045 ATP binding site [chemical binding]; other site 350688004046 Mg++ binding site [ion binding]; other site 350688004047 motif III; other site 350688004048 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 350688004049 nucleotide binding region [chemical binding]; other site 350688004050 ATP-binding site [chemical binding]; other site 350688004051 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 350688004052 RNA binding site [nucleotide binding]; other site 350688004053 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 350688004054 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 350688004055 Competence protein; Region: Competence; pfam03772 350688004056 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 350688004057 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 350688004058 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 350688004059 germination protease; Provisional; Region: PRK12362 350688004060 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 350688004061 stage II sporulation protein P; Region: spore_II_P; TIGR02867 350688004062 GTP-binding protein LepA; Provisional; Region: PRK05433 350688004063 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 350688004064 G1 box; other site 350688004065 putative GEF interaction site [polypeptide binding]; other site 350688004066 GTP/Mg2+ binding site [chemical binding]; other site 350688004067 Switch I region; other site 350688004068 G2 box; other site 350688004069 G3 box; other site 350688004070 Switch II region; other site 350688004071 G4 box; other site 350688004072 G5 box; other site 350688004073 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 350688004074 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 350688004075 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 350688004076 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 350688004077 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 350688004078 FeS/SAM binding site; other site 350688004079 HemN C-terminal domain; Region: HemN_C; pfam06969 350688004080 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 350688004081 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 350688004082 GrpE; Region: GrpE; pfam01025 350688004083 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 350688004084 dimer interface [polypeptide binding]; other site 350688004085 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 350688004086 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 350688004087 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 350688004088 nucleotide binding site [chemical binding]; other site 350688004089 NEF interaction site [polypeptide binding]; other site 350688004090 SBD interface [polypeptide binding]; other site 350688004091 chaperone protein DnaJ; Provisional; Region: PRK10767 350688004092 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 350688004093 HSP70 interaction site [polypeptide binding]; other site 350688004094 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 350688004095 substrate binding site [polypeptide binding]; other site 350688004096 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 350688004097 Zn binding sites [ion binding]; other site 350688004098 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 350688004099 dimer interface [polypeptide binding]; other site 350688004100 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 350688004101 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 350688004102 S-adenosylmethionine binding site [chemical binding]; other site 350688004103 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 350688004104 RNA methyltransferase, RsmE family; Region: TIGR00046 350688004105 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 350688004106 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 350688004107 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 350688004108 nucleotide binding site/active site [active] 350688004109 HIT family signature motif; other site 350688004110 catalytic residue [active] 350688004111 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 350688004112 Yqey-like protein; Region: YqeY; pfam09424 350688004113 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 350688004114 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 350688004115 dimer interface [polypeptide binding]; other site 350688004116 active site residues [active] 350688004117 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 350688004118 hypothetical protein; Provisional; Region: PRK13665 350688004119 YabP family; Region: YabP; cl06766 350688004120 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 350688004121 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 350688004122 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 350688004123 PhoH-like protein; Region: PhoH; pfam02562 350688004124 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 350688004125 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 350688004126 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688004127 Zn2+ binding site [ion binding]; other site 350688004128 Mg2+ binding site [ion binding]; other site 350688004129 metal-binding heat shock protein; Provisional; Region: PRK00016 350688004130 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 350688004131 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 350688004132 active site 350688004133 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 350688004134 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 350688004135 active site 350688004136 catalytic motif [active] 350688004137 Zn binding site [ion binding]; other site 350688004138 GTPase Era; Reviewed; Region: era; PRK00089 350688004139 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 350688004140 G1 box; other site 350688004141 GTP/Mg2+ binding site [chemical binding]; other site 350688004142 Switch I region; other site 350688004143 G2 box; other site 350688004144 Switch II region; other site 350688004145 G3 box; other site 350688004146 G4 box; other site 350688004147 G5 box; other site 350688004148 Recombination protein O N terminal; Region: RecO_N; pfam11967 350688004149 DNA repair protein RecO; Region: reco; TIGR00613 350688004150 Recombination protein O C terminal; Region: RecO_C; pfam02565 350688004151 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 350688004152 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 350688004153 glycyl-tRNA synthetase; Provisional; Region: PRK04173 350688004154 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 350688004155 motif 1; other site 350688004156 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 350688004157 active site 350688004158 motif 2; other site 350688004159 motif 3; other site 350688004160 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 350688004161 anticodon binding site; other site 350688004162 HTH domain; Region: HTH_11; pfam08279 350688004163 FOG: CBS domain [General function prediction only]; Region: COG0517 350688004164 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 350688004165 PEP synthetase regulatory protein; Provisional; Region: PRK05339 350688004166 pyruvate phosphate dikinase; Provisional; Region: PRK09279 350688004167 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 350688004168 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350688004169 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 350688004170 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 350688004171 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688004172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688004173 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350688004174 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350688004175 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 350688004176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688004177 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 350688004178 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688004179 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688004180 Walker A/P-loop; other site 350688004181 ATP binding site [chemical binding]; other site 350688004182 Q-loop/lid; other site 350688004183 ABC transporter signature motif; other site 350688004184 Walker B; other site 350688004185 D-loop; other site 350688004186 H-loop/switch region; other site 350688004187 FtsX-like permease family; Region: FtsX; pfam02687 350688004188 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688004189 FtsX-like permease family; Region: FtsX; pfam02687 350688004190 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 350688004191 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688004192 Predicted transcriptional regulators [Transcription]; Region: COG1695 350688004193 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350688004194 Chromate transporter; Region: Chromate_transp; pfam02417 350688004195 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 350688004196 Chromate transporter; Region: Chromate_transp; pfam02417 350688004197 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 350688004198 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 350688004199 salt bridge; other site 350688004200 non-specific DNA binding site [nucleotide binding]; other site 350688004201 sequence-specific DNA binding site [nucleotide binding]; other site 350688004202 putative oxidoreductase; Provisional; Region: PRK11445 350688004203 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350688004204 MoxR-like ATPases [General function prediction only]; Region: COG0714 350688004205 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 350688004206 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 350688004207 metal ion-dependent adhesion site (MIDAS); other site 350688004208 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 350688004209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688004210 Zn2+ binding site [ion binding]; other site 350688004211 Mg2+ binding site [ion binding]; other site 350688004212 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 350688004213 DNA primase; Validated; Region: dnaG; PRK05667 350688004214 CHC2 zinc finger; Region: zf-CHC2; pfam01807 350688004215 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 350688004216 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 350688004217 active site 350688004218 metal binding site [ion binding]; metal-binding site 350688004219 interdomain interaction site; other site 350688004220 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 350688004221 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 350688004222 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 350688004223 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 350688004224 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 350688004225 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688004226 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350688004227 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 350688004228 DNA binding residues [nucleotide binding] 350688004229 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 350688004230 Family of unknown function (DUF633); Region: DUF633; pfam04816 350688004231 Uncharacterized conserved protein [Function unknown]; Region: COG0327 350688004232 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 350688004233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 350688004234 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 350688004235 Uncharacterized conserved protein [Function unknown]; Region: COG0327 350688004236 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 350688004237 RNA/DNA hybrid binding site [nucleotide binding]; other site 350688004238 active site 350688004239 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 350688004240 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 350688004241 Int/Topo IB signature motif; other site 350688004242 Domain of unknown function (DUF955); Region: DUF955; cl01076 350688004243 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 350688004244 non-specific DNA binding site [nucleotide binding]; other site 350688004245 salt bridge; other site 350688004246 sequence-specific DNA binding site [nucleotide binding]; other site 350688004247 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 350688004248 non-specific DNA binding site [nucleotide binding]; other site 350688004249 salt bridge; other site 350688004250 sequence-specific DNA binding site [nucleotide binding]; other site 350688004251 Helix-turn-helix domain; Region: HTH_17; pfam12728 350688004252 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 350688004253 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 350688004254 putative Mg++ binding site [ion binding]; other site 350688004255 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 350688004256 nucleotide binding region [chemical binding]; other site 350688004257 ATP-binding site [chemical binding]; other site 350688004258 CHC2 zinc finger; Region: zf-CHC2; cl17510 350688004259 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 350688004260 active site 350688004261 metal binding site [ion binding]; metal-binding site 350688004262 Domain of unknown function (DUF927); Region: DUF927; pfam06048 350688004263 VRR-NUC domain; Region: VRR_NUC; pfam08774 350688004264 Homeodomain-like domain; Region: HTH_23; pfam13384 350688004265 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 350688004266 B3/4 domain; Region: B3_4; pfam03483 350688004267 Radical SAM superfamily; Region: Radical_SAM; pfam04055 350688004268 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 350688004269 FeS/SAM binding site; other site 350688004270 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 350688004271 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 350688004272 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 350688004273 Peptidase M15; Region: Peptidase_M15_3; cl01194 350688004274 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 350688004275 Erythromycin esterase; Region: Erythro_esteras; pfam05139 350688004276 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 350688004277 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 350688004278 Small T antigen; Reviewed; Region: PHA03102 350688004279 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 350688004280 DNA methylase; Region: N6_N4_Mtase; pfam01555 350688004281 DNA methylase; Region: N6_N4_Mtase; cl17433 350688004282 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 350688004283 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 350688004284 ATP binding site [chemical binding]; other site 350688004285 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 350688004286 26S proteasome subunit RPN7; Region: RPN7; pfam10602 350688004287 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 350688004288 MPN+ (JAMM) motif; other site 350688004289 Zinc-binding site [ion binding]; other site 350688004290 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 350688004291 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 350688004292 ATP binding site [chemical binding]; other site 350688004293 substrate interface [chemical binding]; other site 350688004294 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 350688004295 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 350688004296 ATP binding site [chemical binding]; other site 350688004297 substrate interface [chemical binding]; other site 350688004298 MoeZ/MoeB domain; Region: MoeZ_MoeB; pfam05237 350688004299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688004300 Walker A/P-loop; other site 350688004301 ATP binding site [chemical binding]; other site 350688004302 Q-loop/lid; other site 350688004303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688004304 ABC transporter signature motif; other site 350688004305 Walker B; other site 350688004306 D-loop; other site 350688004307 H-loop/switch region; other site 350688004308 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 350688004309 AAA domain; Region: AAA_21; pfam13304 350688004310 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 350688004311 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 350688004312 tRNA; other site 350688004313 putative tRNA binding site [nucleotide binding]; other site 350688004314 putative NADP binding site [chemical binding]; other site 350688004315 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 350688004316 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 350688004317 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 350688004318 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 350688004319 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 350688004320 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 350688004321 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 350688004322 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 350688004323 domain interfaces; other site 350688004324 active site 350688004325 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 350688004326 active site 350688004327 SAM binding site [chemical binding]; other site 350688004328 homodimer interface [polypeptide binding]; other site 350688004329 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 350688004330 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 350688004331 active site 350688004332 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 350688004333 dimer interface [polypeptide binding]; other site 350688004334 active site 350688004335 Schiff base residues; other site 350688004336 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 350688004337 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 350688004338 inhibitor-cofactor binding pocket; inhibition site 350688004339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688004340 catalytic residue [active] 350688004341 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 350688004342 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13955 350688004343 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 350688004344 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 350688004345 Carbon starvation protein CstA; Region: CstA; pfam02554 350688004346 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 350688004347 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 350688004348 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 350688004349 active site 350688004350 phosphorylation site [posttranslational modification] 350688004351 intermolecular recognition site; other site 350688004352 dimerization interface [polypeptide binding]; other site 350688004353 LytTr DNA-binding domain; Region: LytTR; pfam04397 350688004354 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 350688004355 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 350688004356 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350688004357 Histidine kinase; Region: His_kinase; pfam06580 350688004358 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 350688004359 ATP binding site [chemical binding]; other site 350688004360 Mg2+ binding site [ion binding]; other site 350688004361 G-X-G motif; other site 350688004362 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350688004363 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 350688004364 putative active site [active] 350688004365 putative CoA binding site [chemical binding]; other site 350688004366 nudix motif; other site 350688004367 metal binding site [ion binding]; metal-binding site 350688004368 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350688004369 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 350688004370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350688004371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688004372 dimer interface [polypeptide binding]; other site 350688004373 conserved gate region; other site 350688004374 putative PBP binding loops; other site 350688004375 ABC-ATPase subunit interface; other site 350688004376 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350688004377 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 350688004378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688004379 dimer interface [polypeptide binding]; other site 350688004380 conserved gate region; other site 350688004381 putative PBP binding loops; other site 350688004382 ABC-ATPase subunit interface; other site 350688004383 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 350688004384 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350688004385 Walker A/P-loop; other site 350688004386 ATP binding site [chemical binding]; other site 350688004387 Q-loop/lid; other site 350688004388 ABC transporter signature motif; other site 350688004389 Walker B; other site 350688004390 D-loop; other site 350688004391 H-loop/switch region; other site 350688004392 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350688004393 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 350688004394 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350688004395 Walker A/P-loop; other site 350688004396 ATP binding site [chemical binding]; other site 350688004397 Q-loop/lid; other site 350688004398 ABC transporter signature motif; other site 350688004399 Walker B; other site 350688004400 D-loop; other site 350688004401 H-loop/switch region; other site 350688004402 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350688004403 (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 350688004404 dimer interaction site [polypeptide binding]; other site 350688004405 substrate-binding tunnel; other site 350688004406 active site 350688004407 catalytic site [active] 350688004408 substrate binding site [chemical binding]; other site 350688004409 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350688004410 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 350688004411 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350688004412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688004413 dimer interface [polypeptide binding]; other site 350688004414 conserved gate region; other site 350688004415 putative PBP binding loops; other site 350688004416 ABC-ATPase subunit interface; other site 350688004417 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350688004418 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 350688004419 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688004420 putative PBP binding loops; other site 350688004421 dimer interface [polypeptide binding]; other site 350688004422 ABC-ATPase subunit interface; other site 350688004423 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 350688004424 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350688004425 Walker A/P-loop; other site 350688004426 ATP binding site [chemical binding]; other site 350688004427 Q-loop/lid; other site 350688004428 ABC transporter signature motif; other site 350688004429 Walker B; other site 350688004430 D-loop; other site 350688004431 H-loop/switch region; other site 350688004432 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350688004433 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 350688004434 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350688004435 Walker A/P-loop; other site 350688004436 ATP binding site [chemical binding]; other site 350688004437 Q-loop/lid; other site 350688004438 ABC transporter signature motif; other site 350688004439 Walker B; other site 350688004440 D-loop; other site 350688004441 H-loop/switch region; other site 350688004442 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350688004443 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 350688004444 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688004445 active site 350688004446 Restriction endonuclease; Region: Mrr_cat; pfam04471 350688004447 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 350688004448 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 350688004449 Tetramer interface [polypeptide binding]; other site 350688004450 active site 350688004451 FMN-binding site [chemical binding]; other site 350688004452 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 350688004453 active site 350688004454 dimer interface [polypeptide binding]; other site 350688004455 metal binding site [ion binding]; metal-binding site 350688004456 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 350688004457 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 350688004458 hinge; other site 350688004459 active site 350688004460 Propanediol utilization protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduL; COG4869 350688004461 Propanediol utilisation protein PduL; Region: PduL; pfam06130 350688004462 Propanediol utilisation protein PduL; Region: PduL; pfam06130 350688004463 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 350688004464 intersubunit interface [polypeptide binding]; other site 350688004465 active site 350688004466 catalytic residue [active] 350688004467 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 350688004468 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 350688004469 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350688004470 GTP-binding protein YchF; Reviewed; Region: PRK09601 350688004471 YchF GTPase; Region: YchF; cd01900 350688004472 G1 box; other site 350688004473 GTP/Mg2+ binding site [chemical binding]; other site 350688004474 Switch I region; other site 350688004475 G2 box; other site 350688004476 Switch II region; other site 350688004477 G3 box; other site 350688004478 G4 box; other site 350688004479 G5 box; other site 350688004480 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 350688004481 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 350688004482 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 350688004483 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 350688004484 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 350688004485 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 350688004486 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 350688004487 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 350688004488 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 350688004489 cell division protein MraZ; Reviewed; Region: PRK00326 350688004490 MraZ protein; Region: MraZ; pfam02381 350688004491 MraZ protein; Region: MraZ; pfam02381 350688004492 MraW methylase family; Region: Methyltransf_5; pfam01795 350688004493 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 350688004494 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 350688004495 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350688004496 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350688004497 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 350688004498 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 350688004499 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 350688004500 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350688004501 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688004502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688004503 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 350688004504 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350688004505 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688004506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688004507 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 350688004508 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 350688004509 Mg++ binding site [ion binding]; other site 350688004510 putative catalytic motif [active] 350688004511 putative substrate binding site [chemical binding]; other site 350688004512 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 350688004513 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688004514 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688004515 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 350688004516 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 350688004517 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 350688004518 active site 350688004519 homodimer interface [polypeptide binding]; other site 350688004520 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 350688004521 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 350688004522 hinge; other site 350688004523 active site 350688004524 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 350688004525 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 350688004526 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350688004527 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350688004528 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 350688004529 cell division protein FtsZ; Validated; Region: PRK09330 350688004530 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 350688004531 nucleotide binding site [chemical binding]; other site 350688004532 SulA interaction site; other site 350688004533 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 350688004534 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 350688004535 sporulation sigma factor SigE; Reviewed; Region: PRK08301 350688004536 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688004537 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 350688004538 DNA binding residues [nucleotide binding] 350688004539 sporulation sigma factor SigG; Reviewed; Region: PRK08215 350688004540 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688004541 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350688004542 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 350688004543 DNA binding residues [nucleotide binding] 350688004544 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 350688004545 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 350688004546 ATP cone domain; Region: ATP-cone; pfam03477 350688004547 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 350688004548 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 350688004549 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688004550 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 350688004551 active site 350688004552 phosphorylation site [posttranslational modification] 350688004553 intermolecular recognition site; other site 350688004554 dimerization interface [polypeptide binding]; other site 350688004555 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 350688004556 DNA binding site [nucleotide binding] 350688004557 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 350688004558 dimerization interface [polypeptide binding]; other site 350688004559 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 350688004560 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 350688004561 putative active site [active] 350688004562 heme pocket [chemical binding]; other site 350688004563 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 350688004564 dimer interface [polypeptide binding]; other site 350688004565 phosphorylation site [posttranslational modification] 350688004566 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 350688004567 ATP binding site [chemical binding]; other site 350688004568 Mg2+ binding site [ion binding]; other site 350688004569 G-X-G motif; other site 350688004570 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 350688004571 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 350688004572 stage II sporulation protein P; Region: spore_II_P; TIGR02867 350688004573 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 350688004574 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 350688004575 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 350688004576 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 350688004577 Protein of unknown function (DUF512); Region: DUF512; pfam04459 350688004578 GTP-binding protein Der; Reviewed; Region: PRK00093 350688004579 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 350688004580 G1 box; other site 350688004581 GTP/Mg2+ binding site [chemical binding]; other site 350688004582 Switch I region; other site 350688004583 G2 box; other site 350688004584 Switch II region; other site 350688004585 G3 box; other site 350688004586 G4 box; other site 350688004587 G5 box; other site 350688004588 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 350688004589 G1 box; other site 350688004590 GTP/Mg2+ binding site [chemical binding]; other site 350688004591 Switch I region; other site 350688004592 G2 box; other site 350688004593 G3 box; other site 350688004594 Switch II region; other site 350688004595 G4 box; other site 350688004596 G5 box; other site 350688004597 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 350688004598 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 350688004599 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 350688004600 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 350688004601 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 350688004602 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 350688004603 TPR repeat; Region: TPR_11; pfam13414 350688004604 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 350688004605 binding surface 350688004606 TPR motif; other site 350688004607 TPR repeat; Region: TPR_11; pfam13414 350688004608 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 350688004609 binding surface 350688004610 TPR motif; other site 350688004611 TPR repeat; Region: TPR_11; pfam13414 350688004612 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 350688004613 HlyD family secretion protein; Region: HlyD_2; pfam12700 350688004614 putative membrane fusion protein; Region: TIGR02828 350688004615 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 350688004616 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350688004617 catalytic residue [active] 350688004618 Protein of unknown function (DUF552); Region: DUF552; pfam04472 350688004619 YGGT family; Region: YGGT; pfam02325 350688004620 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 350688004621 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 350688004622 RNA binding surface [nucleotide binding]; other site 350688004623 DivIVA protein; Region: DivIVA; pfam05103 350688004624 DivIVA domain; Region: DivI1A_domain; TIGR03544 350688004625 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 350688004626 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 350688004627 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13398 350688004628 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 350688004629 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 350688004630 lipoprotein signal peptidase; Provisional; Region: PRK14791 350688004631 lipoprotein signal peptidase; Provisional; Region: PRK14787 350688004632 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 350688004633 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 350688004634 RNA binding surface [nucleotide binding]; other site 350688004635 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 350688004636 active site 350688004637 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 350688004638 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688004639 active site 350688004640 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 350688004641 Domain of unknown function (DUF814); Region: DUF814; pfam05670 350688004642 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 350688004643 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 350688004644 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 350688004645 hypothetical protein; Provisional; Region: PRK11820 350688004646 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 350688004647 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 350688004648 hypothetical protein; Provisional; Region: PRK04323 350688004649 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 350688004650 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 350688004651 catalytic site [active] 350688004652 G-X2-G-X-G-K; other site 350688004653 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 350688004654 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 350688004655 Flavoprotein; Region: Flavoprotein; pfam02441 350688004656 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 350688004657 primosomal protein N' Region: priA; TIGR00595 350688004658 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 350688004659 ATP binding site [chemical binding]; other site 350688004660 putative Mg++ binding site [ion binding]; other site 350688004661 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 350688004662 nucleotide binding region [chemical binding]; other site 350688004663 ATP-binding site [chemical binding]; other site 350688004664 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 350688004665 active site 350688004666 catalytic residues [active] 350688004667 metal binding site [ion binding]; metal-binding site 350688004668 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 350688004669 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 350688004670 putative active site [active] 350688004671 substrate binding site [chemical binding]; other site 350688004672 putative cosubstrate binding site; other site 350688004673 catalytic site [active] 350688004674 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 350688004675 substrate binding site [chemical binding]; other site 350688004676 Protein of unknown function DUF116; Region: DUF116; pfam01976 350688004677 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 350688004678 16S rRNA methyltransferase B; Provisional; Region: PRK14902 350688004679 NusB family; Region: NusB; pfam01029 350688004680 putative RNA binding site [nucleotide binding]; other site 350688004681 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 350688004682 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 350688004683 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 350688004684 FeS/SAM binding site; other site 350688004685 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 350688004686 active site 350688004687 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 350688004688 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350688004689 active site 350688004690 ATP binding site [chemical binding]; other site 350688004691 substrate binding site [chemical binding]; other site 350688004692 activation loop (A-loop); other site 350688004693 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 350688004694 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 350688004695 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 350688004696 GTPase RsgA; Reviewed; Region: PRK00098 350688004697 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 350688004698 RNA binding site [nucleotide binding]; other site 350688004699 homodimer interface [polypeptide binding]; other site 350688004700 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 350688004701 GTPase/Zn-binding domain interface [polypeptide binding]; other site 350688004702 GTP/Mg2+ binding site [chemical binding]; other site 350688004703 G4 box; other site 350688004704 G5 box; other site 350688004705 G1 box; other site 350688004706 Switch I region; other site 350688004707 G2 box; other site 350688004708 G3 box; other site 350688004709 Switch II region; other site 350688004710 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 350688004711 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 350688004712 substrate binding site [chemical binding]; other site 350688004713 hexamer interface [polypeptide binding]; other site 350688004714 metal binding site [ion binding]; metal-binding site 350688004715 Thiamine pyrophosphokinase; Region: TPK; cd07995 350688004716 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 350688004717 active site 350688004718 dimerization interface [polypeptide binding]; other site 350688004719 thiamine binding site [chemical binding]; other site 350688004720 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 350688004721 Asp23 family; Region: Asp23; pfam03780 350688004722 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 350688004723 DAK2 domain; Region: Dak2; pfam02734 350688004724 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 350688004725 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 350688004726 ssDNA binding site; other site 350688004727 generic binding surface II; other site 350688004728 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 350688004729 ATP binding site [chemical binding]; other site 350688004730 putative Mg++ binding site [ion binding]; other site 350688004731 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 350688004732 nucleotide binding region [chemical binding]; other site 350688004733 ATP-binding site [chemical binding]; other site 350688004734 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 350688004735 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 350688004736 S-adenosylmethionine binding site [chemical binding]; other site 350688004737 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 350688004738 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 350688004739 active site 350688004740 (T/H)XGH motif; other site 350688004741 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 350688004742 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 350688004743 Nucleoside recognition; Region: Gate; pfam07670 350688004744 hypothetical protein; Provisional; Region: PRK13670 350688004745 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 350688004746 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 350688004747 propionate/acetate kinase; Provisional; Region: PRK12379 350688004748 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 350688004749 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 350688004750 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 350688004751 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 350688004752 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 350688004753 active site 2 [active] 350688004754 active site 1 [active] 350688004755 putative phosphate acyltransferase; Provisional; Region: PRK05331 350688004756 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 350688004757 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 350688004758 dimer interface [polypeptide binding]; other site 350688004759 active site 350688004760 CoA binding pocket [chemical binding]; other site 350688004761 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 350688004762 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 350688004763 FMN binding site [chemical binding]; other site 350688004764 substrate binding site [chemical binding]; other site 350688004765 putative catalytic residue [active] 350688004766 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350688004767 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350688004768 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350688004769 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 350688004770 NAD(P) binding site [chemical binding]; other site 350688004771 homotetramer interface [polypeptide binding]; other site 350688004772 homodimer interface [polypeptide binding]; other site 350688004773 active site 350688004774 acyl carrier protein; Provisional; Region: acpP; PRK00982 350688004775 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 350688004776 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 350688004777 dimer interface [polypeptide binding]; other site 350688004778 active site 350688004779 ribonuclease III; Reviewed; Region: rnc; PRK00102 350688004780 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 350688004781 dimerization interface [polypeptide binding]; other site 350688004782 active site 350688004783 metal binding site [ion binding]; metal-binding site 350688004784 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 350688004785 dsRNA binding site [nucleotide binding]; other site 350688004786 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 350688004787 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 350688004788 FeS/SAM binding site; other site 350688004789 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 350688004790 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 350688004791 Walker A/P-loop; other site 350688004792 ATP binding site [chemical binding]; other site 350688004793 Q-loop/lid; other site 350688004794 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 350688004795 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 350688004796 ABC transporter signature motif; other site 350688004797 Walker B; other site 350688004798 D-loop; other site 350688004799 H-loop/switch region; other site 350688004800 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 350688004801 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 350688004802 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 350688004803 P loop; other site 350688004804 GTP binding site [chemical binding]; other site 350688004805 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 350688004806 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 350688004807 DNA binding residues [nucleotide binding] 350688004808 signal recognition particle protein; Provisional; Region: PRK10867 350688004809 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 350688004810 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 350688004811 P loop; other site 350688004812 GTP binding site [chemical binding]; other site 350688004813 Signal peptide binding domain; Region: SRP_SPB; pfam02978 350688004814 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 350688004815 hypothetical protein; Provisional; Region: PRK00468 350688004816 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 350688004817 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 350688004818 RimM N-terminal domain; Region: RimM; pfam01782 350688004819 PRC-barrel domain; Region: PRC; pfam05239 350688004820 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 350688004821 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 350688004822 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 350688004823 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 350688004824 GTP/Mg2+ binding site [chemical binding]; other site 350688004825 G4 box; other site 350688004826 G5 box; other site 350688004827 G1 box; other site 350688004828 Switch I region; other site 350688004829 G2 box; other site 350688004830 G3 box; other site 350688004831 Switch II region; other site 350688004832 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 350688004833 RNA/DNA hybrid binding site [nucleotide binding]; other site 350688004834 active site 350688004835 hypothetical protein; Reviewed; Region: PRK12497 350688004836 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 350688004837 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 350688004838 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 350688004839 Walker A motif; other site 350688004840 ATP binding site [chemical binding]; other site 350688004841 Walker B motif; other site 350688004842 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 350688004843 DNA protecting protein DprA; Region: dprA; TIGR00732 350688004844 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 350688004845 RNA polymerase Rpc34 subunit; Region: RNA_pol_Rpc34; cl02127 350688004846 DNA topoisomerase I; Validated; Region: PRK05582 350688004847 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 350688004848 active site 350688004849 interdomain interaction site; other site 350688004850 putative metal-binding site [ion binding]; other site 350688004851 nucleotide binding site [chemical binding]; other site 350688004852 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 350688004853 domain I; other site 350688004854 DNA binding groove [nucleotide binding] 350688004855 phosphate binding site [ion binding]; other site 350688004856 domain II; other site 350688004857 domain III; other site 350688004858 nucleotide binding site [chemical binding]; other site 350688004859 catalytic site [active] 350688004860 domain IV; other site 350688004861 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 350688004862 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 350688004863 transcriptional repressor CodY; Validated; Region: PRK04158 350688004864 CodY GAF-like domain; Region: CodY; pfam06018 350688004865 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 350688004866 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 350688004867 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 350688004868 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 350688004869 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 350688004870 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 350688004871 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 350688004872 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 350688004873 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 350688004874 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 350688004875 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 350688004876 FliG C-terminal domain; Region: FliG_C; pfam01706 350688004877 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 350688004878 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 350688004879 Flagellar assembly protein FliH; Region: FliH; pfam02108 350688004880 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 350688004881 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350688004882 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 350688004883 Walker A motif/ATP binding site; other site 350688004884 Walker B motif; other site 350688004885 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 350688004886 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 350688004887 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 350688004888 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 350688004889 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 350688004890 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 350688004891 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 350688004892 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 350688004893 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 350688004894 Flagellar protein (FlbD); Region: FlbD; pfam06289 350688004895 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 350688004896 flagellar motor protein MotP; Reviewed; Region: PRK06926 350688004897 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 350688004898 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 350688004899 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 350688004900 ligand binding site [chemical binding]; other site 350688004901 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 350688004902 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 350688004903 flagellar motor switch protein; Validated; Region: PRK08119 350688004904 CheC-like family; Region: CheC; pfam04509 350688004905 CheC-like family; Region: CheC; pfam04509 350688004906 flagellar motor switch protein FliN; Region: fliN; TIGR02480 350688004907 Response regulator receiver domain; Region: Response_reg; pfam00072 350688004908 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 350688004909 active site 350688004910 phosphorylation site [posttranslational modification] 350688004911 intermolecular recognition site; other site 350688004912 dimerization interface [polypeptide binding]; other site 350688004913 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 350688004914 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 350688004915 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 350688004916 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 350688004917 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 350688004918 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 350688004919 FHIPEP family; Region: FHIPEP; pfam00771 350688004920 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 350688004921 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 350688004922 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350688004923 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 350688004924 P-loop; other site 350688004925 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 350688004926 Flagellar protein YcgR; Region: YcgR_2; pfam12945 350688004927 PilZ domain; Region: PilZ; pfam07238 350688004928 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 350688004929 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 350688004930 active site 350688004931 phosphorylation site [posttranslational modification] 350688004932 intermolecular recognition site; other site 350688004933 dimerization interface [polypeptide binding]; other site 350688004934 CheB methylesterase; Region: CheB_methylest; pfam01339 350688004935 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 350688004936 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 350688004937 putative binding surface; other site 350688004938 active site 350688004939 P2 response regulator binding domain; Region: P2; pfam07194 350688004940 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 350688004941 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 350688004942 ATP binding site [chemical binding]; other site 350688004943 Mg2+ binding site [ion binding]; other site 350688004944 G-X-G motif; other site 350688004945 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 350688004946 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 350688004947 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 350688004948 Chemotaxis phosphatase CheX; Region: CheX; cl15816 350688004949 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 350688004950 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 350688004951 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688004952 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350688004953 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 350688004954 DNA binding residues [nucleotide binding] 350688004955 Protein of unknown function (DUF342); Region: DUF342; pfam03961 350688004956 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 350688004957 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 350688004958 rRNA interaction site [nucleotide binding]; other site 350688004959 S8 interaction site; other site 350688004960 putative laminin-1 binding site; other site 350688004961 elongation factor Ts; Reviewed; Region: tsf; PRK12332 350688004962 UBA/TS-N domain; Region: UBA; pfam00627 350688004963 Elongation factor TS; Region: EF_TS; pfam00889 350688004964 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 350688004965 putative nucleotide binding site [chemical binding]; other site 350688004966 uridine monophosphate binding site [chemical binding]; other site 350688004967 homohexameric interface [polypeptide binding]; other site 350688004968 ribosome recycling factor; Reviewed; Region: frr; PRK00083 350688004969 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 350688004970 hinge region; other site 350688004971 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 350688004972 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 350688004973 catalytic residue [active] 350688004974 putative FPP diphosphate binding site; other site 350688004975 putative FPP binding hydrophobic cleft; other site 350688004976 dimer interface [polypeptide binding]; other site 350688004977 putative IPP diphosphate binding site; other site 350688004978 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 350688004979 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 350688004980 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 350688004981 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 350688004982 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 350688004983 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 350688004984 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 350688004985 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 350688004986 active site 350688004987 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 350688004988 protein binding site [polypeptide binding]; other site 350688004989 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 350688004990 putative substrate binding region [chemical binding]; other site 350688004991 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 350688004992 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 350688004993 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 350688004994 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350688004995 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 350688004996 Ligand binding site; other site 350688004997 Putative Catalytic site; other site 350688004998 DXD motif; other site 350688004999 DNA polymerase III PolC; Validated; Region: polC; PRK00448 350688005000 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 350688005001 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 350688005002 generic binding surface II; other site 350688005003 generic binding surface I; other site 350688005004 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 350688005005 active site 350688005006 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 350688005007 active site 350688005008 catalytic site [active] 350688005009 substrate binding site [chemical binding]; other site 350688005010 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 350688005011 ribosome maturation protein RimP; Reviewed; Region: PRK00092 350688005012 Sm and related proteins; Region: Sm_like; cl00259 350688005013 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 350688005014 putative oligomer interface [polypeptide binding]; other site 350688005015 putative RNA binding site [nucleotide binding]; other site 350688005016 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 350688005017 NusA N-terminal domain; Region: NusA_N; pfam08529 350688005018 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 350688005019 RNA binding site [nucleotide binding]; other site 350688005020 homodimer interface [polypeptide binding]; other site 350688005021 NusA-like KH domain; Region: KH_5; pfam13184 350688005022 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 350688005023 G-X-X-G motif; other site 350688005024 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 350688005025 putative RNA binding cleft [nucleotide binding]; other site 350688005026 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 350688005027 translation initiation factor IF-2; Validated; Region: infB; PRK05306 350688005028 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350688005029 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350688005030 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 350688005031 G1 box; other site 350688005032 putative GEF interaction site [polypeptide binding]; other site 350688005033 GTP/Mg2+ binding site [chemical binding]; other site 350688005034 Switch I region; other site 350688005035 G2 box; other site 350688005036 G3 box; other site 350688005037 Switch II region; other site 350688005038 G4 box; other site 350688005039 G5 box; other site 350688005040 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 350688005041 Translation-initiation factor 2; Region: IF-2; pfam11987 350688005042 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 350688005043 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 350688005044 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 350688005045 DHH family; Region: DHH; pfam01368 350688005046 DHHA1 domain; Region: DHHA1; pfam02272 350688005047 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 350688005048 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 350688005049 RNA binding site [nucleotide binding]; other site 350688005050 active site 350688005051 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 350688005052 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 350688005053 active site 350688005054 Riboflavin kinase; Region: Flavokinase; pfam01687 350688005055 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 350688005056 16S/18S rRNA binding site [nucleotide binding]; other site 350688005057 S13e-L30e interaction site [polypeptide binding]; other site 350688005058 25S rRNA binding site [nucleotide binding]; other site 350688005059 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 350688005060 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 350688005061 RNase E interface [polypeptide binding]; other site 350688005062 trimer interface [polypeptide binding]; other site 350688005063 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 350688005064 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 350688005065 RNase E interface [polypeptide binding]; other site 350688005066 trimer interface [polypeptide binding]; other site 350688005067 active site 350688005068 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 350688005069 putative nucleic acid binding region [nucleotide binding]; other site 350688005070 G-X-X-G motif; other site 350688005071 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 350688005072 RNA binding site [nucleotide binding]; other site 350688005073 domain interface; other site 350688005074 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 350688005075 NodB motif; other site 350688005076 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 350688005077 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 350688005078 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 350688005079 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 350688005080 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 350688005081 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 350688005082 active site 350688005083 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350688005084 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688005085 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 350688005086 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 350688005087 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 350688005088 active site residue [active] 350688005089 AAA domain; Region: AAA_17; pfam13207 350688005090 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 350688005091 recombinase A; Provisional; Region: recA; PRK09354 350688005092 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 350688005093 hexamer interface [polypeptide binding]; other site 350688005094 Walker A motif; other site 350688005095 ATP binding site [chemical binding]; other site 350688005096 Walker B motif; other site 350688005097 phosphodiesterase; Provisional; Region: PRK12704 350688005098 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688005099 Zn2+ binding site [ion binding]; other site 350688005100 Mg2+ binding site [ion binding]; other site 350688005101 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 350688005102 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 350688005103 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 350688005104 active site 350688005105 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 350688005106 aspartate aminotransferase; Provisional; Region: PRK05764 350688005107 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 350688005108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688005109 homodimer interface [polypeptide binding]; other site 350688005110 catalytic residue [active] 350688005111 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 350688005112 active site 350688005113 Glyco_18 domain; Region: Glyco_18; smart00636 350688005114 S-layer homology domain; Region: SLH; pfam00395 350688005115 S-layer homology domain; Region: SLH; pfam00395 350688005116 S-layer homology domain; Region: SLH; pfam00395 350688005117 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350688005118 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 350688005119 active site 350688005120 DNA binding site [nucleotide binding] 350688005121 Int/Topo IB signature motif; other site 350688005122 LexA repressor; Validated; Region: PRK00215 350688005123 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 350688005124 putative DNA binding site [nucleotide binding]; other site 350688005125 putative Zn2+ binding site [ion binding]; other site 350688005126 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 350688005127 Catalytic site [active] 350688005128 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 350688005129 Aluminium resistance protein; Region: Alum_res; pfam06838 350688005130 bacterial Hfq-like; Region: Hfq; cd01716 350688005131 hexamer interface [polypeptide binding]; other site 350688005132 Sm1 motif; other site 350688005133 RNA binding site [nucleotide binding]; other site 350688005134 Sm2 motif; other site 350688005135 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 350688005136 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 350688005137 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 350688005138 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 350688005139 ATP binding site [chemical binding]; other site 350688005140 Mg2+ binding site [ion binding]; other site 350688005141 G-X-G motif; other site 350688005142 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 350688005143 ATP binding site [chemical binding]; other site 350688005144 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 350688005145 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 350688005146 MutS domain I; Region: MutS_I; pfam01624 350688005147 MutS domain II; Region: MutS_II; pfam05188 350688005148 MutS domain III; Region: MutS_III; pfam05192 350688005149 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 350688005150 Walker A/P-loop; other site 350688005151 ATP binding site [chemical binding]; other site 350688005152 Q-loop/lid; other site 350688005153 ABC transporter signature motif; other site 350688005154 Walker B; other site 350688005155 D-loop; other site 350688005156 H-loop/switch region; other site 350688005157 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 350688005158 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 350688005159 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 350688005160 FeS/SAM binding site; other site 350688005161 TRAM domain; Region: TRAM; pfam01938 350688005162 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350688005163 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 350688005164 DNA binding residues [nucleotide binding] 350688005165 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 350688005166 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 350688005167 oligomer interface [polypeptide binding]; other site 350688005168 active site 350688005169 metal binding site [ion binding]; metal-binding site 350688005170 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 350688005171 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 350688005172 oligomer interface [polypeptide binding]; other site 350688005173 active site 350688005174 metal binding site [ion binding]; metal-binding site 350688005175 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 350688005176 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 350688005177 oligomer interface [polypeptide binding]; other site 350688005178 active site 350688005179 metal binding site [ion binding]; metal-binding site 350688005180 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 350688005181 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 350688005182 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 350688005183 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 350688005184 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 350688005185 RNA binding site [nucleotide binding]; other site 350688005186 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 350688005187 RNA binding site [nucleotide binding]; other site 350688005188 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 350688005189 RNA binding site [nucleotide binding]; other site 350688005190 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 350688005191 RNA binding site [nucleotide binding]; other site 350688005192 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional; Region: PRK12360 350688005193 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 350688005194 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350688005195 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350688005196 putative acyl-acceptor binding pocket; other site 350688005197 cytidylate kinase; Provisional; Region: cmk; PRK00023 350688005198 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 350688005199 CMP-binding site; other site 350688005200 The sites determining sugar specificity; other site 350688005201 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 350688005202 homotrimer interaction site [polypeptide binding]; other site 350688005203 active site 350688005204 flavoprotein, HI0933 family; Region: TIGR00275 350688005205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688005206 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 350688005207 catalytic core [active] 350688005208 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 350688005209 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 350688005210 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 350688005211 putative active site [active] 350688005212 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 350688005213 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 350688005214 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 350688005215 TPP-binding site [chemical binding]; other site 350688005216 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 350688005217 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 350688005218 dimer interface [polypeptide binding]; other site 350688005219 PYR/PP interface [polypeptide binding]; other site 350688005220 TPP binding site [chemical binding]; other site 350688005221 substrate binding site [chemical binding]; other site 350688005222 Ferredoxin [Energy production and conversion]; Region: COG1146 350688005223 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350688005224 oxaloacetate decarboxylase; Provisional; Region: PRK12331 350688005225 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 350688005226 active site 350688005227 catalytic residues [active] 350688005228 metal binding site [ion binding]; metal-binding site 350688005229 homodimer binding site [polypeptide binding]; other site 350688005230 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 350688005231 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 350688005232 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 350688005233 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 350688005234 RNA binding surface [nucleotide binding]; other site 350688005235 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 350688005236 active site 350688005237 Glucose inhibited division protein A; Region: GIDA; pfam01134 350688005238 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 350688005239 hypothetical protein; Provisional; Region: PRK05802 350688005240 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 350688005241 FAD binding pocket [chemical binding]; other site 350688005242 FAD binding motif [chemical binding]; other site 350688005243 phosphate binding motif [ion binding]; other site 350688005244 beta-alpha-beta structure motif; other site 350688005245 NAD binding pocket [chemical binding]; other site 350688005246 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 350688005247 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350688005248 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 350688005249 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 350688005250 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 350688005251 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 350688005252 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 350688005253 non-specific DNA binding site [nucleotide binding]; other site 350688005254 salt bridge; other site 350688005255 sequence-specific DNA binding site [nucleotide binding]; other site 350688005256 Cupin domain; Region: Cupin_2; pfam07883 350688005257 agmatinase; Region: agmatinase; TIGR01230 350688005258 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 350688005259 putative active site [active] 350688005260 Mn binding site [ion binding]; other site 350688005261 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 350688005262 ScpA/B protein; Region: ScpA_ScpB; cl00598 350688005263 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350688005264 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350688005265 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 350688005266 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 350688005267 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 350688005268 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 350688005269 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 350688005270 purine nucleoside phosphorylase; Provisional; Region: PRK08202 350688005271 purine nucleoside phosphorylase; Provisional; Region: PRK08202 350688005272 phosphopentomutase; Provisional; Region: PRK05362 350688005273 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 350688005274 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 350688005275 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 350688005276 active site 350688005277 Int/Topo IB signature motif; other site 350688005278 Integral membrane protein DUF95; Region: DUF95; cl00572 350688005279 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 350688005280 dimer interface [polypeptide binding]; other site 350688005281 ADP-ribose binding site [chemical binding]; other site 350688005282 active site 350688005283 nudix motif; other site 350688005284 metal binding site [ion binding]; metal-binding site 350688005285 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 350688005286 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 350688005287 Mg++ binding site [ion binding]; other site 350688005288 putative catalytic motif [active] 350688005289 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 350688005290 Ligand binding site; other site 350688005291 Putative Catalytic site; other site 350688005292 DXD motif; other site 350688005293 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 350688005294 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 350688005295 Thiamine pyrophosphokinase; Region: TPK; cl08415 350688005296 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 350688005297 RecX family; Region: RecX; cl00936 350688005298 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 350688005299 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 350688005300 active site 350688005301 phosphorylation site [posttranslational modification] 350688005302 intermolecular recognition site; other site 350688005303 dimerization interface [polypeptide binding]; other site 350688005304 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 350688005305 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 350688005306 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 350688005307 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 350688005308 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 350688005309 Walker A/P-loop; other site 350688005310 ATP binding site [chemical binding]; other site 350688005311 Q-loop/lid; other site 350688005312 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 350688005313 ABC transporter signature motif; other site 350688005314 Walker B; other site 350688005315 D-loop; other site 350688005316 H-loop/switch region; other site 350688005317 arginine repressor; Provisional; Region: argR; PRK00441 350688005318 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 350688005319 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 350688005320 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 350688005321 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 350688005322 RNA binding surface [nucleotide binding]; other site 350688005323 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 350688005324 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 350688005325 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 350688005326 TPP-binding site; other site 350688005327 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 350688005328 PYR/PP interface [polypeptide binding]; other site 350688005329 dimer interface [polypeptide binding]; other site 350688005330 TPP binding site [chemical binding]; other site 350688005331 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350688005332 Divergent PAP2 family; Region: DUF212; pfam02681 350688005333 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350688005334 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350688005335 substrate binding pocket [chemical binding]; other site 350688005336 chain length determination region; other site 350688005337 substrate-Mg2+ binding site; other site 350688005338 catalytic residues [active] 350688005339 aspartate-rich region 1; other site 350688005340 active site lid residues [active] 350688005341 aspartate-rich region 2; other site 350688005342 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 350688005343 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 350688005344 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 350688005345 generic binding surface II; other site 350688005346 generic binding surface I; other site 350688005347 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 350688005348 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 350688005349 putative RNA binding site [nucleotide binding]; other site 350688005350 Asp23 family; Region: Asp23; pfam03780 350688005351 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 350688005352 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 350688005353 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 350688005354 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 350688005355 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 350688005356 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 350688005357 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; pfam09548 350688005358 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 350688005359 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 350688005360 Walker A motif; other site 350688005361 ATP binding site [chemical binding]; other site 350688005362 elongation factor P; Validated; Region: PRK00529 350688005363 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 350688005364 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 350688005365 RNA binding site [nucleotide binding]; other site 350688005366 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 350688005367 RNA binding site [nucleotide binding]; other site 350688005368 shikimate kinase; Reviewed; Region: aroK; PRK00131 350688005369 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 350688005370 ADP binding site [chemical binding]; other site 350688005371 magnesium binding site [ion binding]; other site 350688005372 putative shikimate binding site; other site 350688005373 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 350688005374 S-layer homology domain; Region: SLH; pfam00395 350688005375 S-layer homology domain; Region: SLH; pfam00395 350688005376 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688005377 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 350688005378 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 350688005379 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 350688005380 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 350688005381 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 350688005382 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 350688005383 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 350688005384 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 350688005385 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 350688005386 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 350688005387 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 350688005388 Walker A motif; other site 350688005389 ATP binding site [chemical binding]; other site 350688005390 Walker B motif; other site 350688005391 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 350688005392 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 350688005393 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 350688005394 Walker A motif; other site 350688005395 ATP binding site [chemical binding]; other site 350688005396 Walker B motif; other site 350688005397 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 350688005398 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 350688005399 active site 350688005400 motif I; other site 350688005401 motif II; other site 350688005402 flagellar operon protein TIGR03826; Region: YvyF 350688005403 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 350688005404 DNA binding residues [nucleotide binding] 350688005405 Coat F domain; Region: Coat_F; pfam07875 350688005406 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 350688005407 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 350688005408 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350688005409 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 350688005410 catalytic residues [active] 350688005411 catalytic nucleophile [active] 350688005412 Recombinase; Region: Recombinase; pfam07508 350688005413 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 350688005414 sporulation sigma factor SigK; Reviewed; Region: PRK05803 350688005415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688005416 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 350688005417 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350688005418 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350688005419 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 350688005420 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 350688005421 ATP-binding site [chemical binding]; other site 350688005422 Sugar specificity; other site 350688005423 Pyrimidine base specificity; other site 350688005424 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 350688005425 Peptidase family U32; Region: Peptidase_U32; pfam01136 350688005426 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350688005427 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 350688005428 S-adenosylmethionine binding site [chemical binding]; other site 350688005429 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 350688005430 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 350688005431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688005432 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 350688005433 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350688005434 metal binding site 2 [ion binding]; metal-binding site 350688005435 putative DNA binding helix; other site 350688005436 metal binding site 1 [ion binding]; metal-binding site 350688005437 dimer interface [polypeptide binding]; other site 350688005438 structural Zn2+ binding site [ion binding]; other site 350688005439 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 350688005440 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 350688005441 hypothetical protein; Provisional; Region: PRK05473 350688005442 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 350688005443 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 350688005444 motif 1; other site 350688005445 active site 350688005446 motif 2; other site 350688005447 motif 3; other site 350688005448 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 350688005449 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350688005450 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350688005451 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 350688005452 PRC-barrel domain; Region: PRC; pfam05239 350688005453 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 350688005454 trimerization site [polypeptide binding]; other site 350688005455 active site 350688005456 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 350688005457 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 350688005458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688005459 catalytic residue [active] 350688005460 Predicted transcriptional regulator [Transcription]; Region: COG1959 350688005461 Transcriptional regulator; Region: Rrf2; cl17282 350688005462 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 350688005463 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 350688005464 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 350688005465 heat shock protein 90; Provisional; Region: PRK05218 350688005466 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 350688005467 ATP binding site [chemical binding]; other site 350688005468 Mg2+ binding site [ion binding]; other site 350688005469 G-X-G motif; other site 350688005470 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 350688005471 non-specific DNA binding site [nucleotide binding]; other site 350688005472 salt bridge; other site 350688005473 sequence-specific DNA binding site [nucleotide binding]; other site 350688005474 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 350688005475 Catalytic site [active] 350688005476 DNA polymerase IV; Validated; Region: PRK01810 350688005477 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350688005478 active site 350688005479 DNA binding site [nucleotide binding] 350688005480 GTPase RsgA; Reviewed; Region: PRK01889 350688005481 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 350688005482 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 350688005483 GTPase/Zn-binding domain interface [polypeptide binding]; other site 350688005484 GTP/Mg2+ binding site [chemical binding]; other site 350688005485 G4 box; other site 350688005486 G5 box; other site 350688005487 G1 box; other site 350688005488 Switch I region; other site 350688005489 G2 box; other site 350688005490 G3 box; other site 350688005491 Switch II region; other site 350688005492 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 350688005493 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 350688005494 dimerization interface 3.5A [polypeptide binding]; other site 350688005495 active site 350688005496 ribonuclease Z; Reviewed; Region: PRK00055 350688005497 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 350688005498 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 350688005499 GIY-YIG motif/motif A; other site 350688005500 recombination factor protein RarA; Reviewed; Region: PRK13342 350688005501 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 350688005502 Walker A motif; other site 350688005503 ATP binding site [chemical binding]; other site 350688005504 Walker B motif; other site 350688005505 arginine finger; other site 350688005506 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 350688005507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 350688005508 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 350688005509 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 350688005510 dimer interface [polypeptide binding]; other site 350688005511 active site 350688005512 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350688005513 substrate binding site [chemical binding]; other site 350688005514 catalytic residue [active] 350688005515 MutL protein; Region: MutL; pfam13941 350688005516 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 350688005517 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 350688005518 B12 binding site [chemical binding]; other site 350688005519 cobalt ligand [ion binding]; other site 350688005520 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 350688005521 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 350688005522 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688005523 catalytic residue [active] 350688005524 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350688005525 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350688005526 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 350688005527 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 350688005528 dimer interface [polypeptide binding]; other site 350688005529 active site 350688005530 glycine-pyridoxal phosphate binding site [chemical binding]; other site 350688005531 folate binding site [chemical binding]; other site 350688005532 Uncharacterized conserved protein [Function unknown]; Region: COG2966 350688005533 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 350688005534 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 350688005535 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350688005536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688005537 Coenzyme A binding pocket [chemical binding]; other site 350688005538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688005539 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 350688005540 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 350688005541 oligomer interface [polypeptide binding]; other site 350688005542 putative active site [active] 350688005543 metal binding site [ion binding]; metal-binding site 350688005544 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 350688005545 dinuclear metal binding motif [ion binding]; other site 350688005546 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 350688005547 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 350688005548 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 350688005549 putative ATP binding site [chemical binding]; other site 350688005550 putative substrate interface [chemical binding]; other site 350688005551 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 350688005552 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 350688005553 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 350688005554 dimer interface [polypeptide binding]; other site 350688005555 anticodon binding site; other site 350688005556 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 350688005557 homodimer interface [polypeptide binding]; other site 350688005558 motif 1; other site 350688005559 active site 350688005560 motif 2; other site 350688005561 GAD domain; Region: GAD; pfam02938 350688005562 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 350688005563 motif 3; other site 350688005564 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 350688005565 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 350688005566 dimer interface [polypeptide binding]; other site 350688005567 motif 1; other site 350688005568 active site 350688005569 motif 2; other site 350688005570 motif 3; other site 350688005571 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 350688005572 anticodon binding site; other site 350688005573 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 350688005574 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 350688005575 FeS/SAM binding site; other site 350688005576 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 350688005577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688005578 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 350688005579 putative active site [active] 350688005580 dimerization interface [polypeptide binding]; other site 350688005581 putative tRNAtyr binding site [nucleotide binding]; other site 350688005582 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 350688005583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688005584 Zn2+ binding site [ion binding]; other site 350688005585 Mg2+ binding site [ion binding]; other site 350688005586 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350688005587 synthetase active site [active] 350688005588 NTP binding site [chemical binding]; other site 350688005589 metal binding site [ion binding]; metal-binding site 350688005590 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 350688005591 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 350688005592 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688005593 active site 350688005594 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 350688005595 DHH family; Region: DHH; pfam01368 350688005596 DHHA1 domain; Region: DHHA1; pfam02272 350688005597 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 350688005598 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 350688005599 trimer interface [polypeptide binding]; other site 350688005600 putative metal binding site [ion binding]; other site 350688005601 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 350688005602 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 350688005603 FeS/SAM binding site; other site 350688005604 Sulfatase; Region: Sulfatase; cl17466 350688005605 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 350688005606 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 350688005607 Preprotein translocase subunit; Region: YajC; pfam02699 350688005608 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 350688005609 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 350688005610 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 350688005611 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 350688005612 Stage II sporulation protein; Region: SpoIID; pfam08486 350688005613 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 350688005614 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 350688005615 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 350688005616 Walker A motif; other site 350688005617 ATP binding site [chemical binding]; other site 350688005618 Walker B motif; other site 350688005619 arginine finger; other site 350688005620 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 350688005621 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 350688005622 RuvA N terminal domain; Region: RuvA_N; pfam01330 350688005623 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 350688005624 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 350688005625 active site 350688005626 putative DNA-binding cleft [nucleotide binding]; other site 350688005627 dimer interface [polypeptide binding]; other site 350688005628 AAA domain; Region: AAA_32; pfam13654 350688005629 RNA helicase; Region: RNA_helicase; pfam00910 350688005630 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350688005631 BioY family; Region: BioY; pfam02632 350688005632 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 350688005633 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 350688005634 RNA binding surface [nucleotide binding]; other site 350688005635 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 350688005636 probable active site [active] 350688005637 Sporulation and spore germination; Region: Germane; pfam10646 350688005638 sensory histidine kinase CreC; Provisional; Region: PRK11100 350688005639 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 350688005640 dimerization interface [polypeptide binding]; other site 350688005641 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 350688005642 dimer interface [polypeptide binding]; other site 350688005643 phosphorylation site [posttranslational modification] 350688005644 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 350688005645 ATP binding site [chemical binding]; other site 350688005646 Mg2+ binding site [ion binding]; other site 350688005647 G-X-G motif; other site 350688005648 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688005649 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 350688005650 active site 350688005651 phosphorylation site [posttranslational modification] 350688005652 intermolecular recognition site; other site 350688005653 dimerization interface [polypeptide binding]; other site 350688005654 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 350688005655 DNA binding site [nucleotide binding] 350688005656 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 350688005657 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 350688005658 G1 box; other site 350688005659 putative GEF interaction site [polypeptide binding]; other site 350688005660 GTP/Mg2+ binding site [chemical binding]; other site 350688005661 Switch I region; other site 350688005662 G2 box; other site 350688005663 G3 box; other site 350688005664 Switch II region; other site 350688005665 G4 box; other site 350688005666 G5 box; other site 350688005667 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 350688005668 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 350688005669 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 350688005670 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 350688005671 selenocysteine synthase; Provisional; Region: PRK04311 350688005672 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 350688005673 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 350688005674 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688005675 catalytic residue [active] 350688005676 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 350688005677 amino acid carrier protein; Region: agcS; TIGR00835 350688005678 selenophosphate synthetase; Provisional; Region: PRK00943 350688005679 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 350688005680 dimerization interface [polypeptide binding]; other site 350688005681 putative ATP binding site [chemical binding]; other site 350688005682 SLBB domain; Region: SLBB; pfam10531 350688005683 comEA protein; Region: comE; TIGR01259 350688005684 Helix-hairpin-helix motif; Region: HHH; pfam00633 350688005685 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350688005686 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 350688005687 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 350688005688 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 350688005689 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 350688005690 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 350688005691 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 350688005692 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 350688005693 putative L-serine binding site [chemical binding]; other site 350688005694 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 350688005695 homotrimer interaction site [polypeptide binding]; other site 350688005696 putative active site [active] 350688005697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 350688005698 YheO-like PAS domain; Region: PAS_6; pfam08348 350688005699 HTH domain; Region: HTH_22; pfam13309 350688005700 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 350688005701 Transcriptional regulator [Transcription]; Region: LytR; COG1316 350688005702 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688005703 Zn2+ binding site [ion binding]; other site 350688005704 Mg2+ binding site [ion binding]; other site 350688005705 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 350688005706 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 350688005707 active site 350688005708 (T/H)XGH motif; other site 350688005709 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 350688005710 GTPase CgtA; Reviewed; Region: obgE; PRK12297 350688005711 GTP1/OBG; Region: GTP1_OBG; pfam01018 350688005712 Obg GTPase; Region: Obg; cd01898 350688005713 G1 box; other site 350688005714 GTP/Mg2+ binding site [chemical binding]; other site 350688005715 Switch I region; other site 350688005716 G2 box; other site 350688005717 G3 box; other site 350688005718 Switch II region; other site 350688005719 G4 box; other site 350688005720 G5 box; other site 350688005721 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 350688005722 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 350688005723 Protein of unknown function (DUF464); Region: DUF464; pfam04327 350688005724 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 350688005725 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 350688005726 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 350688005727 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 350688005728 homodimer interface [polypeptide binding]; other site 350688005729 oligonucleotide binding site [chemical binding]; other site 350688005730 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 350688005731 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 350688005732 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 350688005733 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 350688005734 FeS/SAM binding site; other site 350688005735 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 350688005736 Peptidase family M50; Region: Peptidase_M50; pfam02163 350688005737 active site 350688005738 putative substrate binding region [chemical binding]; other site 350688005739 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 350688005740 Peptidase family M23; Region: Peptidase_M23; pfam01551 350688005741 cell division topological specificity factor MinE; Provisional; Region: PRK13987 350688005742 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 350688005743 Switch I; other site 350688005744 Switch II; other site 350688005745 septum formation inhibitor; Reviewed; Region: minC; PRK00513 350688005746 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 350688005747 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350688005748 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350688005749 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350688005750 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350688005751 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350688005752 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 350688005753 rod shape-determining protein MreC; Provisional; Region: PRK13922 350688005754 rod shape-determining protein MreC; Region: MreC; pfam04085 350688005755 rod shape-determining protein MreB; Provisional; Region: PRK13927 350688005756 MreB and similar proteins; Region: MreB_like; cd10225 350688005757 nucleotide binding site [chemical binding]; other site 350688005758 Mg binding site [ion binding]; other site 350688005759 putative protofilament interaction site [polypeptide binding]; other site 350688005760 RodZ interaction site [polypeptide binding]; other site 350688005761 hypothetical protein; Reviewed; Region: PRK00024 350688005762 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 350688005763 MPN+ (JAMM) motif; other site 350688005764 Zinc-binding site [ion binding]; other site 350688005765 Maf-like protein; Region: Maf; pfam02545 350688005766 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 350688005767 active site 350688005768 dimer interface [polypeptide binding]; other site 350688005769 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 350688005770 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 350688005771 ferredoxin; Validated; Region: PRK07118 350688005772 Putative Fe-S cluster; Region: FeS; cl17515 350688005773 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350688005774 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 350688005775 electron transport complex RsxE subunit; Provisional; Region: PRK12405 350688005776 FMN-binding domain; Region: FMN_bind; cl01081 350688005777 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 350688005778 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 350688005779 SLBB domain; Region: SLBB; pfam10531 350688005780 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 350688005781 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 350688005782 Bacterial SH3 domain; Region: SH3_3; pfam08239 350688005783 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350688005784 NlpC/P60 family; Region: NLPC_P60; pfam00877 350688005785 hypothetical protein; Validated; Region: PRK00110 350688005786 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 350688005787 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 350688005788 homodimer interface [polypeptide binding]; other site 350688005789 NAD binding pocket [chemical binding]; other site 350688005790 ATP binding pocket [chemical binding]; other site 350688005791 Mg binding site [ion binding]; other site 350688005792 active-site loop [active] 350688005793 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350688005794 CoA binding domain; Region: CoA_binding_2; pfam13380 350688005795 Uncharacterized conserved protein [Function unknown]; Region: COG1739 350688005796 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 350688005797 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 350688005798 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 350688005799 active site 350688005800 Ap6A binding site [chemical binding]; other site 350688005801 nudix motif; other site 350688005802 metal binding site [ion binding]; metal-binding site 350688005803 HEAT-like repeat; Region: HEAT_EZ; pfam13513 350688005804 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 350688005805 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 350688005806 HflX GTPase family; Region: HflX; cd01878 350688005807 G1 box; other site 350688005808 GTP/Mg2+ binding site [chemical binding]; other site 350688005809 Switch I region; other site 350688005810 G2 box; other site 350688005811 G3 box; other site 350688005812 Switch II region; other site 350688005813 G4 box; other site 350688005814 G5 box; other site 350688005815 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 350688005816 Transglycosylase; Region: Transgly; pfam00912 350688005817 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 350688005818 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350688005819 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 350688005820 stage V sporulation protein AD; Validated; Region: PRK08304 350688005821 stage V sporulation protein AD; Provisional; Region: PRK12404 350688005822 SpoVA protein; Region: SpoVA; cl04298 350688005823 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 350688005824 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 350688005825 sporulation sigma factor SigF; Validated; Region: PRK05572 350688005826 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688005827 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350688005828 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 350688005829 DNA binding residues [nucleotide binding] 350688005830 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 350688005831 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 350688005832 ATP binding site [chemical binding]; other site 350688005833 Mg2+ binding site [ion binding]; other site 350688005834 G-X-G motif; other site 350688005835 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 350688005836 anti sigma factor interaction site; other site 350688005837 regulatory phosphorylation site [posttranslational modification]; other site 350688005838 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 350688005839 Isochorismatase family; Region: Isochorismatase; pfam00857 350688005840 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 350688005841 catalytic triad [active] 350688005842 conserved cis-peptide bond; other site 350688005843 Phosphotransferase enzyme family; Region: APH; pfam01636 350688005844 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 350688005845 active site 350688005846 substrate binding site [chemical binding]; other site 350688005847 ATP binding site [chemical binding]; other site 350688005848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688005849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688005850 Coenzyme A binding pocket [chemical binding]; other site 350688005851 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 350688005852 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 350688005853 Citrate transporter; Region: CitMHS; pfam03600 350688005854 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 350688005855 PAS domain; Region: PAS_9; pfam13426 350688005856 putative active site [active] 350688005857 heme pocket [chemical binding]; other site 350688005858 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688005859 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 350688005860 Walker A motif; other site 350688005861 ATP binding site [chemical binding]; other site 350688005862 Walker B motif; other site 350688005863 arginine finger; other site 350688005864 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688005865 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 350688005866 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 350688005867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688005868 Coenzyme A binding pocket [chemical binding]; other site 350688005869 Membrane protein of unknown function; Region: DUF360; pfam04020 350688005870 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 350688005871 MPT binding site; other site 350688005872 trimer interface [polypeptide binding]; other site 350688005873 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 350688005874 trimer interface [polypeptide binding]; other site 350688005875 dimer interface [polypeptide binding]; other site 350688005876 putative active site [active] 350688005877 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 350688005878 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 350688005879 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 350688005880 Ligand Binding Site [chemical binding]; other site 350688005881 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 350688005882 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 350688005883 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688005884 catalytic residue [active] 350688005885 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 350688005886 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 350688005887 active site 350688005888 homotetramer interface [polypeptide binding]; other site 350688005889 homodimer interface [polypeptide binding]; other site 350688005890 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 350688005891 Part of AAA domain; Region: AAA_19; pfam13245 350688005892 AAA domain; Region: AAA_14; pfam13173 350688005893 Family description; Region: UvrD_C_2; pfam13538 350688005894 S-layer homology domain; Region: SLH; pfam00395 350688005895 S-layer homology domain; Region: SLH; pfam00395 350688005896 RNase_H superfamily; Region: RNase_H_2; pfam13482 350688005897 active site 350688005898 catalytic site [active] 350688005899 substrate binding site [chemical binding]; other site 350688005900 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 350688005901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350688005902 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 350688005903 non-specific DNA binding site [nucleotide binding]; other site 350688005904 salt bridge; other site 350688005905 sequence-specific DNA binding site [nucleotide binding]; other site 350688005906 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 350688005907 putative replication initiation protein; Region: PHA00330 350688005908 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350688005909 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 350688005910 active site 350688005911 DNA binding site [nucleotide binding] 350688005912 Int/Topo IB signature motif; other site 350688005913 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 350688005914 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 350688005915 binding surface 350688005916 TPR motif; other site 350688005917 TPR repeat; Region: TPR_11; pfam13414 350688005918 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 350688005919 B12 binding site [chemical binding]; other site 350688005920 Radical SAM superfamily; Region: Radical_SAM; pfam04055 350688005921 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 350688005922 FeS/SAM binding site; other site 350688005923 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 350688005924 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 350688005925 Uncharacterized conserved protein [Function unknown]; Region: COG1683 350688005926 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 350688005927 MutS domain III; Region: MutS_III; pfam05192 350688005928 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 350688005929 Walker A/P-loop; other site 350688005930 ATP binding site [chemical binding]; other site 350688005931 Q-loop/lid; other site 350688005932 ABC transporter signature motif; other site 350688005933 Walker B; other site 350688005934 D-loop; other site 350688005935 H-loop/switch region; other site 350688005936 Smr domain; Region: Smr; pfam01713 350688005937 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 350688005938 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 350688005939 G1 box; other site 350688005940 putative GEF interaction site [polypeptide binding]; other site 350688005941 GTP/Mg2+ binding site [chemical binding]; other site 350688005942 Switch I region; other site 350688005943 G2 box; other site 350688005944 G3 box; other site 350688005945 Switch II region; other site 350688005946 G4 box; other site 350688005947 G5 box; other site 350688005948 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 350688005949 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 350688005950 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 350688005951 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688005952 flavoprotein, HI0933 family; Region: TIGR00275 350688005953 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688005954 Rubrerythrin [Energy production and conversion]; Region: COG1592 350688005955 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 350688005956 binuclear metal center [ion binding]; other site 350688005957 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 350688005958 iron binding site [ion binding]; other site 350688005959 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 350688005960 Nucleoside recognition; Region: Gate; pfam07670 350688005961 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 350688005962 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cl00891 350688005963 E-class dimer interface [polypeptide binding]; other site 350688005964 P-class dimer interface [polypeptide binding]; other site 350688005965 active site 350688005966 Cu2+ binding site [ion binding]; other site 350688005967 Zn2+ binding site [ion binding]; other site 350688005968 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350688005969 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 350688005970 catalytic residues [active] 350688005971 catalytic nucleophile [active] 350688005972 Recombinase; Region: Recombinase; pfam07508 350688005973 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 350688005974 Toxin ToxN, type III toxin-antitoxin system; Region: ToxN_toxin; pfam13958 350688005975 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 350688005976 salt bridge; other site 350688005977 non-specific DNA binding site [nucleotide binding]; other site 350688005978 sequence-specific DNA binding site [nucleotide binding]; other site 350688005979 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 350688005980 sequence-specific DNA binding site [nucleotide binding]; other site 350688005981 salt bridge; other site 350688005982 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 350688005983 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 350688005984 cofactor binding site; other site 350688005985 DNA binding site [nucleotide binding] 350688005986 substrate interaction site [chemical binding]; other site 350688005987 NgoPII restriction endonuclease; Region: RE_NgoPII; pfam09521 350688005988 DEAD/DEAH box helicase; Region: DEAD; pfam00270 350688005989 ATP binding site [chemical binding]; other site 350688005990 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 350688005991 GIY-YIG motif/motif A; other site 350688005992 putative active site [active] 350688005993 putative metal binding site [ion binding]; other site 350688005994 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 350688005995 HEAT repeats; Region: HEAT_2; pfam13646 350688005996 Protein of unknown function DUF45; Region: DUF45; cl00636 350688005997 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 350688005998 putative active site [active] 350688005999 AAA-like domain; Region: AAA_10; pfam12846 350688006000 Part of AAA domain; Region: AAA_19; pfam13245 350688006001 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 350688006002 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 350688006003 dimer interface [polypeptide binding]; other site 350688006004 ssDNA binding site [nucleotide binding]; other site 350688006005 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350688006006 S-layer homology domain; Region: SLH; pfam00395 350688006007 S-layer homology domain; Region: SLH; pfam00395 350688006008 ORF6N domain; Region: ORF6N; pfam10543 350688006009 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 350688006010 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 350688006011 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 350688006012 putative transposase OrfB; Reviewed; Region: PHA02517 350688006013 HTH-like domain; Region: HTH_21; pfam13276 350688006014 Integrase core domain; Region: rve; pfam00665 350688006015 Integrase core domain; Region: rve_3; pfam13683 350688006016 Transposase; Region: HTH_Tnp_1; pfam01527 350688006017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688006018 DsrE/DsrF-like family; Region: DrsE; cl00672 350688006019 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 350688006020 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 350688006021 cofactor binding site; other site 350688006022 DNA binding site [nucleotide binding] 350688006023 substrate interaction site [chemical binding]; other site 350688006024 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 350688006025 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 350688006026 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 350688006027 ATP binding site [chemical binding]; other site 350688006028 G-X-G motif; other site 350688006029 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 350688006030 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 350688006031 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 350688006032 Walker A motif; other site 350688006033 ATP binding site [chemical binding]; other site 350688006034 Walker B motif; other site 350688006035 AAA domain; Region: AAA_31; pfam13614 350688006036 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 350688006037 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 350688006038 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 350688006039 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 350688006040 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 350688006041 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 350688006042 CHC2 zinc finger; Region: zf-CHC2; cl17510 350688006043 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 350688006044 Toprim-like; Region: Toprim_2; pfam13155 350688006045 active site 350688006046 metal binding site [ion binding]; metal-binding site 350688006047 Fic family protein [Function unknown]; Region: COG3177 350688006048 Fic/DOC family; Region: Fic; pfam02661 350688006049 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 350688006050 ParB-like nuclease domain; Region: ParBc; pfam02195 350688006051 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350688006052 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 350688006053 P-loop; other site 350688006054 Magnesium ion binding site [ion binding]; other site 350688006055 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 350688006056 Magnesium ion binding site [ion binding]; other site 350688006057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006058 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 350688006059 Coenzyme A binding pocket [chemical binding]; other site 350688006060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688006061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006062 Coenzyme A binding pocket [chemical binding]; other site 350688006063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006064 Coenzyme A binding pocket [chemical binding]; other site 350688006065 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 350688006066 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 350688006067 oligomer interface [polypeptide binding]; other site 350688006068 metal binding site [ion binding]; metal-binding site 350688006069 metal binding site [ion binding]; metal-binding site 350688006070 Cl binding site [ion binding]; other site 350688006071 aspartate ring; other site 350688006072 basic sphincter; other site 350688006073 putative hydrophobic gate; other site 350688006074 periplasmic entrance; other site 350688006075 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350688006076 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350688006077 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 350688006078 TAP-like protein; Region: Abhydrolase_4; pfam08386 350688006079 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 350688006080 hypothetical protein; Reviewed; Region: PRK09588 350688006081 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 350688006082 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 350688006083 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 350688006084 RNA binding surface [nucleotide binding]; other site 350688006085 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350688006086 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 350688006087 NAD binding site [chemical binding]; other site 350688006088 homodimer interface [polypeptide binding]; other site 350688006089 active site 350688006090 putative substrate binding site [chemical binding]; other site 350688006091 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 350688006092 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 350688006093 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 350688006094 Peptidase M16C associated; Region: M16C_assoc; pfam08367 350688006095 competence damage-inducible protein A; Provisional; Region: PRK00549 350688006096 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 350688006097 putative MPT binding site; other site 350688006098 Competence-damaged protein; Region: CinA; pfam02464 350688006099 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006100 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 350688006101 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006103 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006104 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006105 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006106 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006108 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006110 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006111 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 350688006112 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688006113 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688006114 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688006115 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 350688006116 Walker A/P-loop; other site 350688006117 ATP binding site [chemical binding]; other site 350688006118 Q-loop/lid; other site 350688006119 ABC transporter signature motif; other site 350688006120 Walker B; other site 350688006121 D-loop; other site 350688006122 H-loop/switch region; other site 350688006123 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688006124 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688006125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688006126 Walker A/P-loop; other site 350688006127 ATP binding site [chemical binding]; other site 350688006128 Q-loop/lid; other site 350688006129 ABC transporter signature motif; other site 350688006130 Walker B; other site 350688006131 D-loop; other site 350688006132 H-loop/switch region; other site 350688006133 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 350688006134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350688006135 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 350688006136 substrate binding pocket [chemical binding]; other site 350688006137 membrane-bound complex binding site; other site 350688006138 hinge residues; other site 350688006139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688006140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688006141 metal binding site [ion binding]; metal-binding site 350688006142 active site 350688006143 I-site; other site 350688006144 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 350688006145 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 350688006146 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688006147 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350688006148 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 350688006149 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 350688006150 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 350688006151 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 350688006152 dimer interface [polypeptide binding]; other site 350688006153 PYR/PP interface [polypeptide binding]; other site 350688006154 TPP binding site [chemical binding]; other site 350688006155 substrate binding site [chemical binding]; other site 350688006156 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 350688006157 Domain of unknown function; Region: EKR; smart00890 350688006158 4Fe-4S binding domain; Region: Fer4_6; pfam12837 350688006159 4Fe-4S binding domain; Region: Fer4; pfam00037 350688006160 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 350688006161 TPP-binding site [chemical binding]; other site 350688006162 dimer interface [polypeptide binding]; other site 350688006163 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 350688006164 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 350688006165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688006166 catalytic residue [active] 350688006167 homoserine kinase; Provisional; Region: PRK01212 350688006168 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 350688006169 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 350688006170 hypothetical protein; Provisional; Region: PRK04435 350688006171 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 350688006172 Class I aldolases; Region: Aldolase_Class_I; cl17187 350688006173 catalytic residue [active] 350688006174 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 350688006175 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 350688006176 DRTGG domain; Region: DRTGG; pfam07085 350688006177 DHHA2 domain; Region: DHHA2; pfam02833 350688006178 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 350688006179 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 350688006180 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 350688006181 active site 350688006182 phosphorylation site [posttranslational modification] 350688006183 intermolecular recognition site; other site 350688006184 dimerization interface [polypeptide binding]; other site 350688006185 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 350688006186 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 350688006187 CPxP motif; other site 350688006188 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 350688006189 S-layer homology domain; Region: SLH; pfam00395 350688006190 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 350688006191 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350688006192 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 350688006193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 350688006194 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 350688006195 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 350688006196 active site 350688006197 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 350688006198 Peptidase family U32; Region: Peptidase_U32; pfam01136 350688006199 Collagenase; Region: DUF3656; pfam12392 350688006200 Peptidase family U32; Region: Peptidase_U32; cl03113 350688006201 Cell division protein ZapA; Region: ZapA; pfam05164 350688006202 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 350688006203 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 350688006204 putative tRNA-binding site [nucleotide binding]; other site 350688006205 B3/4 domain; Region: B3_4; pfam03483 350688006206 tRNA synthetase B5 domain; Region: B5; smart00874 350688006207 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 350688006208 dimer interface [polypeptide binding]; other site 350688006209 motif 1; other site 350688006210 motif 3; other site 350688006211 motif 2; other site 350688006212 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 350688006213 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 350688006214 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 350688006215 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 350688006216 dimer interface [polypeptide binding]; other site 350688006217 motif 1; other site 350688006218 active site 350688006219 motif 2; other site 350688006220 motif 3; other site 350688006221 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350688006222 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 350688006223 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350688006224 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350688006225 TrkA-N domain; Region: TrkA_N; pfam02254 350688006226 TrkA-C domain; Region: TrkA_C; pfam02080 350688006227 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 350688006228 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 350688006229 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 350688006230 23S rRNA binding site [nucleotide binding]; other site 350688006231 L21 binding site [polypeptide binding]; other site 350688006232 L13 binding site [polypeptide binding]; other site 350688006233 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 350688006234 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 350688006235 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 350688006236 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 350688006237 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 350688006238 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 350688006239 Walker A motif; other site 350688006240 ATP binding site [chemical binding]; other site 350688006241 Walker B motif; other site 350688006242 arginine finger; other site 350688006243 Peptidase family M41; Region: Peptidase_M41; pfam01434 350688006244 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 350688006245 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 350688006246 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 350688006247 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 350688006248 active site 350688006249 dimer interface [polypeptide binding]; other site 350688006250 motif 1; other site 350688006251 motif 2; other site 350688006252 motif 3; other site 350688006253 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 350688006254 anticodon binding site; other site 350688006255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 350688006256 YtxC-like family; Region: YtxC; pfam08812 350688006257 FeoA domain; Region: FeoA; pfam04023 350688006258 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 350688006259 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 350688006260 G1 box; other site 350688006261 GTP/Mg2+ binding site [chemical binding]; other site 350688006262 Switch I region; other site 350688006263 G2 box; other site 350688006264 G3 box; other site 350688006265 Switch II region; other site 350688006266 G4 box; other site 350688006267 G5 box; other site 350688006268 Nucleoside recognition; Region: Gate; pfam07670 350688006269 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 350688006270 Nucleoside recognition; Region: Gate; pfam07670 350688006271 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 350688006272 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 350688006273 putative active site [active] 350688006274 putative NTP binding site [chemical binding]; other site 350688006275 putative nucleic acid binding site [nucleotide binding]; other site 350688006276 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 350688006277 hypothetical protein; Provisional; Region: PRK06771 350688006278 putative transposase OrfB; Reviewed; Region: PHA02517 350688006279 HTH-like domain; Region: HTH_21; pfam13276 350688006280 Integrase core domain; Region: rve; pfam00665 350688006281 Integrase core domain; Region: rve_3; pfam13683 350688006282 Transposase; Region: HTH_Tnp_1; pfam01527 350688006283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688006284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006285 Coenzyme A binding pocket [chemical binding]; other site 350688006286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006287 Coenzyme A binding pocket [chemical binding]; other site 350688006288 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 350688006289 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 350688006290 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 350688006291 dinuclear metal binding motif [ion binding]; other site 350688006292 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 350688006293 homotrimer interaction site [polypeptide binding]; other site 350688006294 putative active site [active] 350688006295 Transposase; Region: HTH_Tnp_1; pfam01527 350688006296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688006297 putative transposase OrfB; Reviewed; Region: PHA02517 350688006298 HTH-like domain; Region: HTH_21; pfam13276 350688006299 Integrase core domain; Region: rve; pfam00665 350688006300 Integrase core domain; Region: rve_3; pfam13683 350688006301 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 350688006302 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 350688006303 dimerization interface [polypeptide binding]; other site 350688006304 domain crossover interface; other site 350688006305 redox-dependent activation switch; other site 350688006306 YCII-related domain; Region: YCII; cl00999 350688006307 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 350688006308 DNA-binding site [nucleotide binding]; DNA binding site 350688006309 RNA-binding motif; other site 350688006310 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 350688006311 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 350688006312 S-adenosylmethionine binding site [chemical binding]; other site 350688006313 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 350688006314 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 350688006315 glutaminase A; Region: Gln_ase; TIGR03814 350688006316 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 350688006317 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 350688006318 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 350688006319 active site 350688006320 FOG: CBS domain [General function prediction only]; Region: COG0517 350688006321 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 350688006322 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 350688006323 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 350688006324 Catalytic site [active] 350688006325 YceG-like family; Region: YceG; pfam02618 350688006326 Protease prsW family; Region: PrsW-protease; pfam13367 350688006327 CAAX protease self-immunity; Region: Abi; pfam02517 350688006328 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688006329 active site 350688006330 single-stranded DNA-binding protein; Provisional; Region: PRK05813 350688006331 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 350688006332 dimer interface [polypeptide binding]; other site 350688006333 ssDNA binding site [nucleotide binding]; other site 350688006334 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350688006335 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 350688006336 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350688006337 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688006338 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688006339 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 350688006340 NodB motif; other site 350688006341 active site 350688006342 catalytic site [active] 350688006343 metal binding site [ion binding]; metal-binding site 350688006344 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 350688006345 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 350688006346 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 350688006347 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 350688006348 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688006349 dimer interface [polypeptide binding]; other site 350688006350 conserved gate region; other site 350688006351 putative PBP binding loops; other site 350688006352 ABC-ATPase subunit interface; other site 350688006353 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 350688006354 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 350688006355 Walker A/P-loop; other site 350688006356 ATP binding site [chemical binding]; other site 350688006357 Q-loop/lid; other site 350688006358 ABC transporter signature motif; other site 350688006359 Walker B; other site 350688006360 D-loop; other site 350688006361 H-loop/switch region; other site 350688006362 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 350688006363 Predicted transcriptional regulators [Transcription]; Region: COG1510 350688006364 MarR family; Region: MarR_2; pfam12802 350688006365 aspartate aminotransferase; Provisional; Region: PRK06290 350688006366 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 350688006367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688006368 homodimer interface [polypeptide binding]; other site 350688006369 catalytic residue [active] 350688006370 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 350688006371 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 350688006372 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 350688006373 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 350688006374 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 350688006375 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 350688006376 Uncharacterized conserved protein [Function unknown]; Region: COG3391 350688006377 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 350688006378 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 350688006379 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 350688006380 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 350688006381 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688006382 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688006383 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 350688006384 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 350688006385 cofactor binding site; other site 350688006386 DNA binding site [nucleotide binding] 350688006387 substrate interaction site [chemical binding]; other site 350688006388 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 350688006389 Nuclease-related domain; Region: NERD; pfam08378 350688006390 Family description; Region: UvrD_C_2; pfam13538 350688006391 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 350688006392 helicase superfamily c-terminal domain; Region: HELICc; smart00490 350688006393 nucleotide binding region [chemical binding]; other site 350688006394 ATP-binding site [chemical binding]; other site 350688006395 Part of AAA domain; Region: AAA_19; pfam13245 350688006396 Family description; Region: UvrD_C_2; pfam13538 350688006397 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 350688006398 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 350688006399 nucleotide binding site [chemical binding]; other site 350688006400 putative NEF/HSP70 interaction site [polypeptide binding]; other site 350688006401 SBD interface [polypeptide binding]; other site 350688006402 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 350688006403 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 350688006404 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688006405 active site 350688006406 HIGH motif; other site 350688006407 nucleotide binding site [chemical binding]; other site 350688006408 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 350688006409 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 350688006410 active site 350688006411 KMSKS motif; other site 350688006412 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 350688006413 tRNA binding surface [nucleotide binding]; other site 350688006414 anticodon binding site; other site 350688006415 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 350688006416 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 350688006417 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 350688006418 NMT1/THI5 like; Region: NMT1; pfam09084 350688006419 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 350688006420 Protein with unknown function (DUF469); Region: DUF469; cl01237 350688006421 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 350688006422 nudix motif; other site 350688006423 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 350688006424 nudix motif; other site 350688006425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006426 Coenzyme A binding pocket [chemical binding]; other site 350688006427 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350688006428 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 350688006429 ligand binding site [chemical binding]; other site 350688006430 flexible hinge region; other site 350688006431 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 350688006432 putative switch regulator; other site 350688006433 non-specific DNA interactions [nucleotide binding]; other site 350688006434 DNA binding site [nucleotide binding] 350688006435 sequence specific DNA binding site [nucleotide binding]; other site 350688006436 putative cAMP binding site [chemical binding]; other site 350688006437 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 350688006438 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350688006439 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 350688006440 motif II; other site 350688006441 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 350688006442 metal-binding site [ion binding] 350688006443 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 350688006444 GAF domain; Region: GAF; cl17456 350688006445 PAS domain; Region: PAS; smart00091 350688006446 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 350688006447 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350688006448 Walker A motif; other site 350688006449 ATP binding site [chemical binding]; other site 350688006450 Walker B motif; other site 350688006451 arginine finger; other site 350688006452 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688006453 YibE/F-like protein; Region: YibE_F; pfam07907 350688006454 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 350688006455 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 350688006456 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350688006457 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350688006458 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 350688006459 motif II; other site 350688006460 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350688006461 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 350688006462 Pirin-related protein [General function prediction only]; Region: COG1741 350688006463 Pirin; Region: Pirin; pfam02678 350688006464 methionine sulfoxide reductase B; Provisional; Region: PRK00222 350688006465 SelR domain; Region: SelR; pfam01641 350688006466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688006467 Coenzyme A binding pocket [chemical binding]; other site 350688006468 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 350688006469 Predicted acetyltransferase [General function prediction only]; Region: COG3393 350688006470 WYL domain; Region: WYL; cl14852 350688006471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688006472 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 350688006473 metal binding triad [ion binding]; metal-binding site 350688006474 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 350688006475 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 350688006476 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 350688006477 FeS/SAM binding site; other site 350688006478 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 350688006479 ATP cone domain; Region: ATP-cone; pfam03477 350688006480 Class III ribonucleotide reductase; Region: RNR_III; cd01675 350688006481 effector binding site; other site 350688006482 active site 350688006483 Zn binding site [ion binding]; other site 350688006484 glycine loop; other site 350688006485 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 350688006486 stage V sporulation protein B; Region: spore_V_B; TIGR02900 350688006487 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350688006488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688006489 Walker A/P-loop; other site 350688006490 ATP binding site [chemical binding]; other site 350688006491 Q-loop/lid; other site 350688006492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688006493 ABC transporter signature motif; other site 350688006494 Walker B; other site 350688006495 D-loop; other site 350688006496 ABC transporter; Region: ABC_tran_2; pfam12848 350688006497 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688006498 glutamate racemase; Provisional; Region: PRK00865 350688006499 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 350688006500 germination protein YpeB; Region: spore_YpeB; TIGR02889 350688006501 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 350688006502 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350688006503 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 350688006504 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 350688006505 MgtE intracellular N domain; Region: MgtE_N; smart00924 350688006506 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 350688006507 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 350688006508 Divalent cation transporter; Region: MgtE; pfam01769 350688006509 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 350688006510 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 350688006511 HAMP domain; Region: HAMP; pfam00672 350688006512 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688006513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688006514 dimer interface [polypeptide binding]; other site 350688006515 putative CheW interface [polypeptide binding]; other site 350688006516 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 350688006517 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 350688006518 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 350688006519 putative substrate translocation pore; other site 350688006520 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688006521 FtsX-like permease family; Region: FtsX; pfam02687 350688006522 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688006523 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688006524 Walker A/P-loop; other site 350688006525 ATP binding site [chemical binding]; other site 350688006526 Q-loop/lid; other site 350688006527 ABC transporter signature motif; other site 350688006528 Walker B; other site 350688006529 D-loop; other site 350688006530 H-loop/switch region; other site 350688006531 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688006532 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 350688006533 ATP binding site [chemical binding]; other site 350688006534 Mg2+ binding site [ion binding]; other site 350688006535 G-X-G motif; other site 350688006536 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688006537 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 350688006538 active site 350688006539 phosphorylation site [posttranslational modification] 350688006540 intermolecular recognition site; other site 350688006541 dimerization interface [polypeptide binding]; other site 350688006542 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 350688006543 DNA binding site [nucleotide binding] 350688006544 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 350688006545 Hemerythrin-like domain; Region: Hr-like; cd12108 350688006546 Fe binding site [ion binding]; other site 350688006547 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 350688006548 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 350688006549 Tellurite resistance protein TerB; Region: TerB; cl17311 350688006550 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 350688006551 Ferritin-like domain; Region: Ferritin; pfam00210 350688006552 ferroxidase diiron center [ion binding]; other site 350688006553 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 350688006554 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 350688006555 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350688006556 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350688006557 Walker A/P-loop; other site 350688006558 ATP binding site [chemical binding]; other site 350688006559 Q-loop/lid; other site 350688006560 ABC transporter signature motif; other site 350688006561 Walker B; other site 350688006562 D-loop; other site 350688006563 H-loop/switch region; other site 350688006564 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350688006565 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688006566 dimer interface [polypeptide binding]; other site 350688006567 conserved gate region; other site 350688006568 putative PBP binding loops; other site 350688006569 ABC-ATPase subunit interface; other site 350688006570 GAF domain; Region: GAF; pfam01590 350688006571 GAF domain; Region: GAF_2; pfam13185 350688006572 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688006573 Zn2+ binding site [ion binding]; other site 350688006574 Mg2+ binding site [ion binding]; other site 350688006575 glutamine synthetase, type I; Region: GlnA; TIGR00653 350688006576 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350688006577 Cache domain; Region: Cache_1; pfam02743 350688006578 HAMP domain; Region: HAMP; pfam00672 350688006579 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688006580 Zn2+ binding site [ion binding]; other site 350688006581 Mg2+ binding site [ion binding]; other site 350688006582 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 350688006583 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 350688006584 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350688006585 FMN-binding domain; Region: FMN_bind; cl01081 350688006586 FMN-binding domain; Region: FMN_bind; cl01081 350688006587 FMN-binding domain; Region: FMN_bind; cl01081 350688006588 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688006589 FMN-binding domain; Region: FMN_bind; cl01081 350688006590 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 350688006591 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 350688006592 ApbE family; Region: ApbE; pfam02424 350688006593 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350688006594 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350688006595 cyanophycin synthetase; Provisional; Region: PRK14016 350688006596 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350688006597 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350688006598 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688006599 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688006600 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 350688006601 proposed catalytic triad [active] 350688006602 active site nucleophile [active] 350688006603 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 350688006604 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 350688006605 NodB motif; other site 350688006606 active site 350688006607 catalytic site [active] 350688006608 metal binding site [ion binding]; metal-binding site 350688006609 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 350688006610 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 350688006611 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 350688006612 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 350688006613 PhoU domain; Region: PhoU; pfam01895 350688006614 PhoU domain; Region: PhoU; pfam01895 350688006615 acyl carrier protein; Provisional; Region: acpP; PRK00982 350688006616 Asp23 family; Region: Asp23; pfam03780 350688006617 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 350688006618 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 350688006619 GTP binding site; other site 350688006620 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 350688006621 S1 domain; Region: S1_2; pfam13509 350688006622 S1 domain; Region: S1_2; pfam13509 350688006623 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 350688006624 RNA binding site [nucleotide binding]; other site 350688006625 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 350688006626 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 350688006627 EDD domain protein, DegV family; Region: DegV; TIGR00762 350688006628 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 350688006629 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 350688006630 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350688006631 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 350688006632 FOG: CBS domain [General function prediction only]; Region: COG0517 350688006633 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 350688006634 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 350688006635 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 350688006636 active site 350688006637 HIGH motif; other site 350688006638 dimer interface [polypeptide binding]; other site 350688006639 KMSKS motif; other site 350688006640 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 350688006641 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 350688006642 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 350688006643 dimer interface [polypeptide binding]; other site 350688006644 PYR/PP interface [polypeptide binding]; other site 350688006645 TPP binding site [chemical binding]; other site 350688006646 substrate binding site [chemical binding]; other site 350688006647 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350688006648 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 350688006649 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 350688006650 TPP-binding site [chemical binding]; other site 350688006651 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 350688006652 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 350688006653 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 350688006654 Potassium binding sites [ion binding]; other site 350688006655 Cesium cation binding sites [ion binding]; other site 350688006656 Heme NO binding; Region: HNOB; pfam07700 350688006657 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688006658 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 350688006659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688006660 dimer interface [polypeptide binding]; other site 350688006661 putative CheW interface [polypeptide binding]; other site 350688006662 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 350688006663 catalytic residues [active] 350688006664 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 350688006665 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350688006666 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 350688006667 ligand binding site [chemical binding]; other site 350688006668 flexible hinge region; other site 350688006669 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 350688006670 putative switch regulator; other site 350688006671 non-specific DNA interactions [nucleotide binding]; other site 350688006672 DNA binding site [nucleotide binding] 350688006673 sequence specific DNA binding site [nucleotide binding]; other site 350688006674 putative cAMP binding site [chemical binding]; other site 350688006675 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 350688006676 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 350688006677 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 350688006678 ABC-ATPase subunit interface; other site 350688006679 dimer interface [polypeptide binding]; other site 350688006680 putative PBP binding regions; other site 350688006681 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 350688006682 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 350688006683 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 350688006684 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 350688006685 metal binding site [ion binding]; metal-binding site 350688006686 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 350688006687 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 350688006688 putative MPT binding site; other site 350688006689 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688006690 4Fe-4S binding domain; Region: Fer4_6; pfam12837 350688006691 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 350688006692 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688006693 putative oxidoreductase; Provisional; Region: PRK09849 350688006694 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 350688006695 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 350688006696 hypothetical protein; Provisional; Region: PRK09898 350688006697 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 350688006698 XdhC Rossmann domain; Region: XdhC_C; pfam13478 350688006699 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 350688006700 putative oxidoreductase; Provisional; Region: PRK09849 350688006701 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 350688006702 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 350688006703 hypothetical protein; Provisional; Region: PRK09898 350688006704 4Fe-4S binding domain; Region: Fer4; cl02805 350688006705 hypothetical protein; Provisional; Region: PRK09947 350688006706 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 350688006707 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 350688006708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350688006709 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688006710 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350688006711 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 350688006712 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 350688006713 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 350688006714 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 350688006715 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 350688006716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 350688006717 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 350688006718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 350688006719 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 350688006720 PLD-like domain; Region: PLDc_2; pfam13091 350688006721 putative active site [active] 350688006722 catalytic site [active] 350688006723 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 350688006724 PLD-like domain; Region: PLDc_2; pfam13091 350688006725 putative active site [active] 350688006726 catalytic site [active] 350688006727 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350688006728 GAF domain; Region: GAF; pfam01590 350688006729 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688006730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688006731 metal binding site [ion binding]; metal-binding site 350688006732 active site 350688006733 I-site; other site 350688006734 DNA topoisomerase III; Provisional; Region: PRK07726 350688006735 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 350688006736 active site 350688006737 putative interdomain interaction site [polypeptide binding]; other site 350688006738 putative metal-binding site [ion binding]; other site 350688006739 putative nucleotide binding site [chemical binding]; other site 350688006740 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 350688006741 domain I; other site 350688006742 DNA binding groove [nucleotide binding] 350688006743 phosphate binding site [ion binding]; other site 350688006744 domain II; other site 350688006745 domain III; other site 350688006746 nucleotide binding site [chemical binding]; other site 350688006747 catalytic site [active] 350688006748 domain IV; other site 350688006749 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 350688006750 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 350688006751 binding surface 350688006752 TPR repeat; Region: TPR_11; pfam13414 350688006753 TPR motif; other site 350688006754 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 350688006755 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688006756 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688006757 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 350688006758 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350688006759 Walker A/P-loop; other site 350688006760 ATP binding site [chemical binding]; other site 350688006761 Q-loop/lid; other site 350688006762 ABC transporter signature motif; other site 350688006763 Walker B; other site 350688006764 D-loop; other site 350688006765 H-loop/switch region; other site 350688006766 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350688006767 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 350688006768 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350688006769 Walker A/P-loop; other site 350688006770 ATP binding site [chemical binding]; other site 350688006771 Q-loop/lid; other site 350688006772 ABC transporter signature motif; other site 350688006773 Walker B; other site 350688006774 D-loop; other site 350688006775 H-loop/switch region; other site 350688006776 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350688006777 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350688006778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688006779 dimer interface [polypeptide binding]; other site 350688006780 conserved gate region; other site 350688006781 putative PBP binding loops; other site 350688006782 ABC-ATPase subunit interface; other site 350688006783 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350688006784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688006785 dimer interface [polypeptide binding]; other site 350688006786 conserved gate region; other site 350688006787 putative PBP binding loops; other site 350688006788 ABC-ATPase subunit interface; other site 350688006789 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350688006790 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350688006791 metal binding site [ion binding]; metal-binding site 350688006792 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350688006793 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 350688006794 metal-binding site [ion binding] 350688006795 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350688006796 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350688006797 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 350688006798 dimerization interface [polypeptide binding]; other site 350688006799 putative DNA binding site [nucleotide binding]; other site 350688006800 putative Zn2+ binding site [ion binding]; other site 350688006801 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688006802 HAMP domain; Region: HAMP; pfam00672 350688006803 dimerization interface [polypeptide binding]; other site 350688006804 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 350688006805 dimer interface [polypeptide binding]; other site 350688006806 phosphorylation site [posttranslational modification] 350688006807 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 350688006808 ATP binding site [chemical binding]; other site 350688006809 Mg2+ binding site [ion binding]; other site 350688006810 G-X-G motif; other site 350688006811 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688006812 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 350688006813 active site 350688006814 phosphorylation site [posttranslational modification] 350688006815 intermolecular recognition site; other site 350688006816 dimerization interface [polypeptide binding]; other site 350688006817 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 350688006818 DNA binding site [nucleotide binding] 350688006819 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 350688006820 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 350688006821 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 350688006822 Rubredoxin; Region: Rubredoxin; pfam00301 350688006823 iron binding site [ion binding]; other site 350688006824 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 350688006825 EamA-like transporter family; Region: EamA; pfam00892 350688006826 EamA-like transporter family; Region: EamA; pfam00892 350688006827 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 350688006828 G1 box; other site 350688006829 GTP/Mg2+ binding site [chemical binding]; other site 350688006830 Switch I region; other site 350688006831 G2 box; other site 350688006832 G3 box; other site 350688006833 Switch II region; other site 350688006834 G4 box; other site 350688006835 G5 box; other site 350688006836 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 350688006837 Found in ATP-dependent protease La (LON); Region: LON; smart00464 350688006838 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 350688006839 Walker A motif; other site 350688006840 ATP binding site [chemical binding]; other site 350688006841 Walker B motif; other site 350688006842 arginine finger; other site 350688006843 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350688006844 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 350688006845 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 350688006846 Walker A motif; other site 350688006847 ATP binding site [chemical binding]; other site 350688006848 Walker B motif; other site 350688006849 arginine finger; other site 350688006850 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350688006851 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 350688006852 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 350688006853 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 350688006854 Walker A motif; other site 350688006855 ATP binding site [chemical binding]; other site 350688006856 Walker B motif; other site 350688006857 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 350688006858 Clp protease; Region: CLP_protease; pfam00574 350688006859 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 350688006860 oligomer interface [polypeptide binding]; other site 350688006861 active site residues [active] 350688006862 trigger factor; Provisional; Region: tig; PRK01490 350688006863 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350688006864 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 350688006865 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 350688006866 DNA-binding site [nucleotide binding]; DNA binding site 350688006867 RNA-binding motif; other site 350688006868 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 350688006869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350688006870 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 350688006871 ligand binding site [chemical binding]; other site 350688006872 flexible hinge region; other site 350688006873 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 350688006874 putative switch regulator; other site 350688006875 non-specific DNA interactions [nucleotide binding]; other site 350688006876 DNA binding site [nucleotide binding] 350688006877 sequence specific DNA binding site [nucleotide binding]; other site 350688006878 putative cAMP binding site [chemical binding]; other site 350688006879 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 350688006880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688006881 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350688006882 carbamate kinase; Reviewed; Region: PRK12686 350688006883 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 350688006884 putative substrate binding site [chemical binding]; other site 350688006885 nucleotide binding site [chemical binding]; other site 350688006886 nucleotide binding site [chemical binding]; other site 350688006887 homodimer interface [polypeptide binding]; other site 350688006888 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350688006889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688006890 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 350688006891 DNA binding residues [nucleotide binding] 350688006892 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 350688006893 putative deacylase active site [active] 350688006894 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 350688006895 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 350688006896 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 350688006897 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 350688006898 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350688006899 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350688006900 Protein of unknown function DUF45; Region: DUF45; pfam01863 350688006901 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688006902 active site 350688006903 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 350688006904 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 350688006905 heterodimer interface [polypeptide binding]; other site 350688006906 active site 350688006907 FMN binding site [chemical binding]; other site 350688006908 homodimer interface [polypeptide binding]; other site 350688006909 substrate binding site [chemical binding]; other site 350688006910 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 350688006911 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 350688006912 FAD binding pocket [chemical binding]; other site 350688006913 FAD binding motif [chemical binding]; other site 350688006914 phosphate binding motif [ion binding]; other site 350688006915 beta-alpha-beta structure motif; other site 350688006916 NAD binding pocket [chemical binding]; other site 350688006917 Iron coordination center [ion binding]; other site 350688006918 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 350688006919 active site 350688006920 dimer interface [polypeptide binding]; other site 350688006921 dihydroorotase; Validated; Region: pyrC; PRK09357 350688006922 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 350688006923 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 350688006924 active site 350688006925 Uncharacterized conserved protein [Function unknown]; Region: COG1434 350688006926 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 350688006927 putative active site [active] 350688006928 Predicted membrane protein [Function unknown]; Region: COG2323 350688006929 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 350688006930 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 350688006931 HIGH motif; other site 350688006932 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 350688006933 active site 350688006934 KMSKS motif; other site 350688006935 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 350688006936 tRNA binding surface [nucleotide binding]; other site 350688006937 anticodon binding site; other site 350688006938 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 350688006939 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 350688006940 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 350688006941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 350688006942 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 350688006943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 350688006944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688006945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688006946 metal binding site [ion binding]; metal-binding site 350688006947 active site 350688006948 I-site; other site 350688006949 Uncharacterized conserved protein [Function unknown]; Region: COG2461 350688006950 Family of unknown function (DUF438); Region: DUF438; pfam04282 350688006951 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 350688006952 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 350688006953 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 350688006954 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 350688006955 HAMP domain; Region: HAMP; pfam00672 350688006956 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688006957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688006958 dimer interface [polypeptide binding]; other site 350688006959 putative CheW interface [polypeptide binding]; other site 350688006960 Cysteine-rich small domain; Region: zf-like; cl00946 350688006961 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 350688006962 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 350688006963 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 350688006964 catalytic core [active] 350688006965 cobalamin synthase; Reviewed; Region: cobS; PRK00235 350688006966 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 350688006967 homotrimer interface [polypeptide binding]; other site 350688006968 Walker A motif; other site 350688006969 GTP binding site [chemical binding]; other site 350688006970 Walker B motif; other site 350688006971 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 350688006972 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 350688006973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688006974 homodimer interface [polypeptide binding]; other site 350688006975 catalytic residue [active] 350688006976 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 350688006977 hypothetical protein; Provisional; Region: PRK02399 350688006978 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 350688006979 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 350688006980 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350688006981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688006982 Walker A/P-loop; other site 350688006983 ATP binding site [chemical binding]; other site 350688006984 Q-loop/lid; other site 350688006985 ABC transporter signature motif; other site 350688006986 Walker B; other site 350688006987 D-loop; other site 350688006988 H-loop/switch region; other site 350688006989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688006990 dimer interface [polypeptide binding]; other site 350688006991 conserved gate region; other site 350688006992 putative PBP binding loops; other site 350688006993 ABC-ATPase subunit interface; other site 350688006994 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 350688006995 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350688006996 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 350688006997 active site 350688006998 metal binding site [ion binding]; metal-binding site 350688006999 flavodoxin; Provisional; Region: PRK05568 350688007000 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 350688007001 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 350688007002 PrcB C-terminal; Region: PrcB_C; pfam14343 350688007003 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 350688007004 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 350688007005 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 350688007006 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 350688007007 dimerization interface [polypeptide binding]; other site 350688007008 ATP binding site [chemical binding]; other site 350688007009 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 350688007010 dimerization interface [polypeptide binding]; other site 350688007011 ATP binding site [chemical binding]; other site 350688007012 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 350688007013 conserved cys residue [active] 350688007014 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 350688007015 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 350688007016 active site 350688007017 trimer interface [polypeptide binding]; other site 350688007018 allosteric site; other site 350688007019 active site lid [active] 350688007020 hexamer (dimer of trimers) interface [polypeptide binding]; other site 350688007021 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 350688007022 Predicted transcriptional regulators [Transcription]; Region: COG1695 350688007023 Transcriptional regulator PadR-like family; Region: PadR; cl17335 350688007024 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 350688007025 PBP superfamily domain; Region: PBP_like_2; cl17296 350688007026 Transposase IS200 like; Region: Y1_Tnp; cl00848 350688007027 putative transposase OrfB; Reviewed; Region: PHA02517 350688007028 HTH-like domain; Region: HTH_21; pfam13276 350688007029 Integrase core domain; Region: rve; pfam00665 350688007030 Integrase core domain; Region: rve_3; pfam13683 350688007031 Transposase; Region: HTH_Tnp_1; pfam01527 350688007032 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350688007033 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350688007034 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350688007035 Integrase core domain; Region: rve; pfam00665 350688007036 transposase/IS protein; Provisional; Region: PRK09183 350688007037 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 350688007038 Walker A motif; other site 350688007039 ATP binding site [chemical binding]; other site 350688007040 Walker B motif; other site 350688007041 arginine finger; other site 350688007042 Accessory gene regulator B; Region: AgrB; pfam04647 350688007043 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 350688007044 ATP binding site [chemical binding]; other site 350688007045 Mg2+ binding site [ion binding]; other site 350688007046 G-X-G motif; other site 350688007047 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 350688007048 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 350688007049 active site 350688007050 phosphorylation site [posttranslational modification] 350688007051 intermolecular recognition site; other site 350688007052 dimerization interface [polypeptide binding]; other site 350688007053 LytTr DNA-binding domain; Region: LytTR; smart00850 350688007054 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 350688007055 diiron binding motif [ion binding]; other site 350688007056 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 350688007057 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 350688007058 catalytic loop [active] 350688007059 iron binding site [ion binding]; other site 350688007060 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350688007061 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 350688007062 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 350688007063 [4Fe-4S] binding site [ion binding]; other site 350688007064 molybdopterin cofactor binding site; other site 350688007065 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 350688007066 molybdopterin cofactor binding site; other site 350688007067 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 350688007068 catalytic loop [active] 350688007069 iron binding site [ion binding]; other site 350688007070 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350688007071 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688007072 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 350688007073 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 350688007074 dimer interface [polypeptide binding]; other site 350688007075 [2Fe-2S] cluster binding site [ion binding]; other site 350688007076 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350688007077 SLBB domain; Region: SLBB; pfam10531 350688007078 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 350688007079 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 350688007080 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350688007081 4Fe-4S binding domain; Region: Fer4; pfam00037 350688007082 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 350688007083 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 350688007084 putative dimer interface [polypeptide binding]; other site 350688007085 [2Fe-2S] cluster binding site [ion binding]; other site 350688007086 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 350688007087 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 350688007088 GIY-YIG motif/motif A; other site 350688007089 active site 350688007090 catalytic site [active] 350688007091 putative DNA binding site [nucleotide binding]; other site 350688007092 metal binding site [ion binding]; metal-binding site 350688007093 UvrB/uvrC motif; Region: UVR; pfam02151 350688007094 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 350688007095 PilZ domain; Region: PilZ; pfam07238 350688007096 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 350688007097 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350688007098 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350688007099 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 350688007100 excinuclease ABC subunit B; Provisional; Region: PRK05298 350688007101 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 350688007102 ATP binding site [chemical binding]; other site 350688007103 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 350688007104 nucleotide binding region [chemical binding]; other site 350688007105 ATP-binding site [chemical binding]; other site 350688007106 Ultra-violet resistance protein B; Region: UvrB; pfam12344 350688007107 UvrB/uvrC motif; Region: UVR; pfam02151 350688007108 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 350688007109 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 350688007110 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 350688007111 protein binding site [polypeptide binding]; other site 350688007112 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 350688007113 Catalytic dyad [active] 350688007114 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 350688007115 Peptidase family M23; Region: Peptidase_M23; pfam01551 350688007116 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 350688007117 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 350688007118 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 350688007119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688007120 Walker A/P-loop; other site 350688007121 ATP binding site [chemical binding]; other site 350688007122 Q-loop/lid; other site 350688007123 ABC transporter signature motif; other site 350688007124 Walker B; other site 350688007125 D-loop; other site 350688007126 H-loop/switch region; other site 350688007127 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 350688007128 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 350688007129 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 350688007130 PrcB C-terminal; Region: PrcB_C; pfam14343 350688007131 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 350688007132 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 350688007133 PYR/PP interface [polypeptide binding]; other site 350688007134 dimer interface [polypeptide binding]; other site 350688007135 TPP binding site [chemical binding]; other site 350688007136 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350688007137 transketolase; Reviewed; Region: PRK05899 350688007138 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 350688007139 TPP-binding site [chemical binding]; other site 350688007140 dimer interface [polypeptide binding]; other site 350688007141 Uncharacterized conserved protein [Function unknown]; Region: COG1284 350688007142 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 350688007143 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 350688007144 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 350688007145 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 350688007146 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 350688007147 PemK-like protein; Region: PemK; pfam02452 350688007148 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 350688007149 alanine racemase; Reviewed; Region: alr; PRK00053 350688007150 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 350688007151 active site 350688007152 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350688007153 dimer interface [polypeptide binding]; other site 350688007154 substrate binding site [chemical binding]; other site 350688007155 catalytic residues [active] 350688007156 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 350688007157 Helix-turn-helix domain; Region: HTH_17; pfam12728 350688007158 TOBE domain; Region: TOBE; cl01440 350688007159 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 350688007160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688007161 Walker A/P-loop; other site 350688007162 ATP binding site [chemical binding]; other site 350688007163 Q-loop/lid; other site 350688007164 ABC transporter signature motif; other site 350688007165 Walker B; other site 350688007166 D-loop; other site 350688007167 H-loop/switch region; other site 350688007168 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350688007169 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688007170 dimer interface [polypeptide binding]; other site 350688007171 conserved gate region; other site 350688007172 putative PBP binding loops; other site 350688007173 ABC-ATPase subunit interface; other site 350688007174 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 350688007175 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350688007176 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688007177 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688007178 Predicted permease [General function prediction only]; Region: COG2056 350688007179 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 350688007180 L-type amino acid transporter; Region: 2A0308; TIGR00911 350688007181 exonuclease SbcC; Region: sbcc; TIGR00618 350688007182 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 350688007183 Walker A/P-loop; other site 350688007184 ATP binding site [chemical binding]; other site 350688007185 Q-loop/lid; other site 350688007186 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688007187 ABC transporter signature motif; other site 350688007188 Walker B; other site 350688007189 D-loop; other site 350688007190 H-loop/switch region; other site 350688007191 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 350688007192 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 350688007193 active site 350688007194 metal binding site [ion binding]; metal-binding site 350688007195 DNA binding site [nucleotide binding] 350688007196 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 350688007197 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 350688007198 Family description; Region: UvrD_C_2; pfam13538 350688007199 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 350688007200 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 350688007201 nudix motif; other site 350688007202 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 350688007203 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350688007204 minor groove reading motif; other site 350688007205 helix-hairpin-helix signature motif; other site 350688007206 substrate binding pocket [chemical binding]; other site 350688007207 active site 350688007208 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 350688007209 DNA binding and oxoG recognition site [nucleotide binding] 350688007210 FlxA-like protein; Region: FlxA; pfam14282 350688007211 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 350688007212 active site 350688007213 metal binding site [ion binding]; metal-binding site 350688007214 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 350688007215 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688007216 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350688007217 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688007218 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688007219 ABC transporter; Region: ABC_tran_2; pfam12848 350688007220 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688007221 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 350688007222 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 350688007223 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 350688007224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 350688007225 hypothetical protein; Provisional; Region: PRK13663 350688007226 Predicted membrane protein [Function unknown]; Region: COG2855 350688007227 aspartate aminotransferase; Provisional; Region: PRK06348 350688007228 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 350688007229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688007230 homodimer interface [polypeptide binding]; other site 350688007231 catalytic residue [active] 350688007232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 350688007233 Nucleoside recognition; Region: Gate; pfam07670 350688007234 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 350688007235 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 350688007236 putative active site [active] 350688007237 metal binding site [ion binding]; metal-binding site 350688007238 FMN-binding domain; Region: FMN_bind; cl01081 350688007239 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 350688007240 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350688007241 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg1; cd04777 350688007242 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350688007243 DNA binding residues [nucleotide binding] 350688007244 putative dimer interface [polypeptide binding]; other site 350688007245 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 350688007246 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 350688007247 Peptidase family M50; Region: Peptidase_M50; pfam02163 350688007248 active site 350688007249 putative substrate binding region [chemical binding]; other site 350688007250 FtsH Extracellular; Region: FtsH_ext; pfam06480 350688007251 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 350688007252 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 350688007253 Walker A motif; other site 350688007254 ATP binding site [chemical binding]; other site 350688007255 Walker B motif; other site 350688007256 arginine finger; other site 350688007257 Peptidase family M41; Region: Peptidase_M41; pfam01434 350688007258 Spore germination protein; Region: Spore_permease; cl17796 350688007259 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 350688007260 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 350688007261 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 350688007262 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 350688007263 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 350688007264 putative oligomer interface [polypeptide binding]; other site 350688007265 putative active site [active] 350688007266 metal binding site [ion binding]; metal-binding site 350688007267 hypothetical protein; Provisional; Region: PRK04164 350688007268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688007269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688007270 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 350688007271 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_family; cd02803 350688007272 active site 350688007273 FMN binding site [chemical binding]; other site 350688007274 substrate binding site [chemical binding]; other site 350688007275 putative catalytic residue [active] 350688007276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688007277 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 350688007278 active site 350688007279 putative catalytic site [active] 350688007280 DNA binding site [nucleotide binding] 350688007281 putative phosphate binding site [ion binding]; other site 350688007282 metal binding site A [ion binding]; metal-binding site 350688007283 AP binding site [nucleotide binding]; other site 350688007284 metal binding site B [ion binding]; metal-binding site 350688007285 CGGC domain; Region: CGGC; pfam08821 350688007286 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 350688007287 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688007288 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688007289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688007290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 350688007291 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350688007292 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 350688007293 S-adenosylmethionine binding site [chemical binding]; other site 350688007294 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 350688007295 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 350688007296 generic binding surface II; other site 350688007297 generic binding surface I; other site 350688007298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688007299 Zn2+ binding site [ion binding]; other site 350688007300 Mg2+ binding site [ion binding]; other site 350688007301 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 350688007302 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 350688007303 Walker A motif; other site 350688007304 ATP binding site [chemical binding]; other site 350688007305 Walker B motif; other site 350688007306 arginine finger; other site 350688007307 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 350688007308 metal ion-dependent adhesion site (MIDAS); other site 350688007309 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 350688007310 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 350688007311 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 350688007312 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 350688007313 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 350688007314 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 350688007315 ABC-ATPase subunit interface; other site 350688007316 dimer interface [polypeptide binding]; other site 350688007317 putative PBP binding regions; other site 350688007318 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 350688007319 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 350688007320 intersubunit interface [polypeptide binding]; other site 350688007321 Rubrerythrin [Energy production and conversion]; Region: COG1592 350688007322 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 350688007323 binuclear metal center [ion binding]; other site 350688007324 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 350688007325 iron binding site [ion binding]; other site 350688007326 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 350688007327 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 350688007328 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 350688007329 active site 350688007330 catalytic residue [active] 350688007331 dimer interface [polypeptide binding]; other site 350688007332 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 350688007333 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 350688007334 FMN binding site [chemical binding]; other site 350688007335 substrate binding site [chemical binding]; other site 350688007336 putative catalytic residue [active] 350688007337 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 350688007338 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 350688007339 tetramer interface [polypeptide binding]; other site 350688007340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688007341 catalytic residue [active] 350688007342 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 350688007343 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350688007344 ATP binding site [chemical binding]; other site 350688007345 Mg++ binding site [ion binding]; other site 350688007346 motif III; other site 350688007347 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 350688007348 nucleotide binding region [chemical binding]; other site 350688007349 ATP-binding site [chemical binding]; other site 350688007350 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 350688007351 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 350688007352 putative dimer interface [polypeptide binding]; other site 350688007353 putative anticodon binding site; other site 350688007354 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 350688007355 homodimer interface [polypeptide binding]; other site 350688007356 motif 1; other site 350688007357 motif 2; other site 350688007358 active site 350688007359 motif 3; other site 350688007360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350688007361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350688007362 LysR substrate binding domain; Region: LysR_substrate; pfam03466 350688007363 dimerization interface [polypeptide binding]; other site 350688007364 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 350688007365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688007366 catalytic residue [active] 350688007367 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 350688007368 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 350688007369 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 350688007370 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 350688007371 active site 350688007372 NodB motif; other site 350688007373 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 350688007374 active site 350688007375 catalytic residues [active] 350688007376 metal binding site [ion binding]; metal-binding site 350688007377 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 350688007378 non-specific DNA binding site [nucleotide binding]; other site 350688007379 salt bridge; other site 350688007380 sequence-specific DNA binding site [nucleotide binding]; other site 350688007381 VanZ like family; Region: VanZ; pfam04892 350688007382 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 350688007383 Predicted transcriptional regulators [Transcription]; Region: COG1695 350688007384 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350688007385 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 350688007386 H+ Antiporter protein; Region: 2A0121; TIGR00900 350688007387 putative substrate translocation pore; other site 350688007388 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350688007389 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg1; cd04777 350688007390 DNA binding residues [nucleotide binding] 350688007391 putative dimer interface [polypeptide binding]; other site 350688007392 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350688007393 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 350688007394 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350688007395 active site 350688007396 metal binding site [ion binding]; metal-binding site 350688007397 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 350688007398 DEAD/DEAH box helicase; Region: DEAD; pfam00270 350688007399 DEAD_2; Region: DEAD_2; pfam06733 350688007400 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 350688007401 YcxB-like protein; Region: YcxB; pfam14317 350688007402 Domain of unknown function DUF77; Region: DUF77; pfam01910 350688007403 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 350688007404 putative substrate binding pocket [chemical binding]; other site 350688007405 AC domain interface; other site 350688007406 catalytic triad [active] 350688007407 AB domain interface; other site 350688007408 interchain disulfide; other site 350688007409 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 350688007410 Coenzyme A transferase; Region: CoA_trans; cl17247 350688007411 PAS domain S-box; Region: sensory_box; TIGR00229 350688007412 PAS domain; Region: PAS; smart00091 350688007413 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 350688007414 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 350688007415 Walker A motif; other site 350688007416 ATP binding site [chemical binding]; other site 350688007417 Walker B motif; other site 350688007418 arginine finger; other site 350688007419 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688007420 Cytochrome c552; Region: Cytochrom_C552; pfam02335 350688007421 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 350688007422 ResB-like family; Region: ResB; pfam05140 350688007423 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 350688007424 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 350688007425 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 350688007426 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 350688007427 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 350688007428 active site 350688007429 NTP binding site [chemical binding]; other site 350688007430 metal binding triad [ion binding]; metal-binding site 350688007431 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 350688007432 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688007433 Zn2+ binding site [ion binding]; other site 350688007434 Mg2+ binding site [ion binding]; other site 350688007435 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 350688007436 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 350688007437 putative deacylase active site [active] 350688007438 Predicted membrane protein [Function unknown]; Region: COG2311 350688007439 Protein of unknown function (DUF418); Region: DUF418; cl12135 350688007440 Protein of unknown function (DUF418); Region: DUF418; pfam04235 350688007441 Cache domain; Region: Cache_1; pfam02743 350688007442 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 350688007443 dimerization interface [polypeptide binding]; other site 350688007444 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688007445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688007446 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688007447 dimer interface [polypeptide binding]; other site 350688007448 putative CheW interface [polypeptide binding]; other site 350688007449 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 350688007450 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350688007451 Beta-Casp domain; Region: Beta-Casp; smart01027 350688007452 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 350688007453 FlgN protein; Region: FlgN; pfam05130 350688007454 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 350688007455 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350688007456 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 350688007457 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 350688007458 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 350688007459 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 350688007460 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 350688007461 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350688007462 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688007463 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350688007464 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688007465 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 350688007466 TM-ABC transporter signature motif; other site 350688007467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688007468 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 350688007469 TM-ABC transporter signature motif; other site 350688007470 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 350688007471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688007472 Walker A/P-loop; other site 350688007473 ATP binding site [chemical binding]; other site 350688007474 Q-loop/lid; other site 350688007475 ABC transporter signature motif; other site 350688007476 Walker B; other site 350688007477 D-loop; other site 350688007478 H-loop/switch region; other site 350688007479 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 350688007480 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 350688007481 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 350688007482 ligand binding site [chemical binding]; other site 350688007483 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350688007484 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 350688007485 ligand binding site [chemical binding]; other site 350688007486 flexible hinge region; other site 350688007487 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 350688007488 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 350688007489 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 350688007490 active site 350688007491 substrate binding site [chemical binding]; other site 350688007492 metal binding site [ion binding]; metal-binding site 350688007493 Uncharacterized conserved protein [Function unknown]; Region: COG0397 350688007494 hypothetical protein; Validated; Region: PRK00029 350688007495 Cache domain; Region: Cache_1; pfam02743 350688007496 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688007497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688007498 dimer interface [polypeptide binding]; other site 350688007499 putative CheW interface [polypeptide binding]; other site 350688007500 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688007501 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 350688007502 Hexamer interface [polypeptide binding]; other site 350688007503 Putative hexagonal pore residue; other site 350688007504 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 350688007505 Propanediol utilisation protein PduL; Region: PduL; pfam06130 350688007506 Propanediol utilisation protein PduL; Region: PduL; pfam06130 350688007507 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 350688007508 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 350688007509 putative catalytic cysteine [active] 350688007510 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688007511 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350688007512 Hexamer interface [polypeptide binding]; other site 350688007513 Hexagonal pore residue; other site 350688007514 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 350688007515 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 350688007516 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688007517 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 350688007518 putative hexamer interface [polypeptide binding]; other site 350688007519 putative hexagonal pore; other site 350688007520 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 350688007521 putative hexamer interface [polypeptide binding]; other site 350688007522 putative hexagonal pore; other site 350688007523 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 350688007524 SLBB domain; Region: SLBB; pfam10531 350688007525 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 350688007526 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 350688007527 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 350688007528 Hexamer/Pentamer interface [polypeptide binding]; other site 350688007529 central pore; other site 350688007530 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 350688007531 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350688007532 nucleotide binding site [chemical binding]; other site 350688007533 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350688007534 nucleotide binding site [chemical binding]; other site 350688007535 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 350688007536 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 350688007537 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 350688007538 G1 box; other site 350688007539 GTP/Mg2+ binding site [chemical binding]; other site 350688007540 G2 box; other site 350688007541 Switch I region; other site 350688007542 Switch II region; other site 350688007543 G4 box; other site 350688007544 G5 box; other site 350688007545 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 350688007546 putative hexamer interface [polypeptide binding]; other site 350688007547 putative hexagonal pore; other site 350688007548 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 350688007549 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 350688007550 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 350688007551 FeS/SAM binding site; other site 350688007552 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 350688007553 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 350688007554 dimer interface [polypeptide binding]; other site 350688007555 active site 350688007556 glycine loop; other site 350688007557 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 350688007558 putative catalytic cysteine [active] 350688007559 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688007560 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350688007561 Hexamer interface [polypeptide binding]; other site 350688007562 Hexagonal pore residue; other site 350688007563 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350688007564 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350688007565 Hexamer interface [polypeptide binding]; other site 350688007566 Hexagonal pore residue; other site 350688007567 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 350688007568 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 350688007569 active site 350688007570 ATP binding site [chemical binding]; other site 350688007571 substrate binding site [chemical binding]; other site 350688007572 dimer interface [polypeptide binding]; other site 350688007573 Phosphotransferase enzyme family; Region: APH; pfam01636 350688007574 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 350688007575 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 350688007576 putative active site [active] 350688007577 metal binding site [ion binding]; metal-binding site 350688007578 Histidine kinase; Region: His_kinase; pfam06580 350688007579 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 350688007580 ATP binding site [chemical binding]; other site 350688007581 Mg2+ binding site [ion binding]; other site 350688007582 G-X-G motif; other site 350688007583 Response regulator receiver domain; Region: Response_reg; pfam00072 350688007584 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 350688007585 active site 350688007586 phosphorylation site [posttranslational modification] 350688007587 intermolecular recognition site; other site 350688007588 dimerization interface [polypeptide binding]; other site 350688007589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688007590 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688007591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688007592 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 350688007593 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 350688007594 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 350688007595 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 350688007596 TPP-binding site [chemical binding]; other site 350688007597 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 350688007598 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 350688007599 dimer interface [polypeptide binding]; other site 350688007600 PYR/PP interface [polypeptide binding]; other site 350688007601 TPP binding site [chemical binding]; other site 350688007602 substrate binding site [chemical binding]; other site 350688007603 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350688007604 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 350688007605 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 350688007606 P-loop; other site 350688007607 Magnesium ion binding site [ion binding]; other site 350688007608 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350688007609 nucleotide binding site [chemical binding]; other site 350688007610 Acetokinase family; Region: Acetate_kinase; cl17229 350688007611 phosphate butyryltransferase; Validated; Region: PRK05805 350688007612 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 350688007613 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 350688007614 putative active site [active] 350688007615 heme pocket [chemical binding]; other site 350688007616 PAS domain; Region: PAS; smart00091 350688007617 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 350688007618 Walker A motif; other site 350688007619 ATP binding site [chemical binding]; other site 350688007620 Walker B motif; other site 350688007621 arginine finger; other site 350688007622 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688007623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 350688007624 YbbR-like protein; Region: YbbR; pfam07949 350688007625 YbbR-like protein; Region: YbbR; pfam07949 350688007626 Uncharacterized conserved protein [Function unknown]; Region: COG1624 350688007627 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 350688007628 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 350688007629 NAD(P) binding pocket [chemical binding]; other site 350688007630 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 350688007631 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 350688007632 inhibitor-cofactor binding pocket; inhibition site 350688007633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688007634 catalytic residue [active] 350688007635 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 350688007636 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 350688007637 hypothetical protein; Provisional; Region: PRK09609 350688007638 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 350688007639 GSH binding site [chemical binding]; other site 350688007640 catalytic residues [active] 350688007641 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 350688007642 Predicted membrane protein [Function unknown]; Region: COG2323 350688007643 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 350688007644 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 350688007645 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 350688007646 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350688007647 Domain of unknown function DUF21; Region: DUF21; pfam01595 350688007648 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 350688007649 Transporter associated domain; Region: CorC_HlyC; pfam03471 350688007650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350688007651 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350688007652 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350688007653 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688007654 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688007655 Walker A/P-loop; other site 350688007656 ATP binding site [chemical binding]; other site 350688007657 Q-loop/lid; other site 350688007658 ABC transporter signature motif; other site 350688007659 Walker B; other site 350688007660 D-loop; other site 350688007661 H-loop/switch region; other site 350688007662 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 350688007663 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 350688007664 ABC-ATPase subunit interface; other site 350688007665 dimer interface [polypeptide binding]; other site 350688007666 putative PBP binding regions; other site 350688007667 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688007668 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 350688007669 ABC-ATPase subunit interface; other site 350688007670 dimer interface [polypeptide binding]; other site 350688007671 putative PBP binding regions; other site 350688007672 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688007673 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 350688007674 siderophore binding site; other site 350688007675 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 350688007676 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 350688007677 motif I; other site 350688007678 active site 350688007679 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350688007680 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 350688007681 active site 350688007682 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 350688007683 PBP superfamily domain; Region: PBP_like_2; pfam12849 350688007684 hybrid cluster protein; Provisional; Region: PRK05290 350688007685 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 350688007686 ACS interaction site; other site 350688007687 CODH interaction site; other site 350688007688 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 350688007689 hybrid metal cluster; other site 350688007690 Protein of unknown function (DUF523); Region: DUF523; cl00733 350688007691 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 350688007692 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 350688007693 active site 350688007694 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688007695 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 350688007696 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 350688007697 Na binding site [ion binding]; other site 350688007698 Putative cyclase; Region: Cyclase; pfam04199 350688007699 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 350688007700 putative acyltransferase; Provisional; Region: PRK05790 350688007701 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 350688007702 dimer interface [polypeptide binding]; other site 350688007703 active site 350688007704 PAS fold; Region: PAS_4; pfam08448 350688007705 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 350688007706 putative active site [active] 350688007707 heme pocket [chemical binding]; other site 350688007708 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 350688007709 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 350688007710 Walker A motif; other site 350688007711 ATP binding site [chemical binding]; other site 350688007712 Walker B motif; other site 350688007713 arginine finger; other site 350688007714 aminoglycoside resistance protein; Provisional; Region: PRK13746 350688007715 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 350688007716 active site 350688007717 NTP binding site [chemical binding]; other site 350688007718 metal binding triad [ion binding]; metal-binding site 350688007719 antibiotic binding site [chemical binding]; other site 350688007720 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 350688007721 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 350688007722 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 350688007723 ring oligomerisation interface [polypeptide binding]; other site 350688007724 ATP/Mg binding site [chemical binding]; other site 350688007725 stacking interactions; other site 350688007726 hinge regions; other site 350688007727 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 350688007728 oligomerisation interface [polypeptide binding]; other site 350688007729 mobile loop; other site 350688007730 roof hairpin; other site 350688007731 Protein of unknown function (DUF554); Region: DUF554; pfam04474 350688007732 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 350688007733 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 350688007734 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350688007735 helix-hairpin-helix signature motif; other site 350688007736 substrate binding pocket [chemical binding]; other site 350688007737 active site 350688007738 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 350688007739 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 350688007740 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350688007741 Walker A/P-loop; other site 350688007742 ATP binding site [chemical binding]; other site 350688007743 Q-loop/lid; other site 350688007744 ABC transporter signature motif; other site 350688007745 Walker B; other site 350688007746 D-loop; other site 350688007747 H-loop/switch region; other site 350688007748 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 350688007749 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 350688007750 phosphate binding site [ion binding]; other site 350688007751 4Fe-4S binding domain; Region: Fer4; pfam00037 350688007752 Transcriptional regulators [Transcription]; Region: PurR; COG1609 350688007753 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350688007754 DNA binding site [nucleotide binding] 350688007755 domain linker motif; other site 350688007756 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 350688007757 dimerization interface [polypeptide binding]; other site 350688007758 ligand binding site [chemical binding]; other site 350688007759 cytosine deaminase; Provisional; Region: PRK09230 350688007760 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 350688007761 active site 350688007762 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 350688007763 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 350688007764 Na binding site [ion binding]; other site 350688007765 putative substrate binding site [chemical binding]; other site 350688007766 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 350688007767 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 350688007768 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 350688007769 NAD(P) binding site [chemical binding]; other site 350688007770 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; cl17639 350688007771 Asp23 family; Region: Asp23; pfam03780 350688007772 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 350688007773 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 350688007774 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350688007775 MarR family; Region: MarR_2; pfam12802 350688007776 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 350688007777 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 350688007778 CoA binding domain; Region: CoA_binding; pfam02629 350688007779 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350688007780 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688007781 Walker A/P-loop; other site 350688007782 ATP binding site [chemical binding]; other site 350688007783 Q-loop/lid; other site 350688007784 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688007785 ABC transporter; Region: ABC_tran_2; pfam12848 350688007786 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350688007787 UGMP family protein; Validated; Region: PRK09604 350688007788 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 350688007789 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 350688007790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688007791 Coenzyme A binding pocket [chemical binding]; other site 350688007792 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 350688007793 Glycoprotease family; Region: Peptidase_M22; pfam00814 350688007794 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 350688007795 Response regulator receiver domain; Region: Response_reg; pfam00072 350688007796 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 350688007797 active site 350688007798 phosphorylation site [posttranslational modification] 350688007799 intermolecular recognition site; other site 350688007800 dimerization interface [polypeptide binding]; other site 350688007801 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 350688007802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688007803 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688007804 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 350688007805 dimer interface [polypeptide binding]; other site 350688007806 phosphorylation site [posttranslational modification] 350688007807 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 350688007808 ATP binding site [chemical binding]; other site 350688007809 Mg2+ binding site [ion binding]; other site 350688007810 G-X-G motif; other site 350688007811 Predicted membrane protein [Function unknown]; Region: COG3601 350688007812 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 350688007813 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 350688007814 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 350688007815 active site 350688007816 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 350688007817 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 350688007818 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 350688007819 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 350688007820 RNA binding site [nucleotide binding]; other site 350688007821 Flagellar protein FliS; Region: FliS; cl00654 350688007822 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 350688007823 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 350688007824 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 350688007825 Protein of unknown function (DUF327); Region: DUF327; pfam03885 350688007826 Cache domain; Region: Cache_1; pfam02743 350688007827 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 350688007828 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 350688007829 dimerization interface [polypeptide binding]; other site 350688007830 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688007831 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688007832 dimer interface [polypeptide binding]; other site 350688007833 putative CheW interface [polypeptide binding]; other site 350688007834 peptide chain release factor 2; Provisional; Region: PRK05589 350688007835 PCRF domain; Region: PCRF; pfam03462 350688007836 RF-1 domain; Region: RF-1; pfam00472 350688007837 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 350688007838 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 350688007839 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 350688007840 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 350688007841 30S subunit binding site; other site 350688007842 FlgN protein; Region: FlgN; pfam05130 350688007843 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 350688007844 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 350688007845 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 350688007846 FlaG protein; Region: FlaG; pfam03646 350688007847 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 350688007848 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 350688007849 homodimer interface [polypeptide binding]; other site 350688007850 substrate-cofactor binding pocket; other site 350688007851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688007852 catalytic residue [active] 350688007853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350688007854 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350688007855 carbon storage regulator; Provisional; Region: PRK01712 350688007856 flagellar assembly protein FliW; Provisional; Region: PRK13285 350688007857 PAS fold; Region: PAS_4; pfam08448 350688007858 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 350688007859 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 350688007860 Walker A motif; other site 350688007861 ATP binding site [chemical binding]; other site 350688007862 Walker B motif; other site 350688007863 arginine finger; other site 350688007864 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688007865 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 350688007866 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 350688007867 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 350688007868 Walker A/P-loop; other site 350688007869 ATP binding site [chemical binding]; other site 350688007870 Q-loop/lid; other site 350688007871 ABC transporter signature motif; other site 350688007872 Walker B; other site 350688007873 D-loop; other site 350688007874 H-loop/switch region; other site 350688007875 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 350688007876 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 350688007877 Walker A/P-loop; other site 350688007878 ATP binding site [chemical binding]; other site 350688007879 Q-loop/lid; other site 350688007880 ABC transporter signature motif; other site 350688007881 Walker B; other site 350688007882 D-loop; other site 350688007883 H-loop/switch region; other site 350688007884 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 350688007885 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 350688007886 TM-ABC transporter signature motif; other site 350688007887 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688007888 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 350688007889 TM-ABC transporter signature motif; other site 350688007890 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 350688007891 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_12; cd06347 350688007892 putative ligand binding site [chemical binding]; other site 350688007893 HDOD domain; Region: HDOD; pfam08668 350688007894 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688007895 Zn2+ binding site [ion binding]; other site 350688007896 Mg2+ binding site [ion binding]; other site 350688007897 flagellar operon protein TIGR03826; Region: YvyF 350688007898 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350688007899 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 350688007900 dimer interface [polypeptide binding]; other site 350688007901 active site 350688007902 metal binding site [ion binding]; metal-binding site 350688007903 glutathione binding site [chemical binding]; other site 350688007904 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 350688007905 pseudaminic acid synthase; Region: PseI; TIGR03586 350688007906 NeuB family; Region: NeuB; pfam03102 350688007907 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 350688007908 NeuB binding interface [polypeptide binding]; other site 350688007909 putative substrate binding site [chemical binding]; other site 350688007910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688007911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688007912 Coenzyme A binding pocket [chemical binding]; other site 350688007913 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 350688007914 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350688007915 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 350688007916 ligand binding site; other site 350688007917 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 350688007918 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 350688007919 inhibitor-cofactor binding pocket; inhibition site 350688007920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350688007921 catalytic residue [active] 350688007922 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 350688007923 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 350688007924 NAD(P) binding site [chemical binding]; other site 350688007925 homodimer interface [polypeptide binding]; other site 350688007926 substrate binding site [chemical binding]; other site 350688007927 active site 350688007928 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 350688007929 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 350688007930 flagellin; Provisional; Region: PRK12804 350688007931 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 350688007932 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 350688007933 Cache domain; Region: Cache_1; pfam02743 350688007934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688007935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688007936 dimer interface [polypeptide binding]; other site 350688007937 putative CheW interface [polypeptide binding]; other site 350688007938 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 350688007939 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 350688007940 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 350688007941 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 350688007942 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 350688007943 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 350688007944 FlgN protein; Region: FlgN; pfam05130 350688007945 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 350688007946 flagellar operon protein TIGR03826; Region: YvyF 350688007947 comF family protein; Region: comF; TIGR00201 350688007948 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688007949 active site 350688007950 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 350688007951 AAA domain; Region: AAA_30; pfam13604 350688007952 Family description; Region: UvrD_C_2; pfam13538 350688007953 YvrJ protein family; Region: YvrJ; pfam12841 350688007954 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 350688007955 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 350688007956 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 350688007957 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688007958 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350688007959 S-adenosylmethionine synthetase; Validated; Region: PRK05250 350688007960 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 350688007961 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 350688007962 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 350688007963 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 350688007964 Sporulation and spore germination; Region: Germane; smart00909 350688007965 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 350688007966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688007967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688007968 metal binding site [ion binding]; metal-binding site 350688007969 active site 350688007970 I-site; other site 350688007971 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 350688007972 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 350688007973 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350688007974 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 350688007975 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350688007976 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 350688007977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688007978 dimer interface [polypeptide binding]; other site 350688007979 conserved gate region; other site 350688007980 putative PBP binding loops; other site 350688007981 ABC-ATPase subunit interface; other site 350688007982 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 350688007983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688007984 dimer interface [polypeptide binding]; other site 350688007985 conserved gate region; other site 350688007986 putative PBP binding loops; other site 350688007987 ABC-ATPase subunit interface; other site 350688007988 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350688007989 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 350688007990 Walker A/P-loop; other site 350688007991 ATP binding site [chemical binding]; other site 350688007992 Q-loop/lid; other site 350688007993 ABC transporter signature motif; other site 350688007994 Walker B; other site 350688007995 D-loop; other site 350688007996 H-loop/switch region; other site 350688007997 TOBE domain; Region: TOBE_2; pfam08402 350688007998 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 350688007999 dinuclear metal binding motif [ion binding]; other site 350688008000 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 350688008001 MgtC family; Region: MgtC; pfam02308 350688008002 GntP family permease; Region: GntP_permease; pfam02447 350688008003 fructuronate transporter; Provisional; Region: PRK10034; cl15264 350688008004 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 350688008005 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 350688008006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 350688008007 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350688008008 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 350688008009 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350688008010 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 350688008011 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688008012 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350688008013 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 350688008014 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688008015 Rod binding protein; Region: Rod-binding; cl01626 350688008016 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 350688008017 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 350688008018 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 350688008019 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 350688008020 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 350688008021 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12819 350688008022 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 350688008023 rod shape-determining protein Mbl; Provisional; Region: PRK13928 350688008024 MreB and similar proteins; Region: MreB_like; cd10225 350688008025 nucleotide binding site [chemical binding]; other site 350688008026 Mg binding site [ion binding]; other site 350688008027 putative protofilament interaction site [polypeptide binding]; other site 350688008028 RodZ interaction site [polypeptide binding]; other site 350688008029 Stage III sporulation protein D; Region: SpoIIID; pfam12116 350688008030 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350688008031 Peptidase family M23; Region: Peptidase_M23; pfam01551 350688008032 Stage II sporulation protein; Region: SpoIID; pfam08486 350688008033 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 350688008034 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 350688008035 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 350688008036 hinge; other site 350688008037 active site 350688008038 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 350688008039 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 350688008040 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 350688008041 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 350688008042 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 350688008043 gamma subunit interface [polypeptide binding]; other site 350688008044 epsilon subunit interface [polypeptide binding]; other site 350688008045 LBP interface [polypeptide binding]; other site 350688008046 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 350688008047 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350688008048 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 350688008049 alpha subunit interaction interface [polypeptide binding]; other site 350688008050 Walker A motif; other site 350688008051 ATP binding site [chemical binding]; other site 350688008052 Walker B motif; other site 350688008053 inhibitor binding site; inhibition site 350688008054 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 350688008055 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 350688008056 core domain interface [polypeptide binding]; other site 350688008057 delta subunit interface [polypeptide binding]; other site 350688008058 epsilon subunit interface [polypeptide binding]; other site 350688008059 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 350688008060 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350688008061 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 350688008062 beta subunit interaction interface [polypeptide binding]; other site 350688008063 Walker A motif; other site 350688008064 ATP binding site [chemical binding]; other site 350688008065 Walker B motif; other site 350688008066 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 350688008067 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 350688008068 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 350688008069 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 350688008070 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 350688008071 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 350688008072 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 350688008073 ATP synthase I chain; Region: ATP_synt_I; pfam03899 350688008074 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 350688008075 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 350688008076 active site 350688008077 homodimer interface [polypeptide binding]; other site 350688008078 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 350688008079 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 350688008080 Mg++ binding site [ion binding]; other site 350688008081 putative catalytic motif [active] 350688008082 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 350688008083 catalytic motif [active] 350688008084 Zn binding site [ion binding]; other site 350688008085 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688008086 active site 350688008087 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 350688008088 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350688008089 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350688008090 active site 350688008091 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 350688008092 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 350688008093 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350688008094 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350688008095 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 350688008096 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350688008097 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 350688008098 phosphopeptide binding site; other site 350688008099 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 350688008100 peptide chain release factor 1; Validated; Region: prfA; PRK00591 350688008101 This domain is found in peptide chain release factors; Region: PCRF; smart00937 350688008102 RF-1 domain; Region: RF-1; pfam00472 350688008103 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 350688008104 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 350688008105 S-adenosylmethionine binding site [chemical binding]; other site 350688008106 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 350688008107 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 350688008108 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350688008109 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 350688008110 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 350688008111 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350688008112 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 350688008113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688008114 Walker A/P-loop; other site 350688008115 ATP binding site [chemical binding]; other site 350688008116 Q-loop/lid; other site 350688008117 ABC transporter signature motif; other site 350688008118 Walker B; other site 350688008119 D-loop; other site 350688008120 H-loop/switch region; other site 350688008121 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 350688008122 Mg2+ binding site [ion binding]; other site 350688008123 G-X-G motif; other site 350688008124 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 350688008125 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 350688008126 HIGH motif; other site 350688008127 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 350688008128 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688008129 active site 350688008130 KMSKS motif; other site 350688008131 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 350688008132 tRNA binding surface [nucleotide binding]; other site 350688008133 Domain of unknown function (DUF368); Region: DUF368; pfam04018 350688008134 thymidine kinase; Provisional; Region: PRK04296 350688008135 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 350688008136 transcription termination factor Rho; Provisional; Region: rho; PRK09376 350688008137 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 350688008138 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 350688008139 RNA binding site [nucleotide binding]; other site 350688008140 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 350688008141 multimer interface [polypeptide binding]; other site 350688008142 Walker A motif; other site 350688008143 ATP binding site [chemical binding]; other site 350688008144 Walker B motif; other site 350688008145 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350688008146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688008147 Walker A/P-loop; other site 350688008148 ATP binding site [chemical binding]; other site 350688008149 Q-loop/lid; other site 350688008150 ABC transporter signature motif; other site 350688008151 Walker B; other site 350688008152 D-loop; other site 350688008153 H-loop/switch region; other site 350688008154 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350688008155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688008156 dimer interface [polypeptide binding]; other site 350688008157 conserved gate region; other site 350688008158 putative PBP binding loops; other site 350688008159 ABC-ATPase subunit interface; other site 350688008160 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350688008161 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 350688008162 substrate binding pocket [chemical binding]; other site 350688008163 membrane-bound complex binding site; other site 350688008164 hinge residues; other site 350688008165 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 350688008166 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 350688008167 putative active site [active] 350688008168 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 350688008169 active site 350688008170 intersubunit interactions; other site 350688008171 catalytic residue [active] 350688008172 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 350688008173 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 350688008174 active site 2 [active] 350688008175 active site 1 [active] 350688008176 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 350688008177 Na2 binding site [ion binding]; other site 350688008178 putative substrate binding site 1 [chemical binding]; other site 350688008179 Na binding site 1 [ion binding]; other site 350688008180 putative substrate binding site 2 [chemical binding]; other site 350688008181 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 350688008182 Na2 binding site [ion binding]; other site 350688008183 putative substrate binding site 1 [chemical binding]; other site 350688008184 Na binding site 1 [ion binding]; other site 350688008185 putative substrate binding site 2 [chemical binding]; other site 350688008186 S-layer homology domain; Region: SLH; pfam00395 350688008187 S-layer homology domain; Region: SLH; pfam00395 350688008188 S-layer homology domain; Region: SLH; pfam00395 350688008189 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 350688008190 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 350688008191 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 350688008192 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 350688008193 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 350688008194 Interdomain contacts; other site 350688008195 Cytokine receptor motif; other site 350688008196 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 350688008197 Bacterial Ig-like domain; Region: Big_5; pfam13205 350688008198 Cache domain; Region: Cache_1; pfam02743 350688008199 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 350688008200 dimerization interface [polypeptide binding]; other site 350688008201 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688008202 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688008203 dimer interface [polypeptide binding]; other site 350688008204 putative CheW interface [polypeptide binding]; other site 350688008205 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 350688008206 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 350688008207 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 350688008208 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688008209 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688008210 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350688008211 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688008212 FtsX-like permease family; Region: FtsX; pfam02687 350688008213 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 350688008214 lipoyl-biotinyl attachment site [posttranslational modification]; other site 350688008215 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688008216 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 350688008217 E3 interaction surface; other site 350688008218 lipoyl attachment site [posttranslational modification]; other site 350688008219 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688008220 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688008221 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688008222 Walker A/P-loop; other site 350688008223 ATP binding site [chemical binding]; other site 350688008224 Q-loop/lid; other site 350688008225 ABC transporter signature motif; other site 350688008226 Walker B; other site 350688008227 D-loop; other site 350688008228 H-loop/switch region; other site 350688008229 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 350688008230 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 350688008231 HlyD family secretion protein; Region: HlyD_3; pfam13437 350688008232 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 350688008233 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350688008234 FtsX-like permease family; Region: FtsX; pfam02687 350688008235 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350688008236 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350688008237 FtsX-like permease family; Region: FtsX; pfam02687 350688008238 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350688008239 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350688008240 Walker A/P-loop; other site 350688008241 ATP binding site [chemical binding]; other site 350688008242 Q-loop/lid; other site 350688008243 ABC transporter signature motif; other site 350688008244 Walker B; other site 350688008245 D-loop; other site 350688008246 H-loop/switch region; other site 350688008247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688008248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688008249 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 350688008250 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 350688008251 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 350688008252 active site 350688008253 DNA binding site [nucleotide binding] 350688008254 Int/Topo IB signature motif; other site 350688008255 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350688008256 MULE transposase domain; Region: MULE; pfam10551 350688008257 S-layer homology domain; Region: SLH; pfam00395 350688008258 S-layer homology domain; Region: SLH; pfam00395 350688008259 S-layer homology domain; Region: SLH; pfam00395 350688008260 stage II sporulation protein E; Region: spore_II_E; TIGR02865 350688008261 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350688008262 exopolyphosphatase; Region: exo_poly_only; TIGR03706 350688008263 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 350688008264 hypothetical protein; Provisional; Region: PRK05807 350688008265 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 350688008266 RNA binding site [nucleotide binding]; other site 350688008267 Septum formation initiator; Region: DivIC; pfam04977 350688008268 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 350688008269 YabP family; Region: YabP; cl06766 350688008270 Stage II sporulation protein; Region: SpoIID; pfam08486 350688008271 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 350688008272 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 350688008273 RNA binding surface [nucleotide binding]; other site 350688008274 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 350688008275 IHF - DNA interface [nucleotide binding]; other site 350688008276 IHF dimer interface [polypeptide binding]; other site 350688008277 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 350688008278 putative SAM binding site [chemical binding]; other site 350688008279 putative homodimer interface [polypeptide binding]; other site 350688008280 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 350688008281 homodimer interface [polypeptide binding]; other site 350688008282 metal binding site [ion binding]; metal-binding site 350688008283 stage V sporulation protein B; Region: spore_V_B; TIGR02900 350688008284 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 350688008285 stage V sporulation protein T; Region: spore_V_T; TIGR02851 350688008286 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 350688008287 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 350688008288 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 350688008289 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 350688008290 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 350688008291 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 350688008292 ATP binding site [chemical binding]; other site 350688008293 putative Mg++ binding site [ion binding]; other site 350688008294 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 350688008295 nucleotide binding region [chemical binding]; other site 350688008296 ATP-binding site [chemical binding]; other site 350688008297 TRCF domain; Region: TRCF; pfam03461 350688008298 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 350688008299 putative active site [active] 350688008300 catalytic residue [active] 350688008301 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 350688008302 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 350688008303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688008304 active site 350688008305 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 350688008306 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 350688008307 Substrate binding site; other site 350688008308 Mg++ binding site; other site 350688008309 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 350688008310 active site 350688008311 substrate binding site [chemical binding]; other site 350688008312 CoA binding site [chemical binding]; other site 350688008313 regulatory protein SpoVG; Reviewed; Region: PRK13259 350688008314 pur operon repressor; Provisional; Region: PRK09213 350688008315 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 350688008316 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350688008317 active site 350688008318 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350688008319 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 350688008320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350688008321 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350688008322 Transcriptional regulator [Transcription]; Region: LytR; COG1316 350688008323 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350688008324 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350688008325 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 350688008326 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 350688008327 Protein of unknown function DUF58; Region: DUF58; pfam01882 350688008328 MoxR-like ATPases [General function prediction only]; Region: COG0714 350688008329 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 350688008330 Walker A motif; other site 350688008331 ATP binding site [chemical binding]; other site 350688008332 Walker B motif; other site 350688008333 arginine finger; other site 350688008334 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 350688008335 peptidase T-like protein; Region: PepT-like; TIGR01883 350688008336 metal binding site [ion binding]; metal-binding site 350688008337 putative dimer interface [polypeptide binding]; other site 350688008338 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 350688008339 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 350688008340 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 350688008341 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 350688008342 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 350688008343 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 350688008344 putative active site [active] 350688008345 putative metal binding site [ion binding]; other site 350688008346 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 350688008347 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350688008348 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350688008349 G5 domain; Region: G5; pfam07501 350688008350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 350688008351 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 350688008352 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350688008353 Zn2+ binding site [ion binding]; other site 350688008354 Mg2+ binding site [ion binding]; other site 350688008355 Dehydratase small subunit; Region: Dehydratase_SU; cl02055 350688008356 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 350688008357 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 350688008358 active site 350688008359 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 350688008360 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 350688008361 active site 350688008362 HIGH motif; other site 350688008363 KMSKS motif; other site 350688008364 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 350688008365 tRNA binding surface [nucleotide binding]; other site 350688008366 anticodon binding site; other site 350688008367 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 350688008368 dimer interface [polypeptide binding]; other site 350688008369 putative tRNA-binding site [nucleotide binding]; other site 350688008370 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 350688008371 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 350688008372 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 350688008373 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 350688008374 active site 350688008375 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 350688008376 Predicted methyltransferases [General function prediction only]; Region: COG0313 350688008377 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 350688008378 putative SAM binding site [chemical binding]; other site 350688008379 putative homodimer interface [polypeptide binding]; other site 350688008380 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 350688008381 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 350688008382 S-adenosylmethionine binding site [chemical binding]; other site 350688008383 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 350688008384 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 350688008385 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688008386 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 350688008387 Chromate transporter; Region: Chromate_transp; pfam02417 350688008388 Chromate transporter; Region: Chromate_transp; pfam02417 350688008389 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688008390 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688008391 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 350688008392 Walker A/P-loop; other site 350688008393 ATP binding site [chemical binding]; other site 350688008394 Q-loop/lid; other site 350688008395 ABC transporter signature motif; other site 350688008396 Walker B; other site 350688008397 D-loop; other site 350688008398 H-loop/switch region; other site 350688008399 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350688008400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350688008401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688008402 Walker A/P-loop; other site 350688008403 ATP binding site [chemical binding]; other site 350688008404 Q-loop/lid; other site 350688008405 ABC transporter signature motif; other site 350688008406 Walker B; other site 350688008407 D-loop; other site 350688008408 H-loop/switch region; other site 350688008409 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350688008410 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 350688008411 putative DNA binding site [nucleotide binding]; other site 350688008412 putative Zn2+ binding site [ion binding]; other site 350688008413 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 350688008414 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 350688008415 catalytic residue [active] 350688008416 putative FPP diphosphate binding site; other site 350688008417 putative FPP binding hydrophobic cleft; other site 350688008418 dimer interface [polypeptide binding]; other site 350688008419 putative IPP diphosphate binding site; other site 350688008420 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 350688008421 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 350688008422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688008423 dimer interface [polypeptide binding]; other site 350688008424 conserved gate region; other site 350688008425 putative PBP binding loops; other site 350688008426 ABC-ATPase subunit interface; other site 350688008427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350688008428 dimer interface [polypeptide binding]; other site 350688008429 conserved gate region; other site 350688008430 putative PBP binding loops; other site 350688008431 ABC-ATPase subunit interface; other site 350688008432 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350688008433 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350688008434 Walker A/P-loop; other site 350688008435 ATP binding site [chemical binding]; other site 350688008436 Q-loop/lid; other site 350688008437 ABC transporter signature motif; other site 350688008438 Walker B; other site 350688008439 D-loop; other site 350688008440 H-loop/switch region; other site 350688008441 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 350688008442 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 350688008443 substrate binding pocket [chemical binding]; other site 350688008444 membrane-bound complex binding site; other site 350688008445 hinge residues; other site 350688008446 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 350688008447 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 350688008448 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 350688008449 FeS/SAM binding site; other site 350688008450 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 350688008451 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 350688008452 dimer interface [polypeptide binding]; other site 350688008453 active site 350688008454 glycine loop; other site 350688008455 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350688008456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350688008457 DNA-binding site [nucleotide binding]; DNA binding site 350688008458 FCD domain; Region: FCD; pfam07729 350688008459 FMN-binding domain; Region: FMN_bind; cl01081 350688008460 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 350688008461 L-aspartate oxidase; Provisional; Region: PRK06175 350688008462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350688008463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350688008464 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 350688008465 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350688008466 Na binding site [ion binding]; other site 350688008467 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 350688008468 thiamine phosphate binding site [chemical binding]; other site 350688008469 active site 350688008470 pyrophosphate binding site [ion binding]; other site 350688008471 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 350688008472 substrate binding site [chemical binding]; other site 350688008473 multimerization interface [polypeptide binding]; other site 350688008474 ATP binding site [chemical binding]; other site 350688008475 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 350688008476 dimer interface [polypeptide binding]; other site 350688008477 substrate binding site [chemical binding]; other site 350688008478 ATP binding site [chemical binding]; other site 350688008479 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350688008480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350688008481 NAD(P) binding site [chemical binding]; other site 350688008482 active site 350688008483 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 350688008484 ATP binding site [chemical binding]; other site 350688008485 active site 350688008486 substrate binding site [chemical binding]; other site 350688008487 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 350688008488 MutS domain III; Region: MutS_III; pfam05192 350688008489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688008490 Walker A/P-loop; other site 350688008491 ATP binding site [chemical binding]; other site 350688008492 Q-loop/lid; other site 350688008493 ABC transporter signature motif; other site 350688008494 Walker B; other site 350688008495 D-loop; other site 350688008496 H-loop/switch region; other site 350688008497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688008498 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 350688008499 dimer interface [polypeptide binding]; other site 350688008500 phosphorylation site [posttranslational modification] 350688008501 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 350688008502 ATP binding site [chemical binding]; other site 350688008503 Mg2+ binding site [ion binding]; other site 350688008504 G-X-G motif; other site 350688008505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688008506 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 350688008507 active site 350688008508 phosphorylation site [posttranslational modification] 350688008509 intermolecular recognition site; other site 350688008510 dimerization interface [polypeptide binding]; other site 350688008511 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 350688008512 DNA binding site [nucleotide binding] 350688008513 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 350688008514 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 350688008515 zinc binding site [ion binding]; other site 350688008516 putative ligand binding site [chemical binding]; other site 350688008517 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350688008518 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 350688008519 TM-ABC transporter signature motif; other site 350688008520 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 350688008521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688008522 Walker A/P-loop; other site 350688008523 ATP binding site [chemical binding]; other site 350688008524 Q-loop/lid; other site 350688008525 ABC transporter signature motif; other site 350688008526 Walker B; other site 350688008527 D-loop; other site 350688008528 H-loop/switch region; other site 350688008529 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 350688008530 zinc binding site [ion binding]; other site 350688008531 putative ligand binding site [chemical binding]; other site 350688008532 EamA-like transporter family; Region: EamA; pfam00892 350688008533 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 350688008534 EamA-like transporter family; Region: EamA; pfam00892 350688008535 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 350688008536 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 350688008537 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 350688008538 FMN-binding domain; Region: FMN_bind; cl01081 350688008539 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 350688008540 L-aspartate oxidase; Provisional; Region: PRK06175 350688008541 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350688008542 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688008543 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 350688008544 active site 350688008545 nucleotide binding site [chemical binding]; other site 350688008546 HIGH motif; other site 350688008547 KMSKS motif; other site 350688008548 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 350688008549 NAD(P) binding site [chemical binding]; other site 350688008550 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350688008551 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 350688008552 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 350688008553 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 350688008554 G1 box; other site 350688008555 GTP/Mg2+ binding site [chemical binding]; other site 350688008556 Switch I region; other site 350688008557 G2 box; other site 350688008558 G3 box; other site 350688008559 Switch II region; other site 350688008560 G4 box; other site 350688008561 G5 box; other site 350688008562 Nucleoside recognition; Region: Gate; pfam07670 350688008563 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 350688008564 FeoA domain; Region: FeoA; pfam04023 350688008565 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 350688008566 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350688008567 catalytic residues [active] 350688008568 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350688008569 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 350688008570 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 350688008571 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 350688008572 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 350688008573 Spore germination protein; Region: Spore_permease; cl17796 350688008574 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 350688008575 metal-binding site [ion binding] 350688008576 Family description; Region: DsbD_2; pfam13386 350688008577 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350688008578 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 350688008579 hypothetical protein; Provisional; Region: PRK01346 350688008580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008581 Coenzyme A binding pocket [chemical binding]; other site 350688008582 Sterol carrier protein domain; Region: SCP2_2; pfam13530 350688008583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008584 Coenzyme A binding pocket [chemical binding]; other site 350688008585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688008586 Protein of unknown function (DUF454); Region: DUF454; cl01063 350688008587 Predicted transcriptional regulator [Transcription]; Region: COG2378 350688008588 HTH domain; Region: HTH_11; pfam08279 350688008589 WYL domain; Region: WYL; pfam13280 350688008590 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 350688008591 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350688008592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008593 Coenzyme A binding pocket [chemical binding]; other site 350688008594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008595 Coenzyme A binding pocket [chemical binding]; other site 350688008596 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688008597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008598 Coenzyme A binding pocket [chemical binding]; other site 350688008599 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350688008600 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350688008601 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 350688008602 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 350688008603 dimerization interface [polypeptide binding]; other site 350688008604 putative DNA binding site [nucleotide binding]; other site 350688008605 putative Zn2+ binding site [ion binding]; other site 350688008606 AsnC family; Region: AsnC_trans_reg; pfam01037 350688008607 kynureninase; Region: kynureninase; TIGR01814 350688008608 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 350688008609 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688008610 catalytic residue [active] 350688008611 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 350688008612 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 350688008613 PhnA protein; Region: PhnA; pfam03831 350688008614 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 350688008615 Helix-turn-helix domain; Region: HTH_17; pfam12728 350688008616 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350688008617 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 350688008618 active site 350688008619 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350688008620 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 350688008621 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 350688008622 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 350688008623 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 350688008624 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350688008625 active site 350688008626 HIGH motif; other site 350688008627 nucleotide binding site [chemical binding]; other site 350688008628 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 350688008629 KMSK motif region; other site 350688008630 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 350688008631 tRNA binding surface [nucleotide binding]; other site 350688008632 anticodon binding site; other site 350688008633 dUMP phosphatase; Provisional; Region: PRK09449 350688008634 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 350688008635 motif II; other site 350688008636 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 350688008637 amino acid carrier protein; Region: agcS; TIGR00835 350688008638 methionine aminopeptidase; Provisional; Region: PRK12318 350688008639 SEC-C motif; Region: SEC-C; pfam02810 350688008640 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 350688008641 active site 350688008642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688008643 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688008644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688008645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688008646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688008647 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 350688008648 EamA-like transporter family; Region: EamA; pfam00892 350688008649 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 350688008650 EamA-like transporter family; Region: EamA; pfam00892 350688008651 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688008652 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 350688008653 putative FMN binding site [chemical binding]; other site 350688008654 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 350688008655 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 350688008656 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350688008657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350688008658 Walker A/P-loop; other site 350688008659 ATP binding site [chemical binding]; other site 350688008660 Q-loop/lid; other site 350688008661 ABC transporter signature motif; other site 350688008662 Walker B; other site 350688008663 D-loop; other site 350688008664 H-loop/switch region; other site 350688008665 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350688008666 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 350688008667 DNA binding residues [nucleotide binding] 350688008668 dimer interface [polypeptide binding]; other site 350688008669 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 350688008670 Protein of unknown function DUF89; Region: DUF89; cl15397 350688008671 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 350688008672 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350688008673 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 350688008674 DNA binding residues [nucleotide binding] 350688008675 EDD domain protein, DegV family; Region: DegV; TIGR00762 350688008676 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 350688008677 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 350688008678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008679 Coenzyme A binding pocket [chemical binding]; other site 350688008680 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350688008681 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 350688008682 DNA binding residues [nucleotide binding] 350688008683 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 350688008684 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350688008685 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 350688008686 active site 350688008687 metal binding site [ion binding]; metal-binding site 350688008688 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 350688008689 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350688008690 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 350688008691 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350688008692 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688008693 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350688008694 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 350688008695 DNA binding residues [nucleotide binding] 350688008696 dimer interface [polypeptide binding]; other site 350688008697 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350688008698 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 350688008699 S-adenosylmethionine binding site [chemical binding]; other site 350688008700 RNA polymerase sigma factor; Provisional; Region: PRK12522 350688008701 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350688008702 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 350688008703 UPF0489 domain; Region: UPF0489; pfam12640 350688008704 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 350688008705 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 350688008706 Amidohydrolase; Region: Amidohydro_4; pfam13147 350688008707 active site 350688008708 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350688008709 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 350688008710 DNA binding residues [nucleotide binding] 350688008711 drug binding residues [chemical binding]; other site 350688008712 dimer interface [polypeptide binding]; other site 350688008713 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 350688008714 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350688008715 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350688008716 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 350688008717 YyzF-like protein; Region: YyzF; pfam14116 350688008718 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350688008719 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 350688008720 protein binding site [polypeptide binding]; other site 350688008721 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 350688008722 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 350688008723 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 350688008724 hinge; other site 350688008725 active site 350688008726 YycH protein; Region: YycI; pfam09648 350688008727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 350688008728 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 350688008729 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 350688008730 dimerization interface [polypeptide binding]; other site 350688008731 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 350688008732 putative active site [active] 350688008733 heme pocket [chemical binding]; other site 350688008734 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 350688008735 dimer interface [polypeptide binding]; other site 350688008736 phosphorylation site [posttranslational modification] 350688008737 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 350688008738 ATP binding site [chemical binding]; other site 350688008739 Mg2+ binding site [ion binding]; other site 350688008740 G-X-G motif; other site 350688008741 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350688008742 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 350688008743 active site 350688008744 phosphorylation site [posttranslational modification] 350688008745 intermolecular recognition site; other site 350688008746 dimerization interface [polypeptide binding]; other site 350688008747 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 350688008748 DNA binding site [nucleotide binding] 350688008749 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 350688008750 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 350688008751 active site 350688008752 catalytic triad [active] 350688008753 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 350688008754 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 350688008755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350688008756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350688008757 metal binding site [ion binding]; metal-binding site 350688008758 active site 350688008759 I-site; other site 350688008760 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 350688008761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 350688008762 dimer interface [polypeptide binding]; other site 350688008763 putative CheW interface [polypeptide binding]; other site 350688008764 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 350688008765 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 350688008766 active site 350688008767 phosphorylation site [posttranslational modification] 350688008768 intermolecular recognition site; other site 350688008769 dimerization interface [polypeptide binding]; other site 350688008770 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 350688008771 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 350688008772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350688008773 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 350688008774 dimer interface [polypeptide binding]; other site 350688008775 phosphorylation site [posttranslational modification] 350688008776 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 350688008777 ATP binding site [chemical binding]; other site 350688008778 Mg2+ binding site [ion binding]; other site 350688008779 G-X-G motif; other site 350688008780 Response regulator receiver domain; Region: Response_reg; pfam00072 350688008781 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 350688008782 active site 350688008783 phosphorylation site [posttranslational modification] 350688008784 intermolecular recognition site; other site 350688008785 dimerization interface [polypeptide binding]; other site 350688008786 Histidine kinase; Region: His_kinase; pfam06580 350688008787 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 350688008788 ATP binding site [chemical binding]; other site 350688008789 Mg2+ binding site [ion binding]; other site 350688008790 G-X-G motif; other site 350688008791 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 350688008792 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350688008793 G5 domain; Region: G5; pfam07501 350688008794 Peptidase family M23; Region: Peptidase_M23; pfam01551 350688008795 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 350688008796 Zn binding site [ion binding]; other site 350688008797 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 350688008798 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 350688008799 DNA replication protein DnaC; Validated; Region: PRK06835 350688008800 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 350688008801 Walker A motif; other site 350688008802 ATP binding site [chemical binding]; other site 350688008803 Walker B motif; other site 350688008804 arginine finger; other site 350688008805 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350688008806 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350688008807 replicative DNA helicase; Region: DnaB; TIGR00665 350688008808 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 350688008809 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 350688008810 Walker A motif; other site 350688008811 ATP binding site [chemical binding]; other site 350688008812 Walker B motif; other site 350688008813 DNA binding loops [nucleotide binding] 350688008814 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 350688008815 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 350688008816 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 350688008817 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 350688008818 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 350688008819 DHH family; Region: DHH; pfam01368 350688008820 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 350688008821 MazG-like family; Region: MazG-like; pfam12643 350688008822 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 350688008823 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 350688008824 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 350688008825 putative active site [active] 350688008826 PhoH-like protein; Region: PhoH; pfam02562 350688008827 Hemerythrin; Region: Hemerythrin; cd12107 350688008828 Fe binding site [ion binding]; other site 350688008829 Rubrerythrin [Energy production and conversion]; Region: COG1592 350688008830 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 350688008831 binuclear metal center [ion binding]; other site 350688008832 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 350688008833 iron binding site [ion binding]; other site 350688008834 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 350688008835 HSP70 interaction site [polypeptide binding]; other site 350688008836 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688008837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688008838 Putative esterase; Region: Esterase; pfam00756 350688008839 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 350688008840 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350688008841 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350688008842 Walker A/P-loop; other site 350688008843 ATP binding site [chemical binding]; other site 350688008844 Q-loop/lid; other site 350688008845 ABC transporter signature motif; other site 350688008846 Walker B; other site 350688008847 D-loop; other site 350688008848 H-loop/switch region; other site 350688008849 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688008850 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 350688008851 ABC-ATPase subunit interface; other site 350688008852 dimer interface [polypeptide binding]; other site 350688008853 putative PBP binding regions; other site 350688008854 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350688008855 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 350688008856 ABC-ATPase subunit interface; other site 350688008857 dimer interface [polypeptide binding]; other site 350688008858 putative PBP binding regions; other site 350688008859 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350688008860 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 350688008861 putative ligand binding residues [chemical binding]; other site 350688008862 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 350688008863 Divergent AAA domain; Region: AAA_4; pfam04326 350688008864 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 350688008865 VPS10 domain; Region: VPS10; smart00602 350688008866 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 350688008867 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 350688008868 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 350688008869 NodB motif; other site 350688008870 active site 350688008871 catalytic site [active] 350688008872 metal binding site [ion binding]; metal-binding site 350688008873 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 350688008874 Predicted permeases [General function prediction only]; Region: COG0701 350688008875 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350688008876 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350688008877 active site 350688008878 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 350688008879 putative DNA binding site [nucleotide binding]; other site 350688008880 dimerization interface [polypeptide binding]; other site 350688008881 putative Zn2+ binding site [ion binding]; other site 350688008882 Putative mitochondrial precursor protein; Region: DDDD; pfam10161 350688008883 Helix-turn-helix domain; Region: HTH_17; pfam12728 350688008884 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 350688008885 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 350688008886 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 350688008887 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688008888 catalytic residue [active] 350688008889 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 350688008890 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 350688008891 active site 350688008892 phosphorylation site [posttranslational modification] 350688008893 intermolecular recognition site; other site 350688008894 dimerization interface [polypeptide binding]; other site 350688008895 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 350688008896 Walker A motif; other site 350688008897 ATP binding site [chemical binding]; other site 350688008898 Walker B motif; other site 350688008899 arginine finger; other site 350688008900 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350688008901 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350688008902 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 350688008903 substrate binding pocket [chemical binding]; other site 350688008904 membrane-bound complex binding site; other site 350688008905 hinge residues; other site 350688008906 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 350688008907 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 350688008908 putative active site [active] 350688008909 heme pocket [chemical binding]; other site 350688008910 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 350688008911 dimer interface [polypeptide binding]; other site 350688008912 phosphorylation site [posttranslational modification] 350688008913 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 350688008914 ATP binding site [chemical binding]; other site 350688008915 Mg2+ binding site [ion binding]; other site 350688008916 G-X-G motif; other site 350688008917 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 350688008918 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350688008919 LytTr DNA-binding domain; Region: LytTR; smart00850 350688008920 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 350688008921 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 350688008922 glutaminase active site [active] 350688008923 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 350688008924 dimer interface [polypeptide binding]; other site 350688008925 active site 350688008926 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 350688008927 dimer interface [polypeptide binding]; other site 350688008928 active site 350688008929 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 350688008930 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 350688008931 non-specific DNA binding site [nucleotide binding]; other site 350688008932 salt bridge; other site 350688008933 sequence-specific DNA binding site [nucleotide binding]; other site 350688008934 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 350688008935 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 350688008936 nudix motif; other site 350688008937 Predicted permeases [General function prediction only]; Region: COG0679 350688008938 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 350688008939 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 350688008940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008941 Coenzyme A binding pocket [chemical binding]; other site 350688008942 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 350688008943 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350688008944 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350688008945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350688008946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 350688008947 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350688008948 Coenzyme A binding pocket [chemical binding]; other site 350688008949 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350688008950 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 350688008951 Ribosomal RNA adenine dimethylases; Region: rADc; smart00650 350688008952 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 350688008953 nudix motif; other site 350688008954 Protein of unknown function, DUF606; Region: DUF606; pfam04657 350688008955 recombination protein RecR; Reviewed; Region: recR; PRK00076 350688008956 RecR protein; Region: RecR; pfam02132 350688008957 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 350688008958 putative active site [active] 350688008959 putative metal-binding site [ion binding]; other site 350688008960 tetramer interface [polypeptide binding]; other site 350688008961 hypothetical protein; Validated; Region: PRK00153 350688008962 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 350688008963 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 350688008964 Walker A motif; other site 350688008965 ATP binding site [chemical binding]; other site 350688008966 Walker B motif; other site 350688008967 arginine finger; other site 350688008968 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 350688008969 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 350688008970 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 350688008971 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 350688008972 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 350688008973 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350688008974 VanW like protein; Region: VanW; pfam04294 350688008975 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 350688008976 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 350688008977 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350688008978 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350688008979 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 350688008980 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350688008981 catalytic residue [active] 350688008982 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 350688008983 ParB-like nuclease domain; Region: ParB; smart00470 350688008984 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350688008985 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 350688008986 P-loop; other site 350688008987 Magnesium ion binding site [ion binding]; other site 350688008988 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 350688008989 Magnesium ion binding site [ion binding]; other site 350688008990 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 350688008991 ParB-like nuclease domain; Region: ParBc; pfam02195 350688008992 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 350688008993 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 350688008994 S-adenosylmethionine binding site [chemical binding]; other site 350688008995 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 350688008996 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 350688008997 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 350688008998 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 350688008999 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 350688009000 trmE is a tRNA modification GTPase; Region: trmE; cd04164 350688009001 G1 box; other site 350688009002 GTP/Mg2+ binding site [chemical binding]; other site 350688009003 Switch I region; other site 350688009004 G2 box; other site 350688009005 Switch II region; other site 350688009006 G3 box; other site 350688009007 G4 box; other site 350688009008 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 350688009009 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 350688009010 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 350688009011 G-X-X-G motif; other site 350688009012 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 350688009013 RxxxH motif; other site 350688009014 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 350688009015 Haemolytic domain; Region: Haemolytic; pfam01809 350688009016 ribonuclease P; Reviewed; Region: rnpA; PRK00499 350688009017 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399