-- dump date 20140619_164322 -- class Genbank::misc_feature -- table misc_feature_note -- id note 323261000001 Domain of unknown function (DUF932); Region: DUF932; pfam06067 323261000002 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 323261000003 HicB family; Region: HicB; pfam05534 323261000004 YcfA-like protein; Region: YcfA; cl00752 323261000005 Type II transport protein GspH; Region: GspH; pfam12019 323261000006 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 323261000007 putative active site [active] 323261000008 putative catalytic site [active] 323261000009 putative Mg binding site IVb [ion binding]; other site 323261000010 putative phosphate binding site [ion binding]; other site 323261000011 putative DNA binding site [nucleotide binding]; other site 323261000012 putative Mg binding site IVa [ion binding]; other site 323261000013 Lamin Tail Domain; Region: LTD; pfam00932 323261000014 Restriction endonuclease; Region: Mrr_cat; pfam04471 323261000015 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323261000016 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 323261000017 P-loop; other site 323261000018 Magnesium ion binding site [ion binding]; other site 323261000019 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 323261000020 Magnesium ion binding site [ion binding]; other site 323261000021 ParB-like nuclease domain; Region: ParB; smart00470 323261000022 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 323261000023 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 323261000024 active site 323261000025 DNA binding site [nucleotide binding] 323261000026 Int/Topo IB signature motif; other site 323261000027 Homeodomain-like domain; Region: HTH_23; cl17451 323261000028 Uncharacterized conserved protein [Function unknown]; Region: COG0397 323261000029 hypothetical protein; Validated; Region: PRK00029 323261000030 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323261000031 multiple promoter invertase; Provisional; Region: mpi; PRK13413 323261000032 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323261000033 catalytic residues [active] 323261000034 catalytic nucleophile [active] 323261000035 Presynaptic Site I dimer interface [polypeptide binding]; other site 323261000036 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323261000037 Synaptic Flat tetramer interface [polypeptide binding]; other site 323261000038 Synaptic Site I dimer interface [polypeptide binding]; other site 323261000039 DNA binding site [nucleotide binding] 323261000040 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323261000041 DNA-binding interface [nucleotide binding]; DNA binding site 323261000042 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 323261000043 TIR domain; Region: TIR_2; pfam13676 323261000044 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 323261000045 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 323261000046 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 323261000047 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 323261000048 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 323261000049 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261000050 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323261000051 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 323261000052 ATP binding site [chemical binding]; other site 323261000053 putative Mg++ binding site [ion binding]; other site 323261000054 T5orf172 domain; Region: T5orf172; pfam10544 323261000055 Abi-like protein; Region: Abi_2; pfam07751 323261000056 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 323261000057 PemK-like protein; Region: PemK; pfam02452 323261000058 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323261000059 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 323261000060 non-specific DNA binding site [nucleotide binding]; other site 323261000061 salt bridge; other site 323261000062 sequence-specific DNA binding site [nucleotide binding]; other site 323261000063 IncFII RepA protein family; Region: IncFII_repA; cl11495 323261000064 Ubiquitin-like proteins; Region: UBQ; cl00155 323261000065 hydrophobic patch; other site 323261000066 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323261000067 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 323261000068 non-specific DNA binding site [nucleotide binding]; other site 323261000069 salt bridge; other site 323261000070 sequence-specific DNA binding site [nucleotide binding]; other site 323261000071 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 323261000072 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 323261000073 DnaA N-terminal domain; Region: DnaA_N; pfam11638 323261000074 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 323261000075 Walker A motif; other site 323261000076 ATP binding site [chemical binding]; other site 323261000077 Walker B motif; other site 323261000078 arginine finger; other site 323261000079 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 323261000080 DnaA box-binding interface [nucleotide binding]; other site 323261000081 DNA polymerase III subunit beta; Validated; Region: PRK05643 323261000082 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 323261000083 putative DNA binding surface [nucleotide binding]; other site 323261000084 dimer interface [polypeptide binding]; other site 323261000085 beta-clamp/clamp loader binding surface; other site 323261000086 beta-clamp/translesion DNA polymerase binding surface; other site 323261000087 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261000088 recombination protein F; Reviewed; Region: recF; PRK00064 323261000089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261000090 Walker A/P-loop; other site 323261000091 ATP binding site [chemical binding]; other site 323261000092 Q-loop/lid; other site 323261000093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261000094 ABC transporter signature motif; other site 323261000095 Walker B; other site 323261000096 D-loop; other site 323261000097 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 323261000098 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 323261000099 anchoring element; other site 323261000100 dimer interface [polypeptide binding]; other site 323261000101 ATP binding site [chemical binding]; other site 323261000102 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 323261000103 active site 323261000104 putative metal-binding site [ion binding]; other site 323261000105 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323261000106 hypothetical protein; Provisional; Region: PRK02227 323261000107 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 323261000108 AMP binding site [chemical binding]; other site 323261000109 metal binding site [ion binding]; metal-binding site 323261000110 active site 323261000111 formylmethanofuran dehydrogenase subunit C; Region: one_C_dehyd_C; TIGR03122 323261000112 domain_subunit interface; other site 323261000113 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 323261000114 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 323261000115 FTR, proximal lobe; Region: FTR_C; pfam02741 323261000116 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 323261000117 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 323261000118 active site 323261000119 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 323261000120 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 323261000121 putative [4Fe-4S] binding site [ion binding]; other site 323261000122 putative molybdopterin cofactor binding site [chemical binding]; other site 323261000123 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 323261000124 Sporulation related domain; Region: SPOR; pfam05036 323261000125 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 323261000126 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 323261000127 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323261000128 active site 323261000129 HIGH motif; other site 323261000130 nucleotide binding site [chemical binding]; other site 323261000131 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 323261000132 KMSK motif region; other site 323261000133 tRNA binding surface [nucleotide binding]; other site 323261000134 DALR anticodon binding domain; Region: DALR_1; smart00836 323261000135 anticodon binding site; other site 323261000136 primosome assembly protein PriA; Validated; Region: PRK05580 323261000137 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 323261000138 ATP binding site [chemical binding]; other site 323261000139 putative Mg++ binding site [ion binding]; other site 323261000140 helicase superfamily c-terminal domain; Region: HELICc; smart00490 323261000141 DJ-1 family protein; Region: not_thiJ; TIGR01383 323261000142 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 323261000143 conserved cys residue [active] 323261000144 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323261000145 C-terminal peptidase (prc); Region: prc; TIGR00225 323261000146 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 323261000147 protein binding site [polypeptide binding]; other site 323261000148 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 323261000149 Catalytic dyad [active] 323261000150 phosphoglyceromutase; Provisional; Region: PRK05434 323261000151 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 323261000152 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 323261000153 active site residue [active] 323261000154 cell division protein DamX; Validated; Region: PRK10905 323261000155 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 323261000156 GSH binding site [chemical binding]; other site 323261000157 catalytic residues [active] 323261000158 preprotein translocase subunit SecB; Validated; Region: PRK05751 323261000159 SecA binding site; other site 323261000160 Preprotein binding site; other site 323261000161 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 323261000162 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 323261000163 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 323261000164 Short C-terminal domain; Region: SHOCT; pfam09851 323261000165 Uncharacterized conserved protein [Function unknown]; Region: COG1565 323261000166 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 323261000167 catalytic center binding site [active] 323261000168 ATP binding site [chemical binding]; other site 323261000169 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 323261000170 homooctamer interface [polypeptide binding]; other site 323261000171 active site 323261000172 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 323261000173 UGMP family protein; Validated; Region: PRK09604 323261000174 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 323261000175 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 323261000176 Yqey-like protein; Region: YqeY; pfam09424 323261000177 DNA primase; Validated; Region: dnaG; PRK05667 323261000178 CHC2 zinc finger; Region: zf-CHC2; pfam01807 323261000179 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 323261000180 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 323261000181 active site 323261000182 metal binding site [ion binding]; metal-binding site 323261000183 interdomain interaction site; other site 323261000184 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 323261000185 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 323261000186 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 323261000187 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 323261000188 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323261000189 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 323261000190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261000191 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323261000192 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 323261000193 DNA binding residues [nucleotide binding] 323261000194 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 323261000195 active site 323261000196 DNA binding site [nucleotide binding] 323261000197 Int/Topo IB signature motif; other site 323261000198 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261000199 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261000200 DNA-binding interface [nucleotide binding]; DNA binding site 323261000201 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261000202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261000203 Helix-turn-helix domain; Region: HTH_36; pfam13730 323261000204 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 323261000205 active site 323261000206 metal binding site [ion binding]; metal-binding site 323261000207 interdomain interaction site; other site 323261000208 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 323261000209 AAA domain; Region: AAA_25; pfam13481 323261000210 Walker A motif; other site 323261000211 ATP binding site [chemical binding]; other site 323261000212 Walker B motif; other site 323261000213 Terminase small subunit; Region: Terminase_2; cl01513 323261000214 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 323261000215 Divergent AAA domain; Region: AAA_4; pfam04326 323261000216 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 323261000217 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 323261000218 DNA methylase; Region: N6_N4_Mtase; cl17433 323261000219 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 323261000220 ATP binding site [chemical binding]; other site 323261000221 Mg2+ binding site [ion binding]; other site 323261000222 G-X-G motif; other site 323261000223 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 323261000224 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 323261000225 putative active site [active] 323261000226 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 323261000227 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 323261000228 ATP binding site [chemical binding]; other site 323261000229 putative Mg++ binding site [ion binding]; other site 323261000230 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 323261000231 nucleotide binding region [chemical binding]; other site 323261000232 ATP-binding site [chemical binding]; other site 323261000233 PglZ domain; Region: PglZ; pfam08665 323261000234 Replication initiator protein A; Region: RPA; cl17860 323261000235 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261000236 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261000237 DNA-binding interface [nucleotide binding]; DNA binding site 323261000238 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261000239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261000240 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261000241 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261000242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261000243 Nuclease-related domain; Region: NERD; pfam08378 323261000244 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 323261000245 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 323261000246 ATP binding site [chemical binding]; other site 323261000247 putative Mg++ binding site [ion binding]; other site 323261000248 Family description; Region: UvrD_C_2; pfam13538 323261000249 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 323261000250 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 323261000251 gating phenylalanine in ion channel; other site 323261000252 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 323261000253 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323261000254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261000255 ABC transporter signature motif; other site 323261000256 Walker B; other site 323261000257 D-loop; other site 323261000258 H-loop/switch region; other site 323261000259 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 323261000260 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323261000261 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323261000262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261000263 Walker A/P-loop; other site 323261000264 ATP binding site [chemical binding]; other site 323261000265 Q-loop/lid; other site 323261000266 ABC transporter signature motif; other site 323261000267 Walker B; other site 323261000268 D-loop; other site 323261000269 H-loop/switch region; other site 323261000270 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 323261000271 active site 323261000272 DNA binding site [nucleotide binding] 323261000273 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 323261000274 Protein of unknown function (DUF497); Region: DUF497; pfam04365 323261000275 Protein of unknown function (DUF497); Region: DUF497; pfam04365 323261000276 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 323261000277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 323261000278 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 323261000279 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323261000280 Multicopper oxidase; Region: Cu-oxidase; pfam00394 323261000281 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 323261000282 homotetrameric interface [polypeptide binding]; other site 323261000283 putative active site [active] 323261000284 metal binding site [ion binding]; metal-binding site 323261000285 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 323261000286 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 323261000287 acetoin reductases; Region: 23BDH; TIGR02415 323261000288 NAD binding site [chemical binding]; other site 323261000289 homotetramer interface [polypeptide binding]; other site 323261000290 homodimer interface [polypeptide binding]; other site 323261000291 active site 323261000292 substrate binding site [chemical binding]; other site 323261000293 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323261000294 Predicted flavoprotein [General function prediction only]; Region: COG0431 323261000295 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 323261000296 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_6; cd07242 323261000297 putative dimer interface [polypeptide binding]; other site 323261000298 ligand binding site [chemical binding]; other site 323261000299 Zn binding site [ion binding]; other site 323261000300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 323261000301 Uncharacterized conserved protein [Function unknown]; Region: COG1543 323261000302 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 323261000303 active site 323261000304 substrate binding site [chemical binding]; other site 323261000305 catalytic site [active] 323261000306 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 323261000307 glycogen synthase; Provisional; Region: glgA; PRK00654 323261000308 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 323261000309 ADP-binding pocket [chemical binding]; other site 323261000310 homodimer interface [polypeptide binding]; other site 323261000311 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 323261000312 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323261000313 active site 323261000314 FMN binding site [chemical binding]; other site 323261000315 substrate binding site [chemical binding]; other site 323261000316 3Fe-4S cluster binding site [ion binding]; other site 323261000317 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_27; cd04640 323261000318 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 323261000319 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 323261000320 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 323261000321 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 323261000322 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 323261000323 putative NAD(P) binding site [chemical binding]; other site 323261000324 active site 323261000325 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323261000326 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323261000327 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 323261000328 nitrosocyanin; Region: nitroso_cyanin; TIGR03096 323261000329 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 323261000330 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 323261000331 TPP-binding site [chemical binding]; other site 323261000332 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 323261000333 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 323261000334 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 323261000335 E3 interaction surface; other site 323261000336 lipoyl attachment site [posttranslational modification]; other site 323261000337 e3 binding domain; Region: E3_binding; pfam02817 323261000338 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323261000339 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 323261000340 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 323261000341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261000342 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261000343 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 323261000344 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323261000345 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323261000346 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 323261000347 Walker A/P-loop; other site 323261000348 ATP binding site [chemical binding]; other site 323261000349 Q-loop/lid; other site 323261000350 ABC transporter signature motif; other site 323261000351 Walker B; other site 323261000352 D-loop; other site 323261000353 H-loop/switch region; other site 323261000354 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 323261000355 Domain of unknown function DUF21; Region: DUF21; pfam01595 323261000356 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 323261000357 Transporter associated domain; Region: CorC_HlyC; smart01091 323261000358 Domain of unknown function DUF21; Region: DUF21; pfam01595 323261000359 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 323261000360 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_18; cd04631 323261000361 Transporter associated domain; Region: CorC_HlyC; smart01091 323261000362 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 323261000363 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 323261000364 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 323261000365 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 323261000366 inhibitor-cofactor binding pocket; inhibition site 323261000367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261000368 catalytic residue [active] 323261000369 RNA methyltransferase, RsmE family; Region: TIGR00046 323261000370 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 323261000371 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 323261000372 CheB methylesterase; Region: CheB_methylest; pfam01339 323261000373 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 323261000374 putative binding surface; other site 323261000375 active site 323261000376 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 323261000377 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 323261000378 putative binding surface; other site 323261000379 active site 323261000380 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 323261000381 putative binding surface; other site 323261000382 active site 323261000383 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 323261000384 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 323261000385 ATP binding site [chemical binding]; other site 323261000386 Mg2+ binding site [ion binding]; other site 323261000387 G-X-G motif; other site 323261000388 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 323261000389 Response regulator receiver domain; Region: Response_reg; pfam00072 323261000390 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 323261000391 active site 323261000392 phosphorylation site [posttranslational modification] 323261000393 intermolecular recognition site; other site 323261000394 dimerization interface [polypeptide binding]; other site 323261000395 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 323261000396 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 323261000397 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323261000398 dimer interface [polypeptide binding]; other site 323261000399 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323261000400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323261000401 dimer interface [polypeptide binding]; other site 323261000402 putative CheW interface [polypeptide binding]; other site 323261000403 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 323261000404 Response regulator receiver domain; Region: Response_reg; pfam00072 323261000405 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 323261000406 active site 323261000407 phosphorylation site [posttranslational modification] 323261000408 intermolecular recognition site; other site 323261000409 dimerization interface [polypeptide binding]; other site 323261000410 Response regulator receiver domain; Region: Response_reg; pfam00072 323261000411 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 323261000412 active site 323261000413 phosphorylation site [posttranslational modification] 323261000414 intermolecular recognition site; other site 323261000415 dimerization interface [polypeptide binding]; other site 323261000416 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 323261000417 G1 box; other site 323261000418 GTP/Mg2+ binding site [chemical binding]; other site 323261000419 G2 box; other site 323261000420 Switch I region; other site 323261000421 G3 box; other site 323261000422 Switch II region; other site 323261000423 G4 box; other site 323261000424 G5 box; other site 323261000425 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 323261000426 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323261000427 metal binding triad; other site 323261000428 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323261000429 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323261000430 metal binding triad; other site 323261000431 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323261000432 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 323261000433 homodimer interface [polypeptide binding]; other site 323261000434 substrate-cofactor binding pocket; other site 323261000435 catalytic residue [active] 323261000436 hypothetical protein; Validated; Region: PRK00110 323261000437 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 323261000438 active site 323261000439 putative DNA-binding cleft [nucleotide binding]; other site 323261000440 dimer interface [polypeptide binding]; other site 323261000441 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 323261000442 RuvA N terminal domain; Region: RuvA_N; pfam01330 323261000443 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 323261000444 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 323261000445 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 323261000446 Walker A motif; other site 323261000447 ATP binding site [chemical binding]; other site 323261000448 Walker B motif; other site 323261000449 arginine finger; other site 323261000450 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 323261000451 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 323261000452 active site 323261000453 TolQ protein; Region: tolQ; TIGR02796 323261000454 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323261000455 TolR protein; Region: tolR; TIGR02801 323261000456 TolA protein; Region: tolA_full; TIGR02794 323261000457 TonB C terminal; Region: TonB_2; pfam13103 323261000458 TolA protein; Region: tolA_full; TIGR02794 323261000459 translocation protein TolB; Provisional; Region: tolB; PRK04922 323261000460 TolB amino-terminal domain; Region: TolB_N; pfam04052 323261000461 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261000462 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261000463 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261000464 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323261000465 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323261000466 ligand binding site [chemical binding]; other site 323261000467 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 323261000468 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 323261000469 binding surface 323261000470 TPR motif; other site 323261000471 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 323261000472 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 323261000473 FeS/SAM binding site; other site 323261000474 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 323261000475 Ligand Binding Site [chemical binding]; other site 323261000476 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323261000477 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261000478 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261000479 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261000480 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323261000481 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 323261000482 S-adenosylmethionine binding site [chemical binding]; other site 323261000483 HI0933-like protein; Region: HI0933_like; pfam03486 323261000484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323261000485 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 323261000486 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 323261000487 Spondin_N; Region: Spond_N; pfam06468 323261000488 CHRD domain; Region: CHRD; pfam07452 323261000489 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 323261000490 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323261000491 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 323261000492 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 323261000493 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 323261000494 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 323261000495 putative active site [active] 323261000496 Zn binding site [ion binding]; other site 323261000497 Bacterial PH domain; Region: DUF304; pfam03703 323261000498 Cytochrome c; Region: Cytochrom_C; pfam00034 323261000499 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 323261000500 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000501 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000502 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 323261000503 binding surface 323261000504 TPR motif; other site 323261000505 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000506 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 323261000507 binding surface 323261000508 TPR motif; other site 323261000509 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000510 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000511 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 323261000512 binding surface 323261000513 TPR motif; other site 323261000514 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000515 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261000516 Tetratricopeptide repeat; Region: TPR_10; pfam13374 323261000517 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 323261000518 sequence-specific DNA binding site [nucleotide binding]; other site 323261000519 salt bridge; other site 323261000520 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 323261000521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261000522 active site 323261000523 DNA gyrase subunit A; Validated; Region: PRK05560 323261000524 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 323261000525 CAP-like domain; other site 323261000526 active site 323261000527 primary dimer interface [polypeptide binding]; other site 323261000528 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323261000529 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323261000530 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323261000531 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323261000532 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323261000533 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 323261000534 homodimer interface [polypeptide binding]; other site 323261000535 substrate-cofactor binding pocket; other site 323261000536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261000537 catalytic residue [active] 323261000538 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 323261000539 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 323261000540 putative ligand binding site [chemical binding]; other site 323261000541 putative NAD binding site [chemical binding]; other site 323261000542 putative catalytic site [active] 323261000543 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 323261000544 L-serine binding site [chemical binding]; other site 323261000545 ACT domain interface; other site 323261000546 Chorismate mutase type II; Region: CM_2; cl00693 323261000547 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 323261000548 Prephenate dehydratase; Region: PDT; pfam00800 323261000549 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 323261000550 putative L-Phe binding site [chemical binding]; other site 323261000551 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 323261000552 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 323261000553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261000554 homodimer interface [polypeptide binding]; other site 323261000555 catalytic residue [active] 323261000556 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 323261000557 prephenate dehydrogenase; Validated; Region: PRK08507 323261000558 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 323261000559 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 323261000560 hinge; other site 323261000561 active site 323261000562 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 323261000563 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 323261000564 motif II; other site 323261000565 cytidylate kinase; Provisional; Region: cmk; PRK00023 323261000566 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 323261000567 CMP-binding site; other site 323261000568 The sites determining sugar specificity; other site 323261000569 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 323261000570 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 323261000571 RNA binding site [nucleotide binding]; other site 323261000572 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 323261000573 RNA binding site [nucleotide binding]; other site 323261000574 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 323261000575 RNA binding site [nucleotide binding]; other site 323261000576 S1_RPS1_repeat_ec4: 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_ec4; cd05689 323261000577 RNA binding site [nucleotide binding]; other site 323261000578 S1_RPS1_repeat_ec5: 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_ec5; cd05690 323261000579 RNA binding site [nucleotide binding]; other site 323261000580 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 323261000581 RNA binding site [nucleotide binding]; other site 323261000582 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 323261000583 IHF dimer interface [polypeptide binding]; other site 323261000584 IHF - DNA interface [nucleotide binding]; other site 323261000585 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 323261000586 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 323261000587 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323261000588 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261000589 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323261000590 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 323261000591 DNA binding residues [nucleotide binding] 323261000592 Ferredoxin [Energy production and conversion]; Region: COG1146 323261000593 4Fe-4S binding domain; Region: Fer4; cl02805 323261000594 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 323261000595 tetratricopeptide repeat protein; Provisional; Region: PRK11788 323261000596 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 323261000597 TPR motif; other site 323261000598 binding surface 323261000599 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 323261000600 ArsC family; Region: ArsC; pfam03960 323261000601 catalytic residues [active] 323261000602 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 323261000603 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323261000604 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 323261000605 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 323261000606 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 323261000607 pantothenate kinase; Reviewed; Region: PRK13328 323261000608 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261000609 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323261000610 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 323261000611 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 323261000612 active site residue [active] 323261000613 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 323261000614 active site residue [active] 323261000615 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 323261000616 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323261000617 active site 323261000618 metal binding site [ion binding]; metal-binding site 323261000619 hexamer interface [polypeptide binding]; other site 323261000620 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_39; cd04699 323261000621 nudix motif; other site 323261000622 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 323261000623 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 323261000624 Sulfatase; Region: Sulfatase; cl17466 323261000625 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323261000626 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323261000627 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 323261000628 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261000629 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261000630 multidrug efflux protein; Reviewed; Region: PRK09579 323261000631 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 323261000632 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 323261000633 DNA binding residues [nucleotide binding] 323261000634 dimer interface [polypeptide binding]; other site 323261000635 copper binding site [ion binding]; other site 323261000636 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 323261000637 metal-binding site [ion binding] 323261000638 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323261000639 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 323261000640 metal-binding site [ion binding] 323261000641 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323261000642 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 323261000643 metal-binding site [ion binding] 323261000644 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323261000645 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 323261000646 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323261000647 GAF domain; Region: GAF; pfam01590 323261000648 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 323261000649 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 323261000650 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 323261000651 PAS domain; Region: PAS_9; pfam13426 323261000652 putative active site [active] 323261000653 heme pocket [chemical binding]; other site 323261000654 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 323261000655 PAS domain; Region: PAS_9; pfam13426 323261000656 putative active site [active] 323261000657 heme pocket [chemical binding]; other site 323261000658 PAS domain S-box; Region: sensory_box; TIGR00229 323261000659 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 323261000660 putative active site [active] 323261000661 heme pocket [chemical binding]; other site 323261000662 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 323261000663 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 323261000664 oligopeptidase A; Provisional; Region: PRK10911 323261000665 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323261000666 active site 323261000667 Zn binding site [ion binding]; other site 323261000668 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 323261000669 active site 323261000670 putative catalytic site [active] 323261000671 metal binding site A [ion binding]; metal-binding site 323261000672 putative phosphate binding site [ion binding]; other site 323261000673 DNA binding site [nucleotide binding] 323261000674 putative AP binding site [nucleotide binding]; other site 323261000675 putative metal binding site B [ion binding]; other site 323261000676 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 323261000677 TPR motif; other site 323261000678 binding surface 323261000679 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 323261000680 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 323261000681 PilZ domain; Region: PilZ; pfam07238 323261000682 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 323261000683 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 323261000684 Active_site [active] 323261000685 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 323261000686 trehalose synthase; Region: treS_nterm; TIGR02456 323261000687 active site 323261000688 catalytic site [active] 323261000689 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 323261000690 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 323261000691 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 323261000692 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323261000693 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 323261000694 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 323261000695 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 323261000696 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 323261000697 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 323261000698 replicative DNA helicase; Region: DnaB; TIGR00665 323261000699 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 323261000700 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 323261000701 Walker A motif; other site 323261000702 ATP binding site [chemical binding]; other site 323261000703 Walker B motif; other site 323261000704 DNA binding loops [nucleotide binding] 323261000705 alanine racemase; Reviewed; Region: alr; PRK00053 323261000706 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 323261000707 active site 323261000708 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323261000709 substrate binding site [chemical binding]; other site 323261000710 catalytic residues [active] 323261000711 dimer interface [polypeptide binding]; other site 323261000712 DNA repair protein RadA; Provisional; Region: PRK11823 323261000713 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 323261000714 Walker A motif; other site 323261000715 ATP binding site [chemical binding]; other site 323261000716 Walker B motif; other site 323261000717 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 323261000718 PAS fold; Region: PAS; pfam00989 323261000719 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 323261000720 putative active site [active] 323261000721 heme pocket [chemical binding]; other site 323261000722 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261000723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261000724 metal binding site [ion binding]; metal-binding site 323261000725 active site 323261000726 I-site; other site 323261000727 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 323261000728 MASE1; Region: MASE1; cl17823 323261000729 PAS domain S-box; Region: sensory_box; TIGR00229 323261000730 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 323261000731 putative active site [active] 323261000732 heme pocket [chemical binding]; other site 323261000733 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 323261000734 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 323261000735 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 323261000736 putative trimer interface [polypeptide binding]; other site 323261000737 putative CoA binding site [chemical binding]; other site 323261000738 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 323261000739 trimer interface [polypeptide binding]; other site 323261000740 active site 323261000741 UDP-GlcNAc binding site [chemical binding]; other site 323261000742 lipid binding site [chemical binding]; lipid-binding site 323261000743 Kelch motif; Region: Kelch_1; pfam01344 323261000744 Kelch motif; Region: Kelch_6; pfam13964 323261000745 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 323261000746 Kelch motif; Region: Kelch_6; pfam13964 323261000747 Kelch domain; Region: Kelch; smart00612 323261000748 Kelch motif; Region: Kelch_1; pfam01344 323261000749 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 323261000750 thymidylate synthase; Reviewed; Region: thyA; PRK01827 323261000751 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 323261000752 dimerization interface [polypeptide binding]; other site 323261000753 active site 323261000754 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 323261000755 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 323261000756 folate binding site [chemical binding]; other site 323261000757 NADP+ binding site [chemical binding]; other site 323261000758 hypothetical protein; Reviewed; Region: PRK00024 323261000759 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 323261000760 MPN+ (JAMM) motif; other site 323261000761 Zinc-binding site [ion binding]; other site 323261000762 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 323261000763 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 323261000764 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 323261000765 FeS/SAM binding site; other site 323261000766 TRAM domain; Region: TRAM; pfam01938 323261000767 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 323261000768 PhoH-like protein; Region: PhoH; pfam02562 323261000769 metal-binding heat shock protein; Provisional; Region: PRK00016 323261000770 FOG: CBS domain [General function prediction only]; Region: COG0517 323261000771 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 323261000772 Transporter associated domain; Region: CorC_HlyC; smart01091 323261000773 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 323261000774 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 323261000775 putative active site [active] 323261000776 catalytic triad [active] 323261000777 putative dimer interface [polypeptide binding]; other site 323261000778 Cation transport protein; Region: TrkH; cl17365 323261000779 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 323261000780 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 323261000781 Malic enzyme, N-terminal domain; Region: malic; pfam00390 323261000782 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 323261000783 putative NAD(P) binding site [chemical binding]; other site 323261000784 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 323261000785 Transglycosylase; Region: Transgly; pfam00912 323261000786 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 323261000787 Competence protein A; Region: Competence_A; pfam11104 323261000788 Cell division protein FtsA; Region: FtsA; cl17206 323261000789 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 323261000790 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 323261000791 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 323261000792 Pilus assembly protein, PilO; Region: PilO; pfam04350 323261000793 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 323261000794 Pilus assembly protein, PilP; Region: PilP; pfam04351 323261000795 AMIN domain; Region: AMIN; pfam11741 323261000796 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 323261000797 Secretin and TonB N terminus short domain; Region: STN; pfam07660 323261000798 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323261000799 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323261000800 shikimate kinase; Reviewed; Region: aroK; PRK00131 323261000801 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 323261000802 ADP binding site [chemical binding]; other site 323261000803 magnesium binding site [ion binding]; other site 323261000804 putative shikimate binding site; other site 323261000805 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 323261000806 active site 323261000807 dimer interface [polypeptide binding]; other site 323261000808 metal binding site [ion binding]; metal-binding site 323261000809 AAK_UC: Uncharacterized (UC) amino acid kinase-like proteins found mainly in archaea and a few bacteria. Sequences in this CD are members of the Amino Acid Kinase (AAK) superfamily; Region: AAK_UC; cd04240 323261000810 putative nucleotide binding site [chemical binding]; other site 323261000811 putative substrate binding site [chemical binding]; other site 323261000812 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 323261000813 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323261000814 chorismate binding enzyme; Region: Chorismate_bind; cl10555 323261000815 probable H4MPT-linked C1 transfer pathway protein; Region: one_C_unchar_1; TIGR03123 323261000816 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323261000817 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 323261000818 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 323261000819 active site 323261000820 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 323261000821 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323261000822 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 323261000823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323261000824 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323261000825 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 323261000826 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 323261000827 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 323261000828 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 323261000829 ligand binding site [chemical binding]; other site 323261000830 homodimer interface [polypeptide binding]; other site 323261000831 NAD(P) binding site [chemical binding]; other site 323261000832 trimer interface B [polypeptide binding]; other site 323261000833 trimer interface A [polypeptide binding]; other site 323261000834 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 323261000835 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 323261000836 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 323261000837 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 323261000838 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323261000839 HIGH motif; other site 323261000840 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323261000841 active site 323261000842 KMSKS motif; other site 323261000843 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 323261000844 EF-hand domain pair; Region: EF_hand_5; pfam13499 323261000845 Ca2+ binding site [ion binding]; other site 323261000846 transketolase; Reviewed; Region: PRK05899 323261000847 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 323261000848 TPP-binding site [chemical binding]; other site 323261000849 dimer interface [polypeptide binding]; other site 323261000850 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 323261000851 PYR/PP interface [polypeptide binding]; other site 323261000852 dimer interface [polypeptide binding]; other site 323261000853 TPP binding site [chemical binding]; other site 323261000854 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323261000855 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 323261000856 putative active site [active] 323261000857 transaldolase; Provisional; Region: PRK03903 323261000858 catalytic residue [active] 323261000859 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 323261000860 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 323261000861 active site 323261000862 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 323261000863 Isochorismatase family; Region: Isochorismatase; pfam00857 323261000864 catalytic triad [active] 323261000865 metal binding site [ion binding]; metal-binding site 323261000866 conserved cis-peptide bond; other site 323261000867 FtsH Extracellular; Region: FtsH_ext; pfam06480 323261000868 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 323261000869 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 323261000870 Walker A motif; other site 323261000871 ATP binding site [chemical binding]; other site 323261000872 Walker B motif; other site 323261000873 arginine finger; other site 323261000874 Peptidase family M41; Region: Peptidase_M41; pfam01434 323261000875 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323261000876 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 323261000877 Walker A motif; other site 323261000878 ATP binding site [chemical binding]; other site 323261000879 Walker B motif; other site 323261000880 arginine finger; other site 323261000881 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261000882 CsbD-like; Region: CsbD; cl17424 323261000883 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323261000884 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 323261000885 active site 323261000886 phosphorylation site [posttranslational modification] 323261000887 intermolecular recognition site; other site 323261000888 dimerization interface [polypeptide binding]; other site 323261000889 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 323261000890 DNA binding residues [nucleotide binding] 323261000891 dimerization interface [polypeptide binding]; other site 323261000892 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 323261000893 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 323261000894 BON domain; Region: BON; pfam04972 323261000895 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 323261000896 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 323261000897 Walker A/P-loop; other site 323261000898 ATP binding site [chemical binding]; other site 323261000899 Q-loop/lid; other site 323261000900 ABC transporter signature motif; other site 323261000901 Walker B; other site 323261000902 D-loop; other site 323261000903 H-loop/switch region; other site 323261000904 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 323261000905 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 323261000906 dimer interface [polypeptide binding]; other site 323261000907 conserved gate region; other site 323261000908 putative PBP binding loops; other site 323261000909 ABC-ATPase subunit interface; other site 323261000910 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 323261000911 dimer interface [polypeptide binding]; other site 323261000912 conserved gate region; other site 323261000913 putative PBP binding loops; other site 323261000914 ABC-ATPase subunit interface; other site 323261000915 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 323261000916 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 323261000917 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 323261000918 salt bridge; other site 323261000919 non-specific DNA binding site [nucleotide binding]; other site 323261000920 sequence-specific DNA binding site [nucleotide binding]; other site 323261000921 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 323261000922 multifunctional aminopeptidase A; Provisional; Region: PRK00913 323261000923 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 323261000924 interface (dimer of trimers) [polypeptide binding]; other site 323261000925 Substrate-binding/catalytic site; other site 323261000926 Zn-binding sites [ion binding]; other site 323261000927 Penicillinase repressor; Region: Pencillinase_R; cl17580 323261000928 Peptidase family M48; Region: Peptidase_M48; cl12018 323261000929 Outer membrane efflux protein; Region: OEP; pfam02321 323261000930 Outer membrane efflux protein; Region: OEP; pfam02321 323261000931 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323261000932 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261000933 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323261000934 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 323261000935 stringent starvation protein A; Provisional; Region: sspA; PRK09481 323261000936 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323261000937 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 323261000938 dimer interface [polypeptide binding]; other site 323261000939 N-terminal domain interface [polypeptide binding]; other site 323261000940 Cytochrome c; Region: Cytochrom_C; cl11414 323261000941 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 323261000942 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 323261000943 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 323261000944 Qi binding site; other site 323261000945 intrachain domain interface; other site 323261000946 interchain domain interface [polypeptide binding]; other site 323261000947 heme bH binding site [chemical binding]; other site 323261000948 heme bL binding site [chemical binding]; other site 323261000949 Qo binding site; other site 323261000950 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 323261000951 interchain domain interface [polypeptide binding]; other site 323261000952 intrachain domain interface; other site 323261000953 Qi binding site; other site 323261000954 Qo binding site; other site 323261000955 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 323261000956 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 323261000957 [2Fe-2S] cluster binding site [ion binding]; other site 323261000958 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 323261000959 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 323261000960 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 323261000961 dimer interface [polypeptide binding]; other site 323261000962 anticodon binding site; other site 323261000963 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 323261000964 homodimer interface [polypeptide binding]; other site 323261000965 motif 1; other site 323261000966 active site 323261000967 motif 2; other site 323261000968 GAD domain; Region: GAD; pfam02938 323261000969 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 323261000970 active site 323261000971 motif 3; other site 323261000972 quinolinate synthetase; Provisional; Region: PRK09375 323261000973 Zinc-finger domain; Region: zf-CHCC; cl01821 323261000974 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 323261000975 hypothetical protein; Provisional; Region: PRK08999 323261000976 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 323261000977 active site 323261000978 8-oxo-dGMP binding site [chemical binding]; other site 323261000979 nudix motif; other site 323261000980 metal binding site [ion binding]; metal-binding site 323261000981 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 323261000982 thiamine phosphate binding site [chemical binding]; other site 323261000983 active site 323261000984 pyrophosphate binding site [ion binding]; other site 323261000985 Domain of unknown function (DUF329); Region: DUF329; pfam03884 323261000986 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 323261000987 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 323261000988 CoA-binding site [chemical binding]; other site 323261000989 ATP-binding [chemical binding]; other site 323261000990 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 323261000991 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 323261000992 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 323261000993 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 323261000994 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323261000995 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323261000996 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 323261000997 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 323261000998 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 323261000999 Walker A motif; other site 323261001000 ATP binding site [chemical binding]; other site 323261001001 Walker B motif; other site 323261001002 diaminopimelate decarboxylase; Region: lysA; TIGR01048 323261001003 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 323261001004 active site 323261001005 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323261001006 substrate binding site [chemical binding]; other site 323261001007 catalytic residues [active] 323261001008 dimer interface [polypeptide binding]; other site 323261001009 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323261001010 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 323261001011 S-adenosylmethionine binding site [chemical binding]; other site 323261001012 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 323261001013 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 323261001014 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 323261001015 Protein of unknown function, DUF484; Region: DUF484; cl17449 323261001016 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 323261001017 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 323261001018 active site 323261001019 Int/Topo IB signature motif; other site 323261001020 HDOD domain; Region: HDOD; pfam08668 323261001021 Response regulator receiver domain; Region: Response_reg; pfam00072 323261001022 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 323261001023 active site 323261001024 phosphorylation site [posttranslational modification] 323261001025 intermolecular recognition site; other site 323261001026 dimerization interface [polypeptide binding]; other site 323261001027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261001028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261001029 metal binding site [ion binding]; metal-binding site 323261001030 active site 323261001031 I-site; other site 323261001032 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323261001033 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261001034 N-terminal plug; other site 323261001035 ligand-binding site [chemical binding]; other site 323261001036 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 323261001037 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 323261001038 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323261001039 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261001040 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261001041 DNA-binding interface [nucleotide binding]; DNA binding site 323261001042 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261001043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261001044 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 323261001045 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323261001046 catalytic residues [active] 323261001047 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261001048 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261001049 CbbX; Provisional; Region: cbbX; CHL00181 323261001050 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 323261001051 Walker A motif; other site 323261001052 ATP binding site [chemical binding]; other site 323261001053 Walker B motif; other site 323261001054 arginine finger; other site 323261001055 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 323261001056 multimerization interface [polypeptide binding]; other site 323261001057 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 323261001058 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 323261001059 homodimer interface [polypeptide binding]; other site 323261001060 active site 323261001061 heterodimer interface [polypeptide binding]; other site 323261001062 catalytic residue [active] 323261001063 metal binding site [ion binding]; metal-binding site 323261001064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323261001065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323261001066 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 323261001067 putative dimerization interface [polypeptide binding]; other site 323261001068 PAS domain S-box; Region: sensory_box; TIGR00229 323261001069 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 323261001070 putative active site [active] 323261001071 heme pocket [chemical binding]; other site 323261001072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261001073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261001074 metal binding site [ion binding]; metal-binding site 323261001075 active site 323261001076 I-site; other site 323261001077 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 323261001078 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 323261001079 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 323261001080 ATP binding site [chemical binding]; other site 323261001081 Mg2+ binding site [ion binding]; other site 323261001082 G-X-G motif; other site 323261001083 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 323261001084 ATP binding site [chemical binding]; other site 323261001085 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 323261001086 AMIN domain; Region: AMIN; pfam11741 323261001087 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 323261001088 active site 323261001089 metal binding site [ion binding]; metal-binding site 323261001090 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261001091 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 323261001092 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 323261001093 putative carbohydrate kinase; Provisional; Region: PRK10565 323261001094 Uncharacterized conserved protein [Function unknown]; Region: COG0062 323261001095 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 323261001096 putative substrate binding site [chemical binding]; other site 323261001097 putative ATP binding site [chemical binding]; other site 323261001098 epoxyqueuosine reductase; Region: TIGR00276 323261001099 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 323261001100 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 323261001101 catalytic site [active] 323261001102 putative active site [active] 323261001103 putative substrate binding site [chemical binding]; other site 323261001104 dimer interface [polypeptide binding]; other site 323261001105 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 323261001106 Peptidase family M48; Region: Peptidase_M48; pfam01435 323261001107 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 323261001108 thioredoxin reductase; Provisional; Region: PRK10262 323261001109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323261001110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261001111 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 323261001112 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 323261001113 hexamer interface [polypeptide binding]; other site 323261001114 ligand binding site [chemical binding]; other site 323261001115 putative active site [active] 323261001116 NAD(P) binding site [chemical binding]; other site 323261001117 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 323261001118 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 323261001119 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 323261001120 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 323261001121 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 323261001122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261001123 metal binding site [ion binding]; metal-binding site 323261001124 active site 323261001125 I-site; other site 323261001126 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 323261001127 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 323261001128 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 323261001129 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323261001130 Zn2+ binding site [ion binding]; other site 323261001131 Mg2+ binding site [ion binding]; other site 323261001132 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 323261001133 FAD binding domain; Region: FAD_binding_4; pfam01565 323261001134 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 323261001135 BON domain; Region: BON; pfam04972 323261001136 BON domain; Region: BON; pfam04972 323261001137 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 323261001138 dimer interface [polypeptide binding]; other site 323261001139 active site 323261001140 hypothetical protein; Reviewed; Region: PRK12497 323261001141 LppC putative lipoprotein; Region: LppC; pfam04348 323261001142 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 323261001143 putative ligand binding site [chemical binding]; other site 323261001144 Predicted methyltransferases [General function prediction only]; Region: COG0313 323261001145 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 323261001146 putative SAM binding site [chemical binding]; other site 323261001147 putative homodimer interface [polypeptide binding]; other site 323261001148 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 323261001149 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 323261001150 Cl- selectivity filter; other site 323261001151 Cl- binding residues [ion binding]; other site 323261001152 pore gating glutamate residue; other site 323261001153 dimer interface [polypeptide binding]; other site 323261001154 Protein of unknown function (DUF533); Region: DUF533; pfam04391 323261001155 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 323261001156 putative metal binding site [ion binding]; other site 323261001157 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 323261001158 MPN+ (JAMM) motif; other site 323261001159 Zinc-binding site [ion binding]; other site 323261001160 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 323261001161 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 323261001162 ATP binding site [chemical binding]; other site 323261001163 substrate interface [chemical binding]; other site 323261001164 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 323261001165 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 323261001166 FAD binding pocket [chemical binding]; other site 323261001167 FAD binding motif [chemical binding]; other site 323261001168 phosphate binding motif [ion binding]; other site 323261001169 beta-alpha-beta structure motif; other site 323261001170 NAD binding pocket [chemical binding]; other site 323261001171 Iron coordination center [ion binding]; other site 323261001172 dihydroorotase; Provisional; Region: PRK07627 323261001173 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 323261001174 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 323261001175 active site 323261001176 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 323261001177 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323261001178 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323261001179 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 323261001180 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261001181 active site 323261001182 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 323261001183 hypothetical protein; Validated; Region: PRK00228 323261001184 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 323261001185 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323261001186 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 323261001187 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323261001188 Surface antigen; Region: Bac_surface_Ag; pfam01103 323261001189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 323261001190 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323261001191 Family of unknown function (DUF490); Region: DUF490; pfam04357 323261001192 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 323261001193 dimer interface [polypeptide binding]; other site 323261001194 motif 1; other site 323261001195 active site 323261001196 motif 2; other site 323261001197 motif 3; other site 323261001198 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 323261001199 DALR anticodon binding domain; Region: DALR_1; smart00836 323261001200 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 323261001201 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 323261001202 active site 323261001203 motif I; other site 323261001204 motif II; other site 323261001205 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323261001206 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323261001207 putative acyl-acceptor binding pocket; other site 323261001208 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323261001209 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 323261001210 active site 323261001211 phosphorylation site [posttranslational modification] 323261001212 intermolecular recognition site; other site 323261001213 dimerization interface [polypeptide binding]; other site 323261001214 PAS domain S-box; Region: sensory_box; TIGR00229 323261001215 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 323261001216 putative active site [active] 323261001217 heme pocket [chemical binding]; other site 323261001218 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261001219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261001220 metal binding site [ion binding]; metal-binding site 323261001221 active site 323261001222 I-site; other site 323261001223 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 323261001224 heat shock protein HtpX; Provisional; Region: PRK05457 323261001225 5-oxoprolinase; Region: PLN02666 323261001226 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 323261001227 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 323261001228 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 323261001229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 323261001230 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 323261001231 AAA domain; Region: AAA_33; pfam13671 323261001232 ATP-binding site [chemical binding]; other site 323261001233 Gluconate-6-phosphate binding site [chemical binding]; other site 323261001234 CHAT domain; Region: CHAT; pfam12770 323261001235 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 323261001236 TPR motif; other site 323261001237 binding surface 323261001238 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 323261001239 non-specific DNA binding site [nucleotide binding]; other site 323261001240 salt bridge; other site 323261001241 sequence-specific DNA binding site [nucleotide binding]; other site 323261001242 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261001243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261001244 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261001245 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261001246 DNA-binding interface [nucleotide binding]; DNA binding site 323261001247 Transposase IS200 like; Region: Y1_Tnp; pfam01797 323261001248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261001249 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261001250 Probable transposase; Region: OrfB_IS605; pfam01385 323261001251 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261001252 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 323261001253 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323261001254 active site 323261001255 NTP binding site [chemical binding]; other site 323261001256 metal binding triad [ion binding]; metal-binding site 323261001257 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 323261001258 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323261001259 Zn2+ binding site [ion binding]; other site 323261001260 Mg2+ binding site [ion binding]; other site 323261001261 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 323261001262 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 323261001263 putative NAD(P) binding site [chemical binding]; other site 323261001264 active site 323261001265 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 323261001266 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 323261001267 NAD(P) binding site [chemical binding]; other site 323261001268 catalytic residues [active] 323261001269 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 323261001270 Response regulator receiver domain; Region: Response_reg; pfam00072 323261001271 active site 323261001272 phosphorylation site [posttranslational modification] 323261001273 intermolecular recognition site; other site 323261001274 dimerization interface [polypeptide binding]; other site 323261001275 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 323261001276 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 323261001277 S-adenosylmethionine binding site [chemical binding]; other site 323261001278 Protein of unknown function (DUF523); Region: DUF523; pfam04463 323261001279 Uncharacterized conserved protein [Function unknown]; Region: COG3272 323261001280 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 323261001281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323261001282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323261001283 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 323261001284 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323261001285 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 323261001286 P-loop; other site 323261001287 Magnesium ion binding site [ion binding]; other site 323261001288 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 323261001289 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 323261001290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261001291 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261001292 Probable transposase; Region: OrfB_IS605; pfam01385 323261001293 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261001294 Peptidase family M48; Region: Peptidase_M48; cl12018 323261001295 TPR repeat; Region: TPR_11; pfam13414 323261001296 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 323261001297 binding surface 323261001298 TPR motif; other site 323261001299 TPR repeat; Region: TPR_11; pfam13414 323261001300 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 323261001301 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323261001302 putative active site [active] 323261001303 putative metal binding site [ion binding]; other site 323261001304 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 323261001305 Protein of unknown function (DUF497); Region: DUF497; pfam04365 323261001306 YcfA-like protein; Region: YcfA; pfam07927 323261001307 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 323261001308 putative active site [active] 323261001309 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 323261001310 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 323261001311 sequence-specific DNA binding site [nucleotide binding]; other site 323261001312 salt bridge; other site 323261001313 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323261001314 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 323261001315 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 323261001316 non-specific DNA binding site [nucleotide binding]; other site 323261001317 salt bridge; other site 323261001318 sequence-specific DNA binding site [nucleotide binding]; other site 323261001319 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 323261001320 DNA methylase; Region: N6_N4_Mtase; pfam01555 323261001321 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 323261001322 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 323261001323 active site 323261001324 Putative integral membrane protein DUF46; Region: DUF46; cl17511 323261001325 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 323261001326 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 323261001327 PIN domain; Region: PIN_3; cl17397 323261001328 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 323261001329 FtsX-like permease family; Region: FtsX; pfam02687 323261001330 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 323261001331 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323261001332 Walker A/P-loop; other site 323261001333 ATP binding site [chemical binding]; other site 323261001334 Q-loop/lid; other site 323261001335 ABC transporter signature motif; other site 323261001336 Walker B; other site 323261001337 D-loop; other site 323261001338 H-loop/switch region; other site 323261001339 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 323261001340 active site 323261001341 catalytic triad [active] 323261001342 oxyanion hole [active] 323261001343 switch loop; other site 323261001344 hypothetical protein; Provisional; Region: PRK09256 323261001345 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 323261001346 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 323261001347 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 323261001348 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 323261001349 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 323261001350 tetramer interface [polypeptide binding]; other site 323261001351 catalytic Zn binding site [ion binding]; other site 323261001352 NADP binding site [chemical binding]; other site 323261001353 amphi-Trp domain; Region: amphi-Trp; TIGR04354 323261001354 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 323261001355 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 323261001356 non-specific DNA binding site [nucleotide binding]; other site 323261001357 salt bridge; other site 323261001358 sequence-specific DNA binding site [nucleotide binding]; other site 323261001359 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 323261001360 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261001361 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 323261001362 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261001363 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 323261001364 oligomeric interface; other site 323261001365 putative active site [active] 323261001366 homodimer interface [polypeptide binding]; other site 323261001367 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 323261001368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261001369 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261001370 Probable transposase; Region: OrfB_IS605; pfam01385 323261001371 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261001372 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261001373 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 323261001374 Predicted transcriptional regulator [Transcription]; Region: COG3905 323261001375 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261001376 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 323261001377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261001378 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 323261001379 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 323261001380 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 323261001381 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 323261001382 ATP binding site [chemical binding]; other site 323261001383 putative Mg++ binding site [ion binding]; other site 323261001384 Predicted transcriptional regulator [Transcription]; Region: COG3636 323261001385 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 323261001386 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 323261001387 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 323261001388 hypothetical protein; Provisional; Region: PRK10279 323261001389 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 323261001390 nucleophile elbow; other site 323261001391 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261001392 active site 323261001393 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323261001394 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 323261001395 catalytic residues [active] 323261001396 short chain dehydrogenase; Provisional; Region: PRK06701 323261001397 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 323261001398 NAD binding site [chemical binding]; other site 323261001399 metal binding site [ion binding]; metal-binding site 323261001400 active site 323261001401 cation transport regulator; Reviewed; Region: chaB; PRK09582 323261001402 Domain of unknown function (DUF202); Region: DUF202; pfam02656 323261001403 Anabaena sensory rhodopsin transducer; Region: ASRT; pfam07100 323261001404 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323261001405 FAD binding domain; Region: FAD_binding_4; pfam01565 323261001406 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323261001407 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 323261001408 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 323261001409 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323261001410 Predicted membrane protein [Function unknown]; Region: COG4325 323261001411 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 323261001412 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 323261001413 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 323261001414 putative active site pocket [active] 323261001415 putative metal binding site [ion binding]; other site 323261001416 thiamine pyrophosphate protein; Provisional; Region: PRK08273 323261001417 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 323261001418 PYR/PP interface [polypeptide binding]; other site 323261001419 dimer interface [polypeptide binding]; other site 323261001420 tetramer interface [polypeptide binding]; other site 323261001421 TPP binding site [chemical binding]; other site 323261001422 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323261001423 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 323261001424 TPP-binding site [chemical binding]; other site 323261001425 short chain dehydrogenase; Provisional; Region: PRK07109 323261001426 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 323261001427 putative NAD(P) binding site [chemical binding]; other site 323261001428 active site 323261001429 PRC-barrel domain; Region: PRC; pfam05239 323261001430 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 323261001431 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261001432 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 323261001433 NADH dehydrogenase; Region: NADHdh; cl00469 323261001434 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 323261001435 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 323261001436 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 323261001437 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323261001438 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261001439 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 323261001440 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323261001441 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261001442 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 323261001443 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261001444 PRC-barrel domain; Region: PRC; pfam05239 323261001445 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 323261001446 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 323261001447 AsmA family; Region: AsmA; pfam05170 323261001448 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323261001449 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261001450 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261001451 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 323261001452 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 323261001453 active site 323261001454 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 323261001455 FAD binding domain; Region: FAD_binding_4; pfam01565 323261001456 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 323261001457 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323261001458 metal binding site [ion binding]; metal-binding site 323261001459 Predicted membrane protein [Function unknown]; Region: COG3650 323261001460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261001461 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261001462 Probable transposase; Region: OrfB_IS605; pfam01385 323261001463 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261001464 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 323261001465 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 323261001466 argininosuccinate lyase; Provisional; Region: PRK00855 323261001467 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 323261001468 active sites [active] 323261001469 tetramer interface [polypeptide binding]; other site 323261001470 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 323261001471 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 323261001472 domain interfaces; other site 323261001473 active site 323261001474 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 323261001475 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 323261001476 active site 323261001477 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 323261001478 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 323261001479 HemY protein N-terminus; Region: HemY_N; pfam07219 323261001480 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 323261001481 binding surface 323261001482 TPR motif; other site 323261001483 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 323261001484 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 323261001485 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 323261001486 Switch I; other site 323261001487 Switch II; other site 323261001488 septum formation inhibitor; Reviewed; Region: minC; PRK00339 323261001489 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 323261001490 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 323261001491 peptide chain release factor 1; Validated; Region: prfA; PRK00591 323261001492 This domain is found in peptide chain release factors; Region: PCRF; smart00937 323261001493 RF-1 domain; Region: RF-1; pfam00472 323261001494 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 323261001495 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 323261001496 tRNA; other site 323261001497 putative tRNA binding site [nucleotide binding]; other site 323261001498 putative NADP binding site [chemical binding]; other site 323261001499 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 323261001500 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 323261001501 binding surface 323261001502 TPR motif; other site 323261001503 TPR repeat; Region: TPR_11; pfam13414 323261001504 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 323261001505 binding surface 323261001506 TPR motif; other site 323261001507 TPR repeat; Region: TPR_11; pfam13414 323261001508 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 323261001509 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 323261001510 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 323261001511 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323261001512 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 323261001513 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 323261001514 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 323261001515 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261001516 active site 323261001517 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 323261001518 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 323261001519 5S rRNA interface [nucleotide binding]; other site 323261001520 CTC domain interface [polypeptide binding]; other site 323261001521 L16 interface [polypeptide binding]; other site 323261001522 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 323261001523 putative active site [active] 323261001524 catalytic residue [active] 323261001525 GTP-binding protein YchF; Reviewed; Region: PRK09601 323261001526 YchF GTPase; Region: YchF; cd01900 323261001527 G1 box; other site 323261001528 GTP/Mg2+ binding site [chemical binding]; other site 323261001529 Switch I region; other site 323261001530 G2 box; other site 323261001531 Switch II region; other site 323261001532 G3 box; other site 323261001533 G4 box; other site 323261001534 G5 box; other site 323261001535 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 323261001536 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 323261001537 Transposase IS200 like; Region: Y1_Tnp; pfam01797 323261001538 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 323261001539 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 323261001540 spiro-SPASM protein; Region: spiroSPASM; TIGR04321 323261001541 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 323261001542 NnrU protein; Region: NnrU; pfam07298 323261001543 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 323261001544 diiron binding motif [ion binding]; other site 323261001545 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; cl00207 323261001546 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 323261001547 Predicted metal-binding protein [General function prediction only]; Region: COG3019 323261001548 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 323261001549 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323261001550 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 323261001551 Walker A motif; other site 323261001552 ATP binding site [chemical binding]; other site 323261001553 Walker B motif; other site 323261001554 arginine finger; other site 323261001555 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261001556 Family description; Region: DsbD_2; pfam13386 323261001557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261001558 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 323261001559 Walker A/P-loop; other site 323261001560 ATP binding site [chemical binding]; other site 323261001561 Q-loop/lid; other site 323261001562 ABC transporter signature motif; other site 323261001563 Walker B; other site 323261001564 D-loop; other site 323261001565 H-loop/switch region; other site 323261001566 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 323261001567 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 323261001568 dimer interface [polypeptide binding]; other site 323261001569 conserved gate region; other site 323261001570 ABC-ATPase subunit interface; other site 323261001571 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261001572 N-terminal plug; other site 323261001573 ligand-binding site [chemical binding]; other site 323261001574 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 323261001575 gating phenylalanine in ion channel; other site 323261001576 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 323261001577 Transposase IS200 like; Region: Y1_Tnp; cl00848 323261001578 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323261001579 PLD-like domain; Region: PLDc_2; pfam13091 323261001580 putative active site [active] 323261001581 catalytic site [active] 323261001582 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 323261001583 ATP binding site [chemical binding]; other site 323261001584 putative Mg++ binding site [ion binding]; other site 323261001585 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 323261001586 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 323261001587 nucleotide binding region [chemical binding]; other site 323261001588 ATP-binding site [chemical binding]; other site 323261001589 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 323261001590 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 323261001591 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 323261001592 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 323261001593 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 323261001594 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 323261001595 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323261001596 catalytic residues [active] 323261001597 hinge region; other site 323261001598 alpha helical domain; other site 323261001599 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323261001600 Cytochrome c; Region: Cytochrom_C; cl11414 323261001601 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 323261001602 G1 box; other site 323261001603 GTP/Mg2+ binding site [chemical binding]; other site 323261001604 Switch I region; other site 323261001605 G2 box; other site 323261001606 G3 box; other site 323261001607 Switch II region; other site 323261001608 G4 box; other site 323261001609 G5 box; other site 323261001610 DNA polymerase I; Provisional; Region: PRK05755 323261001611 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 323261001612 active site 323261001613 metal binding site 1 [ion binding]; metal-binding site 323261001614 putative 5' ssDNA interaction site; other site 323261001615 metal binding site 3; metal-binding site 323261001616 metal binding site 2 [ion binding]; metal-binding site 323261001617 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 323261001618 putative DNA binding site [nucleotide binding]; other site 323261001619 putative metal binding site [ion binding]; other site 323261001620 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 323261001621 active site 323261001622 catalytic site [active] 323261001623 substrate binding site [chemical binding]; other site 323261001624 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 323261001625 active site 323261001626 DNA binding site [nucleotide binding] 323261001627 catalytic site [active] 323261001628 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 323261001629 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 323261001630 arginine decarboxylase; Provisional; Region: PRK05354 323261001631 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 323261001632 dimer interface [polypeptide binding]; other site 323261001633 active site 323261001634 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323261001635 catalytic residues [active] 323261001636 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 323261001637 spermidine synthase; Provisional; Region: PRK00811 323261001638 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 323261001639 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 323261001640 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 323261001641 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261001642 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 323261001643 putative ADP-binding pocket [chemical binding]; other site 323261001644 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323261001645 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 323261001646 putative active site [active] 323261001647 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 323261001648 O-Antigen ligase; Region: Wzy_C; pfam04932 323261001649 Protein of unknown function DUF262; Region: DUF262; pfam03235 323261001650 Uncharacterized conserved protein [Function unknown]; Region: COG1479 323261001651 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 323261001652 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 323261001653 dimer interface [polypeptide binding]; other site 323261001654 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323261001655 metal binding site [ion binding]; metal-binding site 323261001656 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 323261001657 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 323261001658 non-specific DNA binding site [nucleotide binding]; other site 323261001659 salt bridge; other site 323261001660 sequence-specific DNA binding site [nucleotide binding]; other site 323261001661 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323261001662 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 323261001663 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 323261001664 non-specific DNA binding site [nucleotide binding]; other site 323261001665 salt bridge; other site 323261001666 sequence-specific DNA binding site [nucleotide binding]; other site 323261001667 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 323261001668 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323261001669 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 323261001670 putative active site [active] 323261001671 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261001672 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 323261001673 putative ADP-binding pocket [chemical binding]; other site 323261001674 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 323261001675 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 323261001676 putative active site [active] 323261001677 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 323261001678 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 323261001679 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 323261001680 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 323261001681 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 323261001682 Walker A/P-loop; other site 323261001683 ATP binding site [chemical binding]; other site 323261001684 Q-loop/lid; other site 323261001685 ABC transporter signature motif; other site 323261001686 Walker B; other site 323261001687 D-loop; other site 323261001688 H-loop/switch region; other site 323261001689 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 323261001690 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 323261001691 ABC-ATPase subunit interface; other site 323261001692 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 323261001693 dimer interface [polypeptide binding]; other site 323261001694 conserved gate region; other site 323261001695 putative PBP binding loops; other site 323261001696 ABC-ATPase subunit interface; other site 323261001697 PBP superfamily domain; Region: PBP_like_2; cl17296 323261001698 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323261001699 Low molecular weight phosphatase family; Region: LMWPc; cl00105 323261001700 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 323261001701 active site 323261001702 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323261001703 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 323261001704 S-adenosylmethionine binding site [chemical binding]; other site 323261001705 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 323261001706 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 323261001707 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 323261001708 Probable Catalytic site; other site 323261001709 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 323261001710 Uncharacterized conserved protein [Function unknown]; Region: COG0398 323261001711 mercuric reductase; Validated; Region: PRK06370 323261001712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323261001713 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261001714 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261001715 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 323261001716 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 323261001717 FeS/SAM binding site; other site 323261001718 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 323261001719 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 323261001720 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 323261001721 NAD binding site [chemical binding]; other site 323261001722 catalytic Zn binding site [ion binding]; other site 323261001723 structural Zn binding site [ion binding]; other site 323261001724 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 323261001725 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 323261001726 active site residue [active] 323261001727 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 323261001728 active site residue [active] 323261001729 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 323261001730 active site 323261001731 metal binding site [ion binding]; metal-binding site 323261001732 Cation efflux family; Region: Cation_efflux; cl00316 323261001733 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323261001734 Sel1-like repeats; Region: SEL1; smart00671 323261001735 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 323261001736 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 323261001737 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 323261001738 Part of AAA domain; Region: AAA_19; pfam13245 323261001739 Family description; Region: UvrD_C_2; pfam13538 323261001740 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 323261001741 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 323261001742 inhibitor-cofactor binding pocket; inhibition site 323261001743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261001744 catalytic residue [active] 323261001745 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 323261001746 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323261001747 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323261001748 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 323261001749 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 323261001750 catalytic residues [active] 323261001751 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 323261001752 binding surface 323261001753 TPR motif; other site 323261001754 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 323261001755 thiamine phosphate binding site [chemical binding]; other site 323261001756 active site 323261001757 pyrophosphate binding site [ion binding]; other site 323261001758 Rubredoxin [Energy production and conversion]; Region: COG1773 323261001759 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 323261001760 iron binding site [ion binding]; other site 323261001761 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 323261001762 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 323261001763 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323261001764 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 323261001765 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323261001766 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 323261001767 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323261001768 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 323261001769 binding surface 323261001770 TPR motif; other site 323261001771 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 323261001772 binding surface 323261001773 TPR motif; other site 323261001774 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 323261001775 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 323261001776 generic binding surface II; other site 323261001777 generic binding surface I; other site 323261001778 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 323261001779 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 323261001780 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 323261001781 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 323261001782 active site 323261001783 GMP synthase; Reviewed; Region: guaA; PRK00074 323261001784 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 323261001785 AMP/PPi binding site [chemical binding]; other site 323261001786 candidate oxyanion hole; other site 323261001787 catalytic triad [active] 323261001788 potential glutamine specificity residues [chemical binding]; other site 323261001789 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 323261001790 ATP Binding subdomain [chemical binding]; other site 323261001791 Ligand Binding sites [chemical binding]; other site 323261001792 Dimerization subdomain; other site 323261001793 integrase; Provisional; Region: PRK09692 323261001794 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 323261001795 active site 323261001796 Int/Topo IB signature motif; other site 323261001797 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 323261001798 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 323261001799 Catalytic site [active] 323261001800 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 323261001801 ParB-like nuclease domain; Region: ParBc; pfam02195 323261001802 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 323261001803 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 323261001804 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 323261001805 PRTRC system protein D; Region: PRTRC_D; TIGR03739 323261001806 Mg binding site [ion binding]; other site 323261001807 nucleotide binding site [chemical binding]; other site 323261001808 putative protofilament interface [polypeptide binding]; other site 323261001809 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 323261001810 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 323261001811 MPN+ (JAMM) motif; other site 323261001812 Zinc-binding site [ion binding]; other site 323261001813 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 323261001814 Integrase; Region: Integrase_1; pfam12835 323261001815 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 323261001816 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 323261001817 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 323261001818 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323261001819 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 323261001820 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 323261001821 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 323261001822 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 323261001823 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 323261001824 RES domain; Region: RES; smart00953 323261001825 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 323261001826 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 323261001827 active site 323261001828 catalytic site [active] 323261001829 substrate binding site [chemical binding]; other site 323261001830 Transposase; Region: HTH_Tnp_1; pfam01527 323261001831 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323261001832 Integrase core domain; Region: rve; pfam00665 323261001833 Integrase core domain; Region: rve_3; pfam13683 323261001834 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 323261001835 Walker A motif; other site 323261001836 ATP binding site [chemical binding]; other site 323261001837 Walker B motif; other site 323261001838 arginine finger; other site 323261001839 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 323261001840 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 323261001841 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 323261001842 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 323261001843 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 323261001844 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 323261001845 integrating conjugative element protein, PFL_4704 family; Region: conj_TIGR03749 323261001846 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 323261001847 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 323261001848 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 323261001849 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 323261001850 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 323261001851 Nuclease-related domain; Region: NERD; pfam08378 323261001852 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323261001853 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 323261001854 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 323261001855 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 323261001856 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 323261001857 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 323261001858 Protein of unknown function (DUF499); Region: DUF499; pfam04465 323261001859 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 323261001860 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 323261001861 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 323261001862 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 323261001863 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 323261001864 nucleotide binding region [chemical binding]; other site 323261001865 ATP-binding site [chemical binding]; other site 323261001866 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 323261001867 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261001868 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261001869 DNA-binding interface [nucleotide binding]; DNA binding site 323261001870 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261001871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261001872 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323261001873 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 323261001874 ATP binding site [chemical binding]; other site 323261001875 putative Mg++ binding site [ion binding]; other site 323261001876 WYL domain; Region: WYL; pfam13280 323261001877 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 323261001878 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 323261001879 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 323261001880 Ligand Binding Site [chemical binding]; other site 323261001881 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 323261001882 active site 323261001883 Helix-turn-helix domain; Region: HTH_17; pfam12728 323261001884 rod shape-determining protein MreB; Provisional; Region: PRK13930 323261001885 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 323261001886 nucleotide binding site [chemical binding]; other site 323261001887 putative NEF/HSP70 interaction site [polypeptide binding]; other site 323261001888 SBD interface [polypeptide binding]; other site 323261001889 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 323261001890 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323261001891 Walker A motif; other site 323261001892 ATP binding site [chemical binding]; other site 323261001893 Walker B motif; other site 323261001894 arginine finger; other site 323261001895 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 323261001896 Transposase domain (DUF772); Region: DUF772; pfam05598 323261001897 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 323261001898 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 323261001899 dimerization interface [polypeptide binding]; other site 323261001900 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 323261001901 dimer interface [polypeptide binding]; other site 323261001902 phosphorylation site [posttranslational modification] 323261001903 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 323261001904 ATP binding site [chemical binding]; other site 323261001905 Mg2+ binding site [ion binding]; other site 323261001906 G-X-G motif; other site 323261001907 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323261001908 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 323261001909 active site 323261001910 phosphorylation site [posttranslational modification] 323261001911 intermolecular recognition site; other site 323261001912 dimerization interface [polypeptide binding]; other site 323261001913 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 323261001914 DNA binding site [nucleotide binding] 323261001915 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 323261001916 dimer interface [polypeptide binding]; other site 323261001917 RES domain; Region: RES; pfam08808 323261001918 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 323261001919 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 323261001920 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 323261001921 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 323261001922 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 323261001923 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 323261001924 ParB-like nuclease domain; Region: ParBc; cl02129 323261001925 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 323261001926 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 323261001927 active site 323261001928 DNA binding site [nucleotide binding] 323261001929 Int/Topo IB signature motif; other site 323261001930 Homeodomain-like domain; Region: HTH_23; cl17451 323261001931 Uncharacterized conserved protein [Function unknown]; Region: COG0397 323261001932 hypothetical protein; Validated; Region: PRK00029 323261001933 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 323261001934 Uncharacterized conserved protein [Function unknown]; Region: COG4127 323261001935 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323261001936 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323261001937 catalytic residues [active] 323261001938 catalytic nucleophile [active] 323261001939 Presynaptic Site I dimer interface [polypeptide binding]; other site 323261001940 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323261001941 Synaptic Flat tetramer interface [polypeptide binding]; other site 323261001942 Synaptic Site I dimer interface [polypeptide binding]; other site 323261001943 DNA binding site [nucleotide binding] 323261001944 HTH domain; Region: HTH_22; pfam13309 323261001945 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 323261001946 non-specific DNA binding site [nucleotide binding]; other site 323261001947 salt bridge; other site 323261001948 sequence-specific DNA binding site [nucleotide binding]; other site 323261001949 AAA domain; Region: AAA_13; pfam13166 323261001950 AAA domain; Region: AAA_13; pfam13166 323261001951 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261001952 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261001953 DNA-binding interface [nucleotide binding]; DNA binding site 323261001954 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261001955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261001956 exonuclease subunit SbcD; Provisional; Region: PRK10966 323261001957 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 323261001958 active site 323261001959 metal binding site [ion binding]; metal-binding site 323261001960 DNA binding site [nucleotide binding] 323261001961 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 323261001962 exonuclease subunit SbcC; Provisional; Region: PRK10246 323261001963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261001964 Walker A/P-loop; other site 323261001965 ATP binding site [chemical binding]; other site 323261001966 Q-loop/lid; other site 323261001967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261001968 ABC transporter signature motif; other site 323261001969 Walker B; other site 323261001970 D-loop; other site 323261001971 H-loop/switch region; other site 323261001972 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 323261001973 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 323261001974 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 323261001975 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 323261001976 DctM-like transporters; Region: DctM; pfam06808 323261001977 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 323261001978 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 323261001979 putative active site [active] 323261001980 dimerization interface [polypeptide binding]; other site 323261001981 putative tRNAtyr binding site [nucleotide binding]; other site 323261001982 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 323261001983 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 323261001984 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 323261001985 CoA-ligase; Region: Ligase_CoA; pfam00549 323261001986 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 323261001987 CoA binding domain; Region: CoA_binding; pfam02629 323261001988 CoA-ligase; Region: Ligase_CoA; pfam00549 323261001989 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 323261001990 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323261001991 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 323261001992 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 323261001993 binding surface 323261001994 TPR motif; other site 323261001995 L,D-transpeptidase; Provisional; Region: PRK10260 323261001996 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261001997 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323261001998 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323261001999 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 323261002000 active site 323261002001 dimerization interface [polypeptide binding]; other site 323261002002 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 323261002003 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 323261002004 G1 box; other site 323261002005 putative GEF interaction site [polypeptide binding]; other site 323261002006 GTP/Mg2+ binding site [chemical binding]; other site 323261002007 Switch I region; other site 323261002008 G2 box; other site 323261002009 G3 box; other site 323261002010 Switch II region; other site 323261002011 G4 box; other site 323261002012 G5 box; other site 323261002013 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 323261002014 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 323261002015 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 323261002016 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 323261002017 dimer interface [polypeptide binding]; other site 323261002018 phosphorylation site [posttranslational modification] 323261002019 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 323261002020 ATP binding site [chemical binding]; other site 323261002021 Mg2+ binding site [ion binding]; other site 323261002022 G-X-G motif; other site 323261002023 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323261002024 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 323261002025 active site 323261002026 phosphorylation site [posttranslational modification] 323261002027 intermolecular recognition site; other site 323261002028 dimerization interface [polypeptide binding]; other site 323261002029 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 323261002030 Walker A motif; other site 323261002031 ATP binding site [chemical binding]; other site 323261002032 Walker B motif; other site 323261002033 arginine finger; other site 323261002034 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261002035 Family description; Region: VCBS; pfam13517 323261002036 Family description; Region: VCBS; pfam13517 323261002037 Family description; Region: VCBS; pfam13517 323261002038 Family description; Region: VCBS; pfam13517 323261002039 Family description; Region: VCBS; pfam13517 323261002040 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 323261002041 active site 323261002042 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 323261002043 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 323261002044 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 323261002045 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 323261002046 Walker A/P-loop; other site 323261002047 ATP binding site [chemical binding]; other site 323261002048 Q-loop/lid; other site 323261002049 ABC transporter signature motif; other site 323261002050 Walker B; other site 323261002051 D-loop; other site 323261002052 H-loop/switch region; other site 323261002053 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 323261002054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261002055 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 323261002056 Sulfatase; Region: Sulfatase; pfam00884 323261002057 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 323261002058 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261002059 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 323261002060 Family description; Region: VCBS; pfam13517 323261002061 Family description; Region: VCBS; pfam13517 323261002062 Family description; Region: VCBS; pfam13517 323261002063 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 323261002064 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 323261002065 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 323261002066 Galactose-3-O-sulfotransferase; Region: Gal-3-0_sulfotr; pfam06990 323261002067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261002068 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 323261002069 putative ADP-binding pocket [chemical binding]; other site 323261002070 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323261002071 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 323261002072 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 323261002073 Ligand binding site; other site 323261002074 Putative Catalytic site; other site 323261002075 DXD motif; other site 323261002076 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 323261002077 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 323261002078 TPR motif; other site 323261002079 TPR repeat; Region: TPR_11; pfam13414 323261002080 binding surface 323261002081 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 323261002082 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323261002083 general secretion pathway protein J; Validated; Region: PRK08808 323261002084 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 323261002085 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 323261002086 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 323261002087 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 323261002088 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 323261002089 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323261002090 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323261002091 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323261002092 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 323261002093 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323261002094 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 323261002095 putative active site [active] 323261002096 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323261002097 Domain of unknown function DUF29; Region: DUF29; pfam01724 323261002098 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323261002099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 323261002100 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 323261002101 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 323261002102 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 323261002103 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 323261002104 glycogen synthase; Provisional; Region: glgA; PRK00654 323261002105 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 323261002106 ADP-binding pocket [chemical binding]; other site 323261002107 homodimer interface [polypeptide binding]; other site 323261002108 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 323261002109 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 323261002110 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 323261002111 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 323261002112 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 323261002113 NAD binding site [chemical binding]; other site 323261002114 substrate binding site [chemical binding]; other site 323261002115 homodimer interface [polypeptide binding]; other site 323261002116 active site 323261002117 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 323261002118 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 323261002119 substrate binding site; other site 323261002120 tetramer interface; other site 323261002121 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 323261002122 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323261002123 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 323261002124 NADP binding site [chemical binding]; other site 323261002125 active site 323261002126 putative substrate binding site [chemical binding]; other site 323261002127 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 323261002128 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 323261002129 active site 323261002130 dimer interface [polypeptide binding]; other site 323261002131 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323261002132 Ligand Binding Site [chemical binding]; other site 323261002133 Molecular Tunnel; other site 323261002134 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323261002135 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 323261002136 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323261002137 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 323261002138 Na binding site [ion binding]; other site 323261002139 Isochorismatase family; Region: Isochorismatase; pfam00857 323261002140 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 323261002141 catalytic triad [active] 323261002142 conserved cis-peptide bond; other site 323261002143 allantoate amidohydrolase; Reviewed; Region: PRK09290 323261002144 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 323261002145 active site 323261002146 metal binding site [ion binding]; metal-binding site 323261002147 dimer interface [polypeptide binding]; other site 323261002148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323261002149 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 323261002150 dimer interface [polypeptide binding]; other site 323261002151 phosphorylation site [posttranslational modification] 323261002152 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 323261002153 ATP binding site [chemical binding]; other site 323261002154 Mg2+ binding site [ion binding]; other site 323261002155 G-X-G motif; other site 323261002156 response regulator GlrR; Provisional; Region: PRK15115 323261002157 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 323261002158 active site 323261002159 phosphorylation site [posttranslational modification] 323261002160 intermolecular recognition site; other site 323261002161 dimerization interface [polypeptide binding]; other site 323261002162 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 323261002163 Walker A motif; other site 323261002164 ATP binding site [chemical binding]; other site 323261002165 Walker B motif; other site 323261002166 arginine finger; other site 323261002167 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 323261002168 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 323261002169 active site 323261002170 catalytic triad [active] 323261002171 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323261002172 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 323261002173 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 323261002174 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 323261002175 S-adenosylmethionine binding site [chemical binding]; other site 323261002176 Predicted membrane protein [Function unknown]; Region: COG1238 323261002177 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 323261002178 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261002179 Peptidase family M23; Region: Peptidase_M23; pfam01551 323261002180 peptide chain release factor 2; Region: prfB; TIGR00020 323261002181 This domain is found in peptide chain release factors; Region: PCRF; smart00937 323261002182 RF-1 domain; Region: RF-1; pfam00472 323261002183 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 323261002184 Recombination protein O N terminal; Region: RecO_N; pfam11967 323261002185 Recombination protein O C terminal; Region: RecO_C; pfam02565 323261002186 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 323261002187 active site 323261002188 hydrophilic channel; other site 323261002189 dimerization interface [polypeptide binding]; other site 323261002190 catalytic residues [active] 323261002191 active site lid [active] 323261002192 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 323261002193 cysteine synthase B; Region: cysM; TIGR01138 323261002194 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 323261002195 dimer interface [polypeptide binding]; other site 323261002196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261002197 catalytic residue [active] 323261002198 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 323261002199 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 323261002200 active site 323261002201 catalytic site [active] 323261002202 substrate binding site [chemical binding]; other site 323261002203 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 323261002204 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 323261002205 TRAM domain; Region: TRAM; cl01282 323261002206 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 323261002207 S-adenosylmethionine binding site [chemical binding]; other site 323261002208 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 323261002209 homopentamer interface [polypeptide binding]; other site 323261002210 active site 323261002211 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 323261002212 putative RNA binding site [nucleotide binding]; other site 323261002213 thiamine monophosphate kinase; Provisional; Region: PRK05731 323261002214 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 323261002215 ATP binding site [chemical binding]; other site 323261002216 dimerization interface [polypeptide binding]; other site 323261002217 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 323261002218 tetramer interfaces [polypeptide binding]; other site 323261002219 binuclear metal-binding site [ion binding]; other site 323261002220 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 323261002221 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323261002222 metal binding triad; other site 323261002223 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323261002224 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323261002225 Zn2+ binding site [ion binding]; other site 323261002226 Mg2+ binding site [ion binding]; other site 323261002227 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 323261002228 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 323261002229 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 323261002230 active site 323261002231 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 323261002232 rRNA interaction site [nucleotide binding]; other site 323261002233 S8 interaction site; other site 323261002234 putative laminin-1 binding site; other site 323261002235 elongation factor Ts; Provisional; Region: tsf; PRK09377 323261002236 UBA/TS-N domain; Region: UBA; pfam00627 323261002237 Elongation factor TS; Region: EF_TS; pfam00889 323261002238 Elongation factor TS; Region: EF_TS; pfam00889 323261002239 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 323261002240 putative nucleotide binding site [chemical binding]; other site 323261002241 uridine monophosphate binding site [chemical binding]; other site 323261002242 homohexameric interface [polypeptide binding]; other site 323261002243 ribosome recycling factor; Reviewed; Region: frr; PRK00083 323261002244 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 323261002245 hinge region; other site 323261002246 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 323261002247 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 323261002248 catalytic residue [active] 323261002249 putative FPP diphosphate binding site; other site 323261002250 putative FPP binding hydrophobic cleft; other site 323261002251 dimer interface [polypeptide binding]; other site 323261002252 putative IPP diphosphate binding site; other site 323261002253 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 323261002254 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 323261002255 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 323261002256 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 323261002257 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 323261002258 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 323261002259 zinc metallopeptidase RseP; Provisional; Region: PRK10779 323261002260 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 323261002261 active site 323261002262 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 323261002263 protein binding site [polypeptide binding]; other site 323261002264 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 323261002265 protein binding site [polypeptide binding]; other site 323261002266 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 323261002267 putative substrate binding region [chemical binding]; other site 323261002268 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 323261002269 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323261002270 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323261002271 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323261002272 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323261002273 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323261002274 Surface antigen; Region: Bac_surface_Ag; pfam01103 323261002275 periplasmic chaperone; Provisional; Region: PRK10780 323261002276 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 323261002277 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 323261002278 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 323261002279 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 323261002280 active site 323261002281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 323261002282 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 323261002283 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 323261002284 Trp docking motif [polypeptide binding]; other site 323261002285 GTP-binding protein Der; Reviewed; Region: PRK00093 323261002286 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 323261002287 G1 box; other site 323261002288 GTP/Mg2+ binding site [chemical binding]; other site 323261002289 Switch I region; other site 323261002290 G2 box; other site 323261002291 Switch II region; other site 323261002292 G3 box; other site 323261002293 G4 box; other site 323261002294 G5 box; other site 323261002295 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 323261002296 G1 box; other site 323261002297 GTP/Mg2+ binding site [chemical binding]; other site 323261002298 Switch I region; other site 323261002299 G2 box; other site 323261002300 G3 box; other site 323261002301 Switch II region; other site 323261002302 G4 box; other site 323261002303 G5 box; other site 323261002304 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323261002305 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323261002306 ligand binding site [chemical binding]; other site 323261002307 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 323261002308 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 323261002309 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323261002310 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 323261002311 acyl-activating enzyme (AAE) consensus motif; other site 323261002312 acyl-activating enzyme (AAE) consensus motif; other site 323261002313 putative AMP binding site [chemical binding]; other site 323261002314 putative active site [active] 323261002315 putative CoA binding site [chemical binding]; other site 323261002316 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 323261002317 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 323261002318 substrate binding site [chemical binding]; other site 323261002319 oxyanion hole (OAH) forming residues; other site 323261002320 trimer interface [polypeptide binding]; other site 323261002321 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 323261002322 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323261002323 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323261002324 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 323261002325 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 323261002326 dimer interface [polypeptide binding]; other site 323261002327 active site 323261002328 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 323261002329 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 323261002330 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 323261002331 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 323261002332 active site 323261002333 homodimer interface [polypeptide binding]; other site 323261002334 catalytic site [active] 323261002335 acceptor binding site [chemical binding]; other site 323261002336 trehalose synthase; Region: treS_nterm; TIGR02456 323261002337 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 323261002338 active site 323261002339 catalytic site [active] 323261002340 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 323261002341 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 323261002342 Cupin domain; Region: Cupin_2; pfam07883 323261002343 flagellar motor protein PomA; Reviewed; Region: PRK08990 323261002344 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 323261002345 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 323261002346 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323261002347 ligand binding site [chemical binding]; other site 323261002348 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 323261002349 ferredoxin-NADP reductase; Provisional; Region: PRK10926 323261002350 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 323261002351 FAD binding pocket [chemical binding]; other site 323261002352 FAD binding motif [chemical binding]; other site 323261002353 phosphate binding motif [ion binding]; other site 323261002354 beta-alpha-beta structure motif; other site 323261002355 NAD binding pocket [chemical binding]; other site 323261002356 Domain of unknown function (DUF427); Region: DUF427; pfam04248 323261002357 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 323261002358 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 323261002359 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 323261002360 ABC-ATPase subunit interface; other site 323261002361 dimer interface [polypeptide binding]; other site 323261002362 putative PBP binding regions; other site 323261002363 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 323261002364 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 323261002365 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 323261002366 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 323261002367 cobalamin binding residues [chemical binding]; other site 323261002368 putative BtuC binding residues; other site 323261002369 dimer interface [polypeptide binding]; other site 323261002370 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 323261002371 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 323261002372 Cysteine-rich domain; Region: CCG; pfam02754 323261002373 Cysteine-rich domain; Region: CCG; pfam02754 323261002374 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 323261002375 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 323261002376 homodimer interface [polypeptide binding]; other site 323261002377 substrate-cofactor binding pocket; other site 323261002378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261002379 catalytic residue [active] 323261002380 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 323261002381 putative inner membrane peptidase; Provisional; Region: PRK11778 323261002382 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323261002383 tandem repeat interface [polypeptide binding]; other site 323261002384 oligomer interface [polypeptide binding]; other site 323261002385 active site residues [active] 323261002386 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 323261002387 FAD binding domain; Region: FAD_binding_4; pfam01565 323261002388 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 323261002389 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 323261002390 putative active site [active] 323261002391 putative PHP Thumb interface [polypeptide binding]; other site 323261002392 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 323261002393 generic binding surface II; other site 323261002394 generic binding surface I; other site 323261002395 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323261002396 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 323261002397 active site 323261002398 phosphorylation site [posttranslational modification] 323261002399 intermolecular recognition site; other site 323261002400 dimerization interface [polypeptide binding]; other site 323261002401 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261002402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261002403 metal binding site [ion binding]; metal-binding site 323261002404 active site 323261002405 I-site; other site 323261002406 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 323261002407 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 323261002408 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 323261002409 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 323261002410 Ligand Binding Site [chemical binding]; other site 323261002411 TilS substrate binding domain; Region: TilS; pfam09179 323261002412 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 323261002413 CTP synthetase; Validated; Region: pyrG; PRK05380 323261002414 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 323261002415 Catalytic site [active] 323261002416 active site 323261002417 UTP binding site [chemical binding]; other site 323261002418 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 323261002419 active site 323261002420 putative oxyanion hole; other site 323261002421 catalytic triad [active] 323261002422 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 323261002423 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323261002424 enolase; Provisional; Region: eno; PRK00077 323261002425 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 323261002426 dimer interface [polypeptide binding]; other site 323261002427 metal binding site [ion binding]; metal-binding site 323261002428 substrate binding pocket [chemical binding]; other site 323261002429 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 323261002430 Septum formation initiator; Region: DivIC; cl17659 323261002431 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 323261002432 substrate binding site; other site 323261002433 dimer interface; other site 323261002434 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 323261002435 homotrimer interaction site [polypeptide binding]; other site 323261002436 zinc binding site [ion binding]; other site 323261002437 CDP-binding sites; other site 323261002438 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 323261002439 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 323261002440 Permutation of conserved domain; other site 323261002441 active site 323261002442 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 323261002443 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 323261002444 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 323261002445 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261002446 N-terminal plug; other site 323261002447 ligand-binding site [chemical binding]; other site 323261002448 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261002449 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261002450 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261002451 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261002452 DNA-binding interface [nucleotide binding]; DNA binding site 323261002453 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261002454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261002455 metal binding site [ion binding]; metal-binding site 323261002456 active site 323261002457 I-site; other site 323261002458 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 323261002459 siroheme synthase; Provisional; Region: cysG; PRK10637 323261002460 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 323261002461 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 323261002462 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 323261002463 active site 323261002464 SAM binding site [chemical binding]; other site 323261002465 homodimer interface [polypeptide binding]; other site 323261002466 glutamate dehydrogenase; Provisional; Region: PRK09414 323261002467 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323261002468 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 323261002469 NAD(P) binding site [chemical binding]; other site 323261002470 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 323261002471 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 323261002472 dimerization interface [polypeptide binding]; other site 323261002473 active site 323261002474 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 323261002475 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 323261002476 amidase catalytic site [active] 323261002477 substrate binding site [chemical binding]; other site 323261002478 Zn binding residues [ion binding]; other site 323261002479 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 323261002480 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 323261002481 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 323261002482 homodimer interface [polypeptide binding]; other site 323261002483 active site 323261002484 putative chemical substrate binding site [chemical binding]; other site 323261002485 metal binding site [ion binding]; metal-binding site 323261002486 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 323261002487 RNA binding surface [nucleotide binding]; other site 323261002488 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 323261002489 putative hydrolase; Provisional; Region: PRK10985 323261002490 acetyl-CoA synthetase; Provisional; Region: PRK00174 323261002491 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 323261002492 active site 323261002493 CoA binding site [chemical binding]; other site 323261002494 acyl-activating enzyme (AAE) consensus motif; other site 323261002495 AMP binding site [chemical binding]; other site 323261002496 acetate binding site [chemical binding]; other site 323261002497 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 323261002498 Protein of unknown function DUF262; Region: DUF262; pfam03235 323261002499 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261002500 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261002501 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261002502 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261002503 DNA-binding interface [nucleotide binding]; DNA binding site 323261002504 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323261002505 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 323261002506 dimer interface [polypeptide binding]; other site 323261002507 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323261002508 catalytic triad [active] 323261002509 peroxidatic and resolving cysteines [active] 323261002510 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 323261002511 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 323261002512 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 323261002513 motif II; other site 323261002514 hypothetical protein; Provisional; Region: PRK08960 323261002515 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 323261002516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261002517 homodimer interface [polypeptide binding]; other site 323261002518 catalytic residue [active] 323261002519 poly(A) polymerase; Region: pcnB; TIGR01942 323261002520 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323261002521 active site 323261002522 NTP binding site [chemical binding]; other site 323261002523 metal binding triad [ion binding]; metal-binding site 323261002524 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 323261002525 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 323261002526 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 323261002527 catalytic center binding site [active] 323261002528 ATP binding site [chemical binding]; other site 323261002529 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 323261002530 oligomerization interface [polypeptide binding]; other site 323261002531 active site 323261002532 metal binding site [ion binding]; metal-binding site 323261002533 pantoate--beta-alanine ligase; Region: panC; TIGR00018 323261002534 Pantoate-beta-alanine ligase; Region: PanC; cd00560 323261002535 active site 323261002536 ATP-binding site [chemical binding]; other site 323261002537 pantoate-binding site; other site 323261002538 HXXH motif; other site 323261002539 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 323261002540 tetramerization interface [polypeptide binding]; other site 323261002541 active site 323261002542 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 323261002543 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323261002544 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 323261002545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323261002546 DNA-binding site [nucleotide binding]; DNA binding site 323261002547 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 323261002548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261002549 homodimer interface [polypeptide binding]; other site 323261002550 catalytic residue [active] 323261002551 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323261002552 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 323261002553 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323261002554 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 323261002555 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 323261002556 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 323261002557 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 323261002558 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323261002559 catalytic residue [active] 323261002560 prolyl-tRNA synthetase; Provisional; Region: PRK09194 323261002561 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 323261002562 dimer interface [polypeptide binding]; other site 323261002563 motif 1; other site 323261002564 active site 323261002565 motif 2; other site 323261002566 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 323261002567 putative deacylase active site [active] 323261002568 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 323261002569 active site 323261002570 motif 3; other site 323261002571 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 323261002572 anticodon binding site; other site 323261002573 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 323261002574 active site 323261002575 multimer interface [polypeptide binding]; other site 323261002576 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 323261002577 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 323261002578 FeS/SAM binding site; other site 323261002579 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 323261002580 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 323261002581 binding surface 323261002582 TPR motif; other site 323261002583 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 323261002584 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 323261002585 dimer interface [polypeptide binding]; other site 323261002586 motif 1; other site 323261002587 active site 323261002588 motif 2; other site 323261002589 motif 3; other site 323261002590 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 323261002591 anticodon binding site; other site 323261002592 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 323261002593 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 323261002594 active site 323261002595 dimer interface [polypeptide binding]; other site 323261002596 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 323261002597 dimer interface [polypeptide binding]; other site 323261002598 active site 323261002599 glycogen branching enzyme; Provisional; Region: PRK05402 323261002600 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 323261002601 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 323261002602 active site 323261002603 catalytic site [active] 323261002604 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 323261002605 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 323261002606 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 323261002607 ligand binding site; other site 323261002608 oligomer interface; other site 323261002609 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 323261002610 dimer interface [polypeptide binding]; other site 323261002611 N-terminal domain interface [polypeptide binding]; other site 323261002612 sulfate 1 binding site; other site 323261002613 4-alpha-glucanotransferase; Provisional; Region: PRK14508 323261002614 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 323261002615 lipoyl attachment site [posttranslational modification]; other site 323261002616 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 323261002617 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 323261002618 tetramer interface [polypeptide binding]; other site 323261002619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261002620 catalytic residue [active] 323261002621 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 323261002622 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 323261002623 putative peptidase; Provisional; Region: PRK11649 323261002624 Peptidase family M23; Region: Peptidase_M23; pfam01551 323261002625 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 323261002626 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 323261002627 active site 323261002628 HIGH motif; other site 323261002629 dimer interface [polypeptide binding]; other site 323261002630 KMSKS motif; other site 323261002631 S4 RNA-binding domain; Region: S4; smart00363 323261002632 RNA binding surface [nucleotide binding]; other site 323261002633 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323261002634 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 323261002635 S-adenosylmethionine binding site [chemical binding]; other site 323261002636 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323261002637 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 323261002638 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 323261002639 Glycoprotease family; Region: Peptidase_M22; pfam00814 323261002640 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 323261002641 MutS domain I; Region: MutS_I; pfam01624 323261002642 MutS domain II; Region: MutS_II; pfam05188 323261002643 MutS domain III; Region: MutS_III; pfam05192 323261002644 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 323261002645 Walker A/P-loop; other site 323261002646 ATP binding site [chemical binding]; other site 323261002647 Q-loop/lid; other site 323261002648 ABC transporter signature motif; other site 323261002649 Walker B; other site 323261002650 D-loop; other site 323261002651 H-loop/switch region; other site 323261002652 Part of AAA domain; Region: AAA_19; pfam13245 323261002653 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 323261002654 AAA domain; Region: AAA_12; pfam13087 323261002655 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 323261002656 putative active site [active] 323261002657 Competence-damaged protein; Region: CinA; cl00666 323261002658 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 323261002659 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 323261002660 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 323261002661 recombinase A; Provisional; Region: recA; PRK09354 323261002662 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 323261002663 hexamer interface [polypeptide binding]; other site 323261002664 Walker A motif; other site 323261002665 ATP binding site [chemical binding]; other site 323261002666 Walker B motif; other site 323261002667 recombination regulator RecX; Reviewed; Region: recX; PRK00117 323261002668 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 323261002669 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 323261002670 motif 1; other site 323261002671 active site 323261002672 motif 2; other site 323261002673 motif 3; other site 323261002674 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 323261002675 DHHA1 domain; Region: DHHA1; pfam02272 323261002676 aspartate kinase; Reviewed; Region: PRK06635 323261002677 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 323261002678 putative nucleotide binding site [chemical binding]; other site 323261002679 putative catalytic residues [active] 323261002680 putative Mg ion binding site [ion binding]; other site 323261002681 putative aspartate binding site [chemical binding]; other site 323261002682 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 323261002683 putative allosteric regulatory site; other site 323261002684 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 323261002685 putative allosteric regulatory residue; other site 323261002686 carbon storage regulator; Provisional; Region: PRK01712 323261002687 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 323261002688 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 323261002689 active site 323261002690 catalytic site [active] 323261002691 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 323261002692 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 323261002693 dimer interface [polypeptide binding]; other site 323261002694 conserved gate region; other site 323261002695 putative PBP binding loops; other site 323261002696 ABC-ATPase subunit interface; other site 323261002697 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 323261002698 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 323261002699 dimer interface [polypeptide binding]; other site 323261002700 conserved gate region; other site 323261002701 putative PBP binding loops; other site 323261002702 ABC-ATPase subunit interface; other site 323261002703 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 323261002704 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323261002705 Walker A/P-loop; other site 323261002706 ATP binding site [chemical binding]; other site 323261002707 Q-loop/lid; other site 323261002708 ABC transporter signature motif; other site 323261002709 Walker B; other site 323261002710 D-loop; other site 323261002711 H-loop/switch region; other site 323261002712 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 323261002713 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323261002714 Walker A/P-loop; other site 323261002715 ATP binding site [chemical binding]; other site 323261002716 Q-loop/lid; other site 323261002717 ABC transporter signature motif; other site 323261002718 Walker B; other site 323261002719 D-loop; other site 323261002720 H-loop/switch region; other site 323261002721 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 323261002722 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 323261002723 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 323261002724 Cysteine-rich domain; Region: CCG; pfam02754 323261002725 Cysteine-rich domain; Region: CCG; pfam02754 323261002726 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 323261002727 diiron binding motif [ion binding]; other site 323261002728 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261002729 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 323261002730 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 323261002731 TPR repeat; Region: TPR_11; pfam13414 323261002732 binding surface 323261002733 TPR motif; other site 323261002734 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323261002735 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 323261002736 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 323261002737 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 323261002738 catalytic residues [active] 323261002739 central insert; other site 323261002740 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 323261002741 CcmE; Region: CcmE; pfam03100 323261002742 heme exporter protein CcmC; Region: ccmC; TIGR01191 323261002743 heme exporter protein CcmB; Region: ccmB; TIGR01190 323261002744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261002745 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 323261002746 Walker A/P-loop; other site 323261002747 ATP binding site [chemical binding]; other site 323261002748 Q-loop/lid; other site 323261002749 ABC transporter signature motif; other site 323261002750 Walker B; other site 323261002751 D-loop; other site 323261002752 H-loop/switch region; other site 323261002753 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 323261002754 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 323261002755 G1 box; other site 323261002756 GTP/Mg2+ binding site [chemical binding]; other site 323261002757 G2 box; other site 323261002758 Switch I region; other site 323261002759 G3 box; other site 323261002760 Switch II region; other site 323261002761 G4 box; other site 323261002762 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 323261002763 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 323261002764 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 323261002765 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323261002766 active site 323261002767 metal binding site [ion binding]; metal-binding site 323261002768 OsmC-like protein; Region: OsmC; cl00767 323261002769 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 323261002770 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 323261002771 ligand binding site [chemical binding]; other site 323261002772 flexible hinge region; other site 323261002773 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 323261002774 putative switch regulator; other site 323261002775 non-specific DNA interactions [nucleotide binding]; other site 323261002776 DNA binding site [nucleotide binding] 323261002777 sequence specific DNA binding site [nucleotide binding]; other site 323261002778 putative cAMP binding site [chemical binding]; other site 323261002779 hypothetical protein; Provisional; Region: PRK11820 323261002780 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 323261002781 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 323261002782 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261002783 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261002784 DNA-binding interface [nucleotide binding]; DNA binding site 323261002785 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261002786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261002787 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 323261002788 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323261002789 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 323261002790 Uncharacterized conserved protein [Function unknown]; Region: COG1615 323261002791 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 323261002792 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 323261002793 active site 323261002794 Zn binding site [ion binding]; other site 323261002795 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 323261002796 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 323261002797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261002798 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261002799 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261002800 electron transport complex protein RsxA; Provisional; Region: PRK05151 323261002801 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 323261002802 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 323261002803 active site 323261002804 HIGH motif; other site 323261002805 KMSKS motif; other site 323261002806 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 323261002807 anticodon binding site; other site 323261002808 tRNA binding surface [nucleotide binding]; other site 323261002809 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 323261002810 dimer interface [polypeptide binding]; other site 323261002811 putative tRNA-binding site [nucleotide binding]; other site 323261002812 antiporter inner membrane protein; Provisional; Region: PRK11670 323261002813 Domain of unknown function DUF59; Region: DUF59; pfam01883 323261002814 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 323261002815 Walker A motif; other site 323261002816 TIGR03545 family protein; Region: TIGR03545 323261002817 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 323261002818 VacJ like lipoprotein; Region: VacJ; cl01073 323261002819 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323261002820 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 323261002821 EF-hand domain pair; Region: EF_hand_5; pfam13499 323261002822 Ca2+ binding site [ion binding]; other site 323261002823 transketolase; Provisional; Region: PTZ00089 323261002824 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 323261002825 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 323261002826 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 323261002827 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 323261002828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261002829 active site 323261002830 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 323261002831 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323261002832 catalytic residue [active] 323261002833 methionine sulfoxide reductase B; Provisional; Region: PRK00222 323261002834 SelR domain; Region: SelR; pfam01641 323261002835 probable DNA repair protein; Region: TIGR03623 323261002836 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 323261002837 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 323261002838 Part of AAA domain; Region: AAA_19; pfam13245 323261002839 Family description; Region: UvrD_C_2; pfam13538 323261002840 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 323261002841 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 323261002842 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323261002843 putative catalytic residue [active] 323261002844 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 323261002845 domain interfaces; other site 323261002846 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 323261002847 active site 323261002848 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 323261002849 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 323261002850 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323261002851 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323261002852 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323261002853 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 323261002854 S-adenosylmethionine binding site [chemical binding]; other site 323261002855 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 323261002856 AAA domain; Region: AAA_30; pfam13604 323261002857 Family description; Region: UvrD_C_2; pfam13538 323261002858 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323261002859 putative catalytic site [active] 323261002860 putative metal binding site [ion binding]; other site 323261002861 putative phosphate binding site [ion binding]; other site 323261002862 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 323261002863 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 323261002864 putative NADP binding site [chemical binding]; other site 323261002865 putative substrate binding site [chemical binding]; other site 323261002866 active site 323261002867 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 323261002868 tellurite resistance protein terB; Region: terB; cd07176 323261002869 putative metal binding site [ion binding]; other site 323261002870 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 323261002871 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 323261002872 putative metal binding site [ion binding]; other site 323261002873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261002874 active site 323261002875 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 323261002876 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 323261002877 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 323261002878 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 323261002879 hypothetical protein; Provisional; Region: PRK14013 323261002880 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 323261002881 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 323261002882 putative metal binding site [ion binding]; other site 323261002883 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 323261002884 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 323261002885 active site 323261002886 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 323261002887 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 323261002888 putative substrate translocation pore; other site 323261002889 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 323261002890 Peptidase family M50; Region: Peptidase_M50; pfam02163 323261002891 active site 323261002892 putative substrate binding region [chemical binding]; other site 323261002893 FOG: CBS domain [General function prediction only]; Region: COG0517 323261002894 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 323261002895 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 323261002896 dimerization interface [polypeptide binding]; other site 323261002897 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 323261002898 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 323261002899 substrate binding site [chemical binding]; other site 323261002900 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 323261002901 tartrate dehydrogenase; Region: TTC; TIGR02089 323261002902 Sulfatase; Region: Sulfatase; cl17466 323261002903 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 323261002904 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 323261002905 FimV N-terminal domain; Region: FimV_core; TIGR03505 323261002906 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 323261002907 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 323261002908 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 323261002909 dimerization interface 3.5A [polypeptide binding]; other site 323261002910 active site 323261002911 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 323261002912 active site 323261002913 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 323261002914 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 323261002915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261002916 catalytic residue [active] 323261002917 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 323261002918 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 323261002919 substrate binding site [chemical binding]; other site 323261002920 active site 323261002921 catalytic residues [active] 323261002922 heterodimer interface [polypeptide binding]; other site 323261002923 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 323261002924 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 323261002925 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 323261002926 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323261002927 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 323261002928 Patatin-like phospholipase; Region: Patatin; pfam01734 323261002929 active site 323261002930 nucleophile elbow; other site 323261002931 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 323261002932 S-adenosylmethionine binding site [chemical binding]; other site 323261002933 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323261002934 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 323261002935 putative Zn2+ binding site [ion binding]; other site 323261002936 putative DNA binding site [nucleotide binding]; other site 323261002937 Ectoine synthase; Region: Ectoine_synth; pfam06339 323261002938 aspartate kinase; Validated; Region: PRK09181 323261002939 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 323261002940 nucleotide binding site [chemical binding]; other site 323261002941 substrate binding site [chemical binding]; other site 323261002942 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 323261002943 allosteric regulatory residue; other site 323261002944 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 323261002945 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323261002946 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323261002947 exonuclease SbcD; Region: sbcd; TIGR00619 323261002948 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 323261002949 seryl-tRNA synthetase; Provisional; Region: PRK05431 323261002950 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 323261002951 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 323261002952 dimer interface [polypeptide binding]; other site 323261002953 active site 323261002954 motif 1; other site 323261002955 motif 2; other site 323261002956 motif 3; other site 323261002957 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 323261002958 Peptidase family M50; Region: Peptidase_M50; pfam02163 323261002959 active site 323261002960 putative substrate binding region [chemical binding]; other site 323261002961 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 323261002962 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 323261002963 active site 323261002964 HIGH motif; other site 323261002965 dimer interface [polypeptide binding]; other site 323261002966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323261002967 active site 323261002968 KMSKS motif; other site 323261002969 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 323261002970 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 323261002971 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 323261002972 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 323261002973 RNA binding surface [nucleotide binding]; other site 323261002974 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 323261002975 probable active site [active] 323261002976 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 323261002977 active site lid residues [active] 323261002978 substrate binding pocket [chemical binding]; other site 323261002979 catalytic residues [active] 323261002980 substrate-Mg2+ binding site; other site 323261002981 aspartate-rich region 1; other site 323261002982 aspartate-rich region 2; other site 323261002983 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 323261002984 dimer interface [polypeptide binding]; other site 323261002985 [2Fe-2S] cluster binding site [ion binding]; other site 323261002986 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 323261002987 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 323261002988 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 323261002989 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 323261002990 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 323261002991 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 323261002992 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 323261002993 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 323261002994 purine monophosphate binding site [chemical binding]; other site 323261002995 dimer interface [polypeptide binding]; other site 323261002996 putative catalytic residues [active] 323261002997 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 323261002998 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 323261002999 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323261003000 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 323261003001 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 323261003002 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323261003003 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 323261003004 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 323261003005 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 323261003006 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 323261003007 carboxyltransferase (CT) interaction site; other site 323261003008 biotinylation site [posttranslational modification]; other site 323261003009 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 323261003010 Dehydroquinase class II; Region: DHquinase_II; pfam01220 323261003011 trimer interface [polypeptide binding]; other site 323261003012 active site 323261003013 dimer interface [polypeptide binding]; other site 323261003014 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 323261003015 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 323261003016 catalytic residues [active] 323261003017 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 323261003018 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 323261003019 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 323261003020 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 323261003021 DsbD alpha interface [polypeptide binding]; other site 323261003022 catalytic residues [active] 323261003023 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 323261003024 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 323261003025 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 323261003026 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 323261003027 dimer interface [polypeptide binding]; other site 323261003028 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 323261003029 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261003030 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261003031 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 323261003032 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261003033 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323261003034 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 323261003035 ligand binding site [chemical binding]; other site 323261003036 flexible hinge region; other site 323261003037 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 323261003038 putative switch regulator; other site 323261003039 non-specific DNA interactions [nucleotide binding]; other site 323261003040 DNA binding site [nucleotide binding] 323261003041 sequence specific DNA binding site [nucleotide binding]; other site 323261003042 putative cAMP binding site [chemical binding]; other site 323261003043 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 323261003044 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 323261003045 cyclase homology domain; Region: CHD; cd07302 323261003046 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 323261003047 nucleotidyl binding site; other site 323261003048 metal binding site [ion binding]; metal-binding site 323261003049 dimer interface [polypeptide binding]; other site 323261003050 FecR protein; Region: FecR; pfam04773 323261003051 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 323261003052 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323261003053 TPR motif; other site 323261003054 binding surface 323261003055 TPR repeat; Region: TPR_11; pfam13414 323261003056 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 323261003057 TPR motif; other site 323261003058 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323261003059 binding surface 323261003060 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 323261003061 binding surface 323261003062 TPR motif; other site 323261003063 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323261003064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 323261003065 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 323261003066 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323261003067 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 323261003068 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 323261003069 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261003070 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 323261003071 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 323261003072 active site 323261003073 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 323261003074 putative NAD(P) binding site [chemical binding]; other site 323261003075 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 323261003076 RibD C-terminal domain; Region: RibD_C; cl17279 323261003077 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 323261003078 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 323261003079 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 323261003080 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 323261003081 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 323261003082 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 323261003083 active site 323261003084 Fe-S cluster binding site [ion binding]; other site 323261003085 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 323261003086 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323261003087 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 323261003088 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 323261003089 M42 glutamyl aminopeptidase; Region: Peptidase_M42; pfam05343 323261003090 Transcriptional regulators [Transcription]; Region: MarR; COG1846 323261003091 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 323261003092 Protoglobin; Region: Protoglobin; pfam11563 323261003093 nitrosocyanin; Region: nitroso_cyanin; TIGR03096 323261003094 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 323261003095 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323261003096 HIGH motif; other site 323261003097 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323261003098 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323261003099 active site 323261003100 KMSKS motif; other site 323261003101 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 323261003102 tRNA binding surface [nucleotide binding]; other site 323261003103 anticodon binding site; other site 323261003104 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 323261003105 Rdx family; Region: Rdx; cl01407 323261003106 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261003107 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261003108 Probable transposase; Region: OrfB_IS605; pfam01385 323261003109 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261003110 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 323261003111 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 323261003112 Protein of unknown function (DUF497); Region: DUF497; pfam04365 323261003113 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 323261003114 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 323261003115 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 323261003116 Protein of unknown function (DUF497); Region: DUF497; pfam04365 323261003117 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323261003118 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 323261003119 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 323261003120 HicB family; Region: HicB; pfam05534 323261003121 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 323261003122 Protein of unknown function (DUF454); Region: DUF454; pfam04304 323261003123 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 323261003124 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 323261003125 putative active site [active] 323261003126 catalytic site [active] 323261003127 putative metal binding site [ion binding]; other site 323261003128 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 323261003129 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003130 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323261003131 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003132 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 323261003133 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323261003134 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003135 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 323261003136 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 323261003137 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 323261003138 4Fe-4S binding domain; Region: Fer4; pfam00037 323261003139 4Fe-4S binding domain; Region: Fer4; pfam00037 323261003140 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 323261003141 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 323261003142 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 323261003143 catalytic loop [active] 323261003144 iron binding site [ion binding]; other site 323261003145 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 323261003146 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 323261003147 [4Fe-4S] binding site [ion binding]; other site 323261003148 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 323261003149 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 323261003150 SLBB domain; Region: SLBB; pfam10531 323261003151 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 323261003152 NADH dehydrogenase subunit E; Validated; Region: PRK07539 323261003153 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 323261003154 putative dimer interface [polypeptide binding]; other site 323261003155 [2Fe-2S] cluster binding site [ion binding]; other site 323261003156 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 323261003157 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 323261003158 NADH dehydrogenase subunit D; Validated; Region: PRK06075 323261003159 NADH dehydrogenase subunit B; Validated; Region: PRK06411 323261003160 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 323261003161 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 323261003162 putative active site [active] 323261003163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261003164 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261003165 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261003166 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323261003167 PRC-barrel domain; Region: PRC; pfam05239 323261003168 PRC-barrel domain; Region: PRC; pfam05239 323261003169 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 323261003170 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 323261003171 active site 323261003172 zinc binding site [ion binding]; other site 323261003173 inorganic pyrophosphatase; Provisional; Region: PRK00642 323261003174 dimer interface [polypeptide binding]; other site 323261003175 substrate binding site [chemical binding]; other site 323261003176 metal binding sites [ion binding]; metal-binding site 323261003177 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 323261003178 HSP70 interaction site [polypeptide binding]; other site 323261003179 aspartate aminotransferase; Provisional; Region: PRK05764 323261003180 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 323261003181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261003182 homodimer interface [polypeptide binding]; other site 323261003183 catalytic residue [active] 323261003184 excinuclease ABC subunit B; Provisional; Region: PRK05298 323261003185 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 323261003186 ATP binding site [chemical binding]; other site 323261003187 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 323261003188 nucleotide binding region [chemical binding]; other site 323261003189 ATP-binding site [chemical binding]; other site 323261003190 Ultra-violet resistance protein B; Region: UvrB; pfam12344 323261003191 UvrB/uvrC motif; Region: UVR; pfam02151 323261003192 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 323261003193 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 323261003194 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 323261003195 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 323261003196 active site 323261003197 dimer interface [polypeptide binding]; other site 323261003198 motif 1; other site 323261003199 motif 2; other site 323261003200 motif 3; other site 323261003201 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 323261003202 anticodon binding site; other site 323261003203 translation initiation factor IF-3; Region: infC; TIGR00168 323261003204 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 323261003205 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 323261003206 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 323261003207 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 323261003208 23S rRNA binding site [nucleotide binding]; other site 323261003209 L21 binding site [polypeptide binding]; other site 323261003210 L13 binding site [polypeptide binding]; other site 323261003211 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 323261003212 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 323261003213 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 323261003214 dimer interface [polypeptide binding]; other site 323261003215 motif 1; other site 323261003216 active site 323261003217 motif 2; other site 323261003218 motif 3; other site 323261003219 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 323261003220 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 323261003221 putative tRNA-binding site [nucleotide binding]; other site 323261003222 B3/4 domain; Region: B3_4; pfam03483 323261003223 tRNA synthetase B5 domain; Region: B5; smart00874 323261003224 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 323261003225 dimer interface [polypeptide binding]; other site 323261003226 motif 1; other site 323261003227 motif 3; other site 323261003228 motif 2; other site 323261003229 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 323261003230 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 323261003231 IHF dimer interface [polypeptide binding]; other site 323261003232 IHF - DNA interface [nucleotide binding]; other site 323261003233 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 323261003234 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 323261003235 DNA binding residues [nucleotide binding] 323261003236 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 323261003237 PBP superfamily domain; Region: PBP_like_2; pfam12849 323261003238 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 323261003239 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 323261003240 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 323261003241 homodimer interface [polypeptide binding]; other site 323261003242 substrate-cofactor binding pocket; other site 323261003243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261003244 catalytic residue [active] 323261003245 Uncharacterized conserved protein [Function unknown]; Region: COG0432 323261003246 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 323261003247 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 323261003248 active site 323261003249 catalytic triad [active] 323261003250 oxyanion hole [active] 323261003251 switch loop; other site 323261003252 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 323261003253 catalytic motif [active] 323261003254 Catalytic residue [active] 323261003255 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 323261003256 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323261003257 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 323261003258 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 323261003259 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 323261003260 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261003261 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 323261003262 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 323261003263 Subunit 21 of Mediator complex; Region: Med21; pfam11221 323261003264 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261003265 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 323261003266 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261003267 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 323261003268 Protein of unknown function DUF45; Region: DUF45; pfam01863 323261003269 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 323261003270 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 323261003271 heme binding pocket [chemical binding]; other site 323261003272 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 323261003273 domain interactions; other site 323261003274 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 323261003275 nucleoside/Zn binding site; other site 323261003276 dimer interface [polypeptide binding]; other site 323261003277 catalytic motif [active] 323261003278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323261003279 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 323261003280 ATP binding site [chemical binding]; other site 323261003281 Mg2+ binding site [ion binding]; other site 323261003282 G-X-G motif; other site 323261003283 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 323261003284 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 323261003285 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323261003286 minor groove reading motif; other site 323261003287 helix-hairpin-helix signature motif; other site 323261003288 substrate binding pocket [chemical binding]; other site 323261003289 active site 323261003290 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 323261003291 electron transport complex RsxE subunit; Provisional; Region: PRK12405 323261003292 FMN-binding domain; Region: FMN_bind; cl01081 323261003293 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 323261003294 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 323261003295 SLBB domain; Region: SLBB; pfam10531 323261003296 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 323261003297 ferredoxin; Provisional; Region: PRK08764 323261003298 Putative Fe-S cluster; Region: FeS; pfam04060 323261003299 4Fe-4S binding domain; Region: Fer4; pfam00037 323261003300 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 323261003301 transmembrane helices; other site 323261003302 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 323261003303 TrkA-C domain; Region: TrkA_C; pfam02080 323261003304 TrkA-C domain; Region: TrkA_C; pfam02080 323261003305 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 323261003306 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 323261003307 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 323261003308 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 323261003309 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323261003310 trimer interface [polypeptide binding]; other site 323261003311 active site 323261003312 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 323261003313 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 323261003314 active site 323261003315 substrate binding site [chemical binding]; other site 323261003316 cosubstrate binding site; other site 323261003317 catalytic site [active] 323261003318 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 323261003319 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 323261003320 dimerization interface [polypeptide binding]; other site 323261003321 putative ATP binding site [chemical binding]; other site 323261003322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261003323 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261003324 Probable transposase; Region: OrfB_IS605; pfam01385 323261003325 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261003326 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 323261003327 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 323261003328 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 323261003329 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 323261003330 Walker A motif; other site 323261003331 ATP binding site [chemical binding]; other site 323261003332 Walker B motif; other site 323261003333 arginine finger; other site 323261003334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 323261003335 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 323261003336 DHH family; Region: DHH; pfam01368 323261003337 DHHA1 domain; Region: DHHA1; pfam02272 323261003338 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 323261003339 ATP-NAD kinase; Region: NAD_kinase; pfam01513 323261003340 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 323261003341 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 323261003342 Walker A/P-loop; other site 323261003343 ATP binding site [chemical binding]; other site 323261003344 Q-loop/lid; other site 323261003345 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 323261003346 ABC transporter signature motif; other site 323261003347 Walker B; other site 323261003348 D-loop; other site 323261003349 H-loop/switch region; other site 323261003350 MarC family integral membrane protein; Region: MarC; cl00919 323261003351 CAAX protease self-immunity; Region: Abi; pfam02517 323261003352 ferric uptake regulator; Provisional; Region: fur; PRK09462 323261003353 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323261003354 metal binding site 2 [ion binding]; metal-binding site 323261003355 putative DNA binding helix; other site 323261003356 metal binding site 1 [ion binding]; metal-binding site 323261003357 dimer interface [polypeptide binding]; other site 323261003358 structural Zn2+ binding site [ion binding]; other site 323261003359 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 323261003360 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 323261003361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 323261003362 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 323261003363 putative coenzyme Q binding site [chemical binding]; other site 323261003364 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 323261003365 SmpB-tmRNA interface; other site 323261003366 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 323261003367 Probable transposase; Region: OrfB_IS605; pfam01385 323261003368 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261003369 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 323261003370 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 323261003371 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261003372 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261003373 Protein of unknown function DUF86; Region: DUF86; cl01031 323261003374 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 323261003375 active site 323261003376 NTP binding site [chemical binding]; other site 323261003377 metal binding triad [ion binding]; metal-binding site 323261003378 antibiotic binding site [chemical binding]; other site 323261003379 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261003380 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 323261003381 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261003382 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 323261003383 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 323261003384 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 323261003385 ATP binding site [chemical binding]; other site 323261003386 putative Mg++ binding site [ion binding]; other site 323261003387 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 323261003388 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 323261003389 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 323261003390 substrate binding pocket [chemical binding]; other site 323261003391 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 323261003392 B12 binding site [chemical binding]; other site 323261003393 cobalt ligand [ion binding]; other site 323261003394 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 323261003395 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323261003396 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 323261003397 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 323261003398 putative active site [active] 323261003399 PhoH-like protein; Region: PhoH; pfam02562 323261003400 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 323261003401 nucleoside/Zn binding site; other site 323261003402 dimer interface [polypeptide binding]; other site 323261003403 catalytic motif [active] 323261003404 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 323261003405 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 323261003406 catalytic site [active] 323261003407 G-X2-G-X-G-K; other site 323261003408 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 323261003409 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 323261003410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323261003411 Zn2+ binding site [ion binding]; other site 323261003412 Mg2+ binding site [ion binding]; other site 323261003413 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323261003414 synthetase active site [active] 323261003415 NTP binding site [chemical binding]; other site 323261003416 metal binding site [ion binding]; metal-binding site 323261003417 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 323261003418 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323261003419 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 323261003420 homotrimer interaction site [polypeptide binding]; other site 323261003421 putative active site [active] 323261003422 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 323261003423 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 323261003424 ssDNA binding site; other site 323261003425 generic binding surface II; other site 323261003426 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 323261003427 ATP binding site [chemical binding]; other site 323261003428 putative Mg++ binding site [ion binding]; other site 323261003429 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 323261003430 nucleotide binding region [chemical binding]; other site 323261003431 ATP-binding site [chemical binding]; other site 323261003432 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 323261003433 UbiA prenyltransferase family; Region: UbiA; pfam01040 323261003434 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323261003435 Staphylococcal nuclease homologues; Region: SNc; smart00318 323261003436 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323261003437 Catalytic site; other site 323261003438 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 323261003439 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 323261003440 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323261003441 HEAT repeats; Region: HEAT_2; pfam13646 323261003442 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 323261003443 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323261003444 catalytic residues [active] 323261003445 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 323261003446 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323261003447 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 323261003448 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 323261003449 ApbE family; Region: ApbE; pfam02424 323261003450 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 323261003451 S-adenosylmethionine binding site [chemical binding]; other site 323261003452 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 323261003453 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 323261003454 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 323261003455 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 323261003456 Walker A/P-loop; other site 323261003457 ATP binding site [chemical binding]; other site 323261003458 Q-loop/lid; other site 323261003459 ABC transporter signature motif; other site 323261003460 Walker B; other site 323261003461 D-loop; other site 323261003462 H-loop/switch region; other site 323261003463 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 323261003464 putative carbohydrate binding site [chemical binding]; other site 323261003465 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 323261003466 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 323261003467 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 323261003468 Afadin- and alpha -actinin-Binding; Region: ADIP; pfam11559 323261003469 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323261003470 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 323261003471 metal-binding site 323261003472 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323261003473 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 323261003474 S-adenosylmethionine binding site [chemical binding]; other site 323261003475 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323261003476 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 323261003477 metal-binding site 323261003478 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 323261003479 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 323261003480 NADP binding site [chemical binding]; other site 323261003481 active site 323261003482 putative substrate binding site [chemical binding]; other site 323261003483 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 323261003484 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323261003485 active site 323261003486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261003487 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 323261003488 putative ADP-binding pocket [chemical binding]; other site 323261003489 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 323261003490 heme-binding residues [chemical binding]; other site 323261003491 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 323261003492 molybdopterin cofactor binding site; other site 323261003493 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 323261003494 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 323261003495 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 323261003496 4Fe-4S binding domain; Region: Fer4; cl02805 323261003497 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 323261003498 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 323261003499 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 323261003500 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323261003501 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 323261003502 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323261003503 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 323261003504 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 323261003505 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 323261003506 Subunit I/III interface [polypeptide binding]; other site 323261003507 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 323261003508 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 323261003509 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323261003510 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 323261003511 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003512 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323261003513 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003514 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323261003515 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003516 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323261003517 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323261003518 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323261003519 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323261003520 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003521 Protein of unknown function (DUF938); Region: DUF938; pfam06080 323261003522 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 323261003523 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 323261003524 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 323261003525 dimer interface [polypeptide binding]; other site 323261003526 TPP-binding site [chemical binding]; other site 323261003527 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 323261003528 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 323261003529 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 323261003530 E3 interaction surface; other site 323261003531 lipoyl attachment site [posttranslational modification]; other site 323261003532 e3 binding domain; Region: E3_binding; pfam02817 323261003533 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323261003534 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 323261003535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261003536 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261003537 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 323261003538 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323261003539 active site 323261003540 universal stress protein UspE; Provisional; Region: PRK11175 323261003541 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261003542 Ligand Binding Site [chemical binding]; other site 323261003543 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261003544 Ligand Binding Site [chemical binding]; other site 323261003545 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323261003546 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323261003547 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323261003548 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 323261003549 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323261003550 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 323261003551 putative active site [active] 323261003552 putative metal binding site [ion binding]; other site 323261003553 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323261003554 active site 323261003555 metal binding site [ion binding]; metal-binding site 323261003556 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323261003557 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323261003558 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 323261003559 S-adenosylmethionine binding site [chemical binding]; other site 323261003560 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 323261003561 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261003562 ABC transporter; Region: ABC_tran_2; pfam12848 323261003563 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261003564 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 323261003565 cytochrome c-550; Provisional; Region: psbV; cl17239 323261003566 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 323261003567 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 323261003568 S-adenosylmethionine binding site [chemical binding]; other site 323261003569 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 323261003570 dimer interface [polypeptide binding]; other site 323261003571 substrate binding site [chemical binding]; other site 323261003572 ATP binding site [chemical binding]; other site 323261003573 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 323261003574 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323261003575 PYR/PP interface [polypeptide binding]; other site 323261003576 dimer interface [polypeptide binding]; other site 323261003577 TPP binding site [chemical binding]; other site 323261003578 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323261003579 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 323261003580 TPP-binding site [chemical binding]; other site 323261003581 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 323261003582 active site 323261003583 oxalacetate binding site [chemical binding]; other site 323261003584 citrylCoA binding site [chemical binding]; other site 323261003585 coenzyme A binding site [chemical binding]; other site 323261003586 catalytic triad [active] 323261003587 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 323261003588 oxalacetate binding site [chemical binding]; other site 323261003589 citrylCoA binding site [chemical binding]; other site 323261003590 coenzyme A binding site [chemical binding]; other site 323261003591 catalytic triad [active] 323261003592 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 323261003593 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323261003594 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261003595 N-terminal plug; other site 323261003596 ligand-binding site [chemical binding]; other site 323261003597 Transcriptional regulators [Transcription]; Region: PurR; COG1609 323261003598 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 323261003599 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 323261003600 dimer interface [polypeptide binding]; other site 323261003601 phosphorylation site [posttranslational modification] 323261003602 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 323261003603 ATP binding site [chemical binding]; other site 323261003604 Mg2+ binding site [ion binding]; other site 323261003605 G-X-G motif; other site 323261003606 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323261003607 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 323261003608 active site 323261003609 phosphorylation site [posttranslational modification] 323261003610 intermolecular recognition site; other site 323261003611 dimerization interface [polypeptide binding]; other site 323261003612 Response regulator receiver domain; Region: Response_reg; pfam00072 323261003613 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 323261003614 active site 323261003615 phosphorylation site [posttranslational modification] 323261003616 intermolecular recognition site; other site 323261003617 dimerization interface [polypeptide binding]; other site 323261003618 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 323261003619 putative binding surface; other site 323261003620 active site 323261003621 Response regulator receiver domain; Region: Response_reg; pfam00072 323261003622 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 323261003623 active site 323261003624 phosphorylation site [posttranslational modification] 323261003625 intermolecular recognition site; other site 323261003626 dimerization interface [polypeptide binding]; other site 323261003627 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261003628 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261003629 metal binding site [ion binding]; metal-binding site 323261003630 active site 323261003631 I-site; other site 323261003632 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 323261003633 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323261003634 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 323261003635 FtsX-like permease family; Region: FtsX; pfam02687 323261003636 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323261003637 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323261003638 Walker A/P-loop; other site 323261003639 ATP binding site [chemical binding]; other site 323261003640 Q-loop/lid; other site 323261003641 ABC transporter signature motif; other site 323261003642 Walker B; other site 323261003643 D-loop; other site 323261003644 H-loop/switch region; other site 323261003645 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323261003646 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261003647 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261003648 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261003649 YtkA-like; Region: YtkA; pfam13115 323261003650 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323261003651 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 323261003652 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003653 hydrogenase 4 subunit F; Validated; Region: PRK06458 323261003654 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003655 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 323261003656 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261003657 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 323261003658 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 323261003659 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 323261003660 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 323261003661 universal stress protein UspE; Provisional; Region: PRK11175 323261003662 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261003663 Ligand Binding Site [chemical binding]; other site 323261003664 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261003665 Ligand Binding Site [chemical binding]; other site 323261003666 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261003667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261003668 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261003669 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261003670 DNA-binding interface [nucleotide binding]; DNA binding site 323261003671 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 323261003672 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 323261003673 non-specific DNA binding site [nucleotide binding]; other site 323261003674 salt bridge; other site 323261003675 sequence-specific DNA binding site [nucleotide binding]; other site 323261003676 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 323261003677 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 323261003678 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323261003679 active site 323261003680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 323261003681 SEC-C motif; Region: SEC-C; pfam02810 323261003682 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 323261003683 HD domain; Region: HD_4; pfam13328 323261003684 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323261003685 synthetase active site [active] 323261003686 NTP binding site [chemical binding]; other site 323261003687 metal binding site [ion binding]; metal-binding site 323261003688 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 323261003689 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323261003690 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 323261003691 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 323261003692 ATP binding site [chemical binding]; other site 323261003693 putative Mg++ binding site [ion binding]; other site 323261003694 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 323261003695 nucleotide binding region [chemical binding]; other site 323261003696 ATP-binding site [chemical binding]; other site 323261003697 Helicase associated domain (HA2); Region: HA2; pfam04408 323261003698 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 323261003699 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 323261003700 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 323261003701 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 323261003702 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 323261003703 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 323261003704 RNA binding site [nucleotide binding]; other site 323261003705 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 323261003706 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 323261003707 Flavodoxin; Region: Flavodoxin_1; pfam00258 323261003708 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 323261003709 FAD binding pocket [chemical binding]; other site 323261003710 FAD binding motif [chemical binding]; other site 323261003711 catalytic residues [active] 323261003712 NAD binding pocket [chemical binding]; other site 323261003713 phosphate binding motif [ion binding]; other site 323261003714 beta-alpha-beta structure motif; other site 323261003715 sulfite reductase subunit beta; Provisional; Region: PRK13504 323261003716 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323261003717 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323261003718 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323261003719 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 323261003720 dimer interface [polypeptide binding]; other site 323261003721 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323261003722 catalytic triad [active] 323261003723 Peptidase family M48; Region: Peptidase_M48; pfam01435 323261003724 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261003725 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261003726 Probable transposase; Region: OrfB_IS605; pfam01385 323261003727 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261003728 aminopeptidase N; Provisional; Region: pepN; PRK14015 323261003729 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 323261003730 active site 323261003731 Zn binding site [ion binding]; other site 323261003732 2-aminoethylphosphonate aminotransferase; Region: PhnW-AepZ; TIGR03301 323261003733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261003734 catalytic residue [active] 323261003735 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323261003736 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 323261003737 PYR/PP interface [polypeptide binding]; other site 323261003738 dimer interface [polypeptide binding]; other site 323261003739 TPP binding site [chemical binding]; other site 323261003740 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 323261003741 TPP-binding site; other site 323261003742 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 323261003743 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 323261003744 tetramer interface [polypeptide binding]; other site 323261003745 active site 323261003746 Mg2+/Mn2+ binding site [ion binding]; other site 323261003747 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 323261003748 active site 323261003749 metal-binding site 323261003750 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 323261003751 active site 323261003752 metal-binding site 323261003753 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 323261003754 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 323261003755 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 323261003756 Active site cavity [active] 323261003757 catalytic acid [active] 323261003758 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 323261003759 active site lid residues [active] 323261003760 substrate binding pocket [chemical binding]; other site 323261003761 catalytic residues [active] 323261003762 substrate-Mg2+ binding site; other site 323261003763 aspartate-rich region 1; other site 323261003764 aspartate-rich region 2; other site 323261003765 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 323261003766 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323261003767 catalytic triad [active] 323261003768 dimer interface [polypeptide binding]; other site 323261003769 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 323261003770 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 323261003771 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 323261003772 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 323261003773 circadian clock protein KaiC; Reviewed; Region: PRK09302 323261003774 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 323261003775 Walker A motif; other site 323261003776 ATP binding site [chemical binding]; other site 323261003777 Walker B motif; other site 323261003778 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 323261003779 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 323261003780 Walker A motif; other site 323261003781 Walker A motif; other site 323261003782 ATP binding site [chemical binding]; other site 323261003783 Walker B motif; other site 323261003784 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 323261003785 phosphorylation site [posttranslational modification] 323261003786 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 323261003787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261003788 metal binding site [ion binding]; metal-binding site 323261003789 active site 323261003790 I-site; other site 323261003791 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 323261003792 Winged helix-turn helix; Region: HTH_29; pfam13551 323261003793 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323261003794 DNA-binding interface [nucleotide binding]; DNA binding site 323261003795 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 323261003796 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261003797 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 323261003798 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323261003799 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261003800 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 323261003801 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 323261003802 active site clefts [active] 323261003803 zinc binding site [ion binding]; other site 323261003804 dimer interface [polypeptide binding]; other site 323261003805 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 323261003806 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 323261003807 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261003808 Predicted membrane protein [Function unknown]; Region: COG2119 323261003809 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 323261003810 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 323261003811 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 323261003812 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 323261003813 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 323261003814 active site 323261003815 metal binding site [ion binding]; metal-binding site 323261003816 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 323261003817 Glucokinase; Region: Glucokinase; pfam02685 323261003818 glucokinase, proteobacterial type; Region: glk; TIGR00749 323261003819 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 323261003820 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 323261003821 putative active site [active] 323261003822 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 323261003823 Predicted membrane protein [Function unknown]; Region: COG3212 323261003824 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323261003825 Predicted membrane protein [Function unknown]; Region: COG3212 323261003826 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323261003827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323261003828 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 323261003829 active site 323261003830 phosphorylation site [posttranslational modification] 323261003831 intermolecular recognition site; other site 323261003832 dimerization interface [polypeptide binding]; other site 323261003833 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 323261003834 DNA binding site [nucleotide binding] 323261003835 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 323261003836 ATP binding site [chemical binding]; other site 323261003837 Mg2+ binding site [ion binding]; other site 323261003838 G-X-G motif; other site 323261003839 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 323261003840 Protein of unknown function, DUF399; Region: DUF399; pfam04187 323261003841 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 323261003842 hypothetical protein; Provisional; Region: PRK05170 323261003843 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 323261003844 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 323261003845 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 323261003846 Walker A motif; other site 323261003847 ATP binding site [chemical binding]; other site 323261003848 Walker B motif; other site 323261003849 Predicted permeases [General function prediction only]; Region: COG0679 323261003850 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 323261003851 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 323261003852 putative MPT binding site; other site 323261003853 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 323261003854 DEAD/DEAH box helicase; Region: DEAD; pfam00270 323261003855 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 323261003856 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 323261003857 Sodium Bile acid symporter family; Region: SBF; pfam01758 323261003858 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261003859 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261003860 Probable transposase; Region: OrfB_IS605; pfam01385 323261003861 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261003862 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 323261003863 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 323261003864 DNA methylase; Region: N6_N4_Mtase; cl17433 323261003865 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 323261003866 Protein of unknown function (DUF989); Region: DUF989; pfam06181 323261003867 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 323261003868 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 323261003869 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 323261003870 Ycf46; Provisional; Region: ycf46; CHL00195 323261003871 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 323261003872 Walker A motif; other site 323261003873 ATP binding site [chemical binding]; other site 323261003874 Walker B motif; other site 323261003875 arginine finger; other site 323261003876 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 323261003877 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323261003878 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 323261003879 catalytic residues [active] 323261003880 isocitrate dehydrogenase; Validated; Region: PRK07362 323261003881 isocitrate dehydrogenase; Reviewed; Region: PRK07006 323261003882 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323261003883 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 323261003884 S-adenosylmethionine binding site [chemical binding]; other site 323261003885 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323261003886 putative catalytic site [active] 323261003887 putative metal binding site [ion binding]; other site 323261003888 putative phosphate binding site [ion binding]; other site 323261003889 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261003890 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323261003891 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 323261003892 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 323261003893 HSP70 interaction site [polypeptide binding]; other site 323261003894 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323261003895 substrate binding site [polypeptide binding]; other site 323261003896 dimer interface [polypeptide binding]; other site 323261003897 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 323261003898 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 323261003899 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 323261003900 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 323261003901 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323261003902 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 323261003903 Walker A motif; other site 323261003904 ATP binding site [chemical binding]; other site 323261003905 Walker B motif; other site 323261003906 arginine finger; other site 323261003907 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323261003908 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323261003909 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323261003910 putative dimer interface [polypeptide binding]; other site 323261003911 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 323261003912 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 323261003913 putative active site [active] 323261003914 putative dimer interface [polypeptide binding]; other site 323261003915 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 323261003916 homodecamer interface [polypeptide binding]; other site 323261003917 GTP cyclohydrolase I; Provisional; Region: PLN03044 323261003918 active site 323261003919 putative catalytic site residues [active] 323261003920 zinc binding site [ion binding]; other site 323261003921 GTP-CH-I/GFRP interaction surface; other site 323261003922 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 323261003923 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 323261003924 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 323261003925 active site 323261003926 nucleophile elbow; other site 323261003927 S-formylglutathione hydrolase; Region: PLN02442 323261003928 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 323261003929 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 323261003930 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 323261003931 substrate binding site [chemical binding]; other site 323261003932 catalytic Zn binding site [ion binding]; other site 323261003933 NAD binding site [chemical binding]; other site 323261003934 structural Zn binding site [ion binding]; other site 323261003935 dimer interface [polypeptide binding]; other site 323261003936 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 323261003937 catalytic core [active] 323261003938 Y-family of DNA polymerases; Region: PolY; cl12025 323261003939 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 323261003940 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 323261003941 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323261003942 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 323261003943 protein binding site [polypeptide binding]; other site 323261003944 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261003945 PAS domain; Region: PAS; smart00091 323261003946 PAS fold; Region: PAS_4; pfam08448 323261003947 putative active site [active] 323261003948 heme pocket [chemical binding]; other site 323261003949 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323261003950 GAF domain; Region: GAF; pfam01590 323261003951 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 323261003952 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323261003953 putative active site [active] 323261003954 heme pocket [chemical binding]; other site 323261003955 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 323261003956 putative active site [active] 323261003957 heme pocket [chemical binding]; other site 323261003958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323261003959 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 323261003960 dimer interface [polypeptide binding]; other site 323261003961 phosphorylation site [posttranslational modification] 323261003962 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 323261003963 ATP binding site [chemical binding]; other site 323261003964 Mg2+ binding site [ion binding]; other site 323261003965 G-X-G motif; other site 323261003966 Response regulator receiver domain; Region: Response_reg; pfam00072 323261003967 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 323261003968 active site 323261003969 phosphorylation site [posttranslational modification] 323261003970 intermolecular recognition site; other site 323261003971 dimerization interface [polypeptide binding]; other site 323261003972 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 323261003973 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323261003974 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 323261003975 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323261003976 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323261003977 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 323261003978 motif II; other site 323261003979 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323261003980 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261003981 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261003982 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323261003983 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261003984 Ligand Binding Site [chemical binding]; other site 323261003985 NnrS protein; Region: NnrS; pfam05940 323261003986 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 323261003987 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 323261003988 heme binding site [chemical binding]; other site 323261003989 ferroxidase pore; other site 323261003990 ferroxidase diiron center [ion binding]; other site 323261003991 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 323261003992 Adenylation domain of RNA circularization proteins; Region: Adenylation_RNA_ligase; cd07894 323261003993 active site 323261003994 dimer interface [polypeptide binding]; other site 323261003995 hypothetical protein; Provisional; Region: PRK04358 323261003996 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 323261003997 active site 323261003998 Ap4A binding cleft/pocket [chemical binding]; other site 323261003999 P4 phosphate binding site; other site 323261004000 nudix motif; other site 323261004001 putative P2/P3 phosphate binding site [ion binding]; other site 323261004002 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 323261004003 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 323261004004 oligomer interface [polypeptide binding]; other site 323261004005 metal binding site [ion binding]; metal-binding site 323261004006 metal binding site [ion binding]; metal-binding site 323261004007 Cl binding site [ion binding]; other site 323261004008 aspartate ring; other site 323261004009 basic sphincter; other site 323261004010 putative hydrophobic gate; other site 323261004011 periplasmic entrance; other site 323261004012 Protein of unknown function, DUF599; Region: DUF599; cl01575 323261004013 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 323261004014 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323261004015 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261004016 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323261004017 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 323261004018 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323261004019 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323261004020 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261004021 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 323261004022 putative hydrophobic ligand binding site [chemical binding]; other site 323261004023 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323261004024 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261004025 N-terminal plug; other site 323261004026 ligand-binding site [chemical binding]; other site 323261004027 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 323261004028 amphi-Trp domain; Region: amphi-Trp; TIGR04354 323261004029 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 323261004030 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 323261004031 E3 interaction surface; other site 323261004032 lipoyl attachment site [posttranslational modification]; other site 323261004033 e3 binding domain; Region: E3_binding; pfam02817 323261004034 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323261004035 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 323261004036 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 323261004037 alpha subunit interface [polypeptide binding]; other site 323261004038 TPP binding site [chemical binding]; other site 323261004039 heterodimer interface [polypeptide binding]; other site 323261004040 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323261004041 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 323261004042 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 323261004043 TPP-binding site [chemical binding]; other site 323261004044 tetramer interface [polypeptide binding]; other site 323261004045 heterodimer interface [polypeptide binding]; other site 323261004046 phosphorylation loop region [posttranslational modification] 323261004047 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323261004048 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 323261004049 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 323261004050 NAD binding site [chemical binding]; other site 323261004051 Phe binding site; other site 323261004052 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 323261004053 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 323261004054 dimer interface [polypeptide binding]; other site 323261004055 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 323261004056 active site 323261004057 Fe binding site [ion binding]; other site 323261004058 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 323261004059 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 323261004060 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 323261004061 maleylacetoacetate isomerase; Region: maiA; TIGR01262 323261004062 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323261004063 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 323261004064 dimer interface [polypeptide binding]; other site 323261004065 N-terminal domain interface [polypeptide binding]; other site 323261004066 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 323261004067 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 323261004068 CoenzymeA binding site [chemical binding]; other site 323261004069 subunit interaction site [polypeptide binding]; other site 323261004070 PHB binding site; other site 323261004071 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 323261004072 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 323261004073 phosphoenolpyruvate synthase; Validated; Region: PRK06464 323261004074 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 323261004075 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323261004076 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323261004077 Predicted membrane protein [Function unknown]; Region: COG4244 323261004078 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323261004079 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 323261004080 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261004081 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 323261004082 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 323261004083 putative lipid kinase; Reviewed; Region: PRK00861 323261004084 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 323261004085 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; cl17904 323261004086 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 323261004087 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 323261004088 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 323261004089 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 323261004090 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 323261004091 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261004092 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261004093 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261004094 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323261004095 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 323261004096 Zn binding site [ion binding]; other site 323261004097 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 323261004098 Peptidase family M28; Region: Peptidase_M28; pfam04389 323261004099 metal binding site [ion binding]; metal-binding site 323261004100 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 323261004101 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 323261004102 putative active site [active] 323261004103 Staphylococcal nuclease homologues; Region: SNc; smart00318 323261004104 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 323261004105 Catalytic site; other site 323261004106 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 323261004107 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261004108 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323261004109 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 323261004110 ATP binding site [chemical binding]; other site 323261004111 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323261004112 putative Mg++ binding site [ion binding]; other site 323261004113 T5orf172 domain; Region: T5orf172; pfam10544 323261004114 Pirin-related protein [General function prediction only]; Region: COG1741 323261004115 Pirin; Region: Pirin; pfam02678 323261004116 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 323261004117 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 323261004118 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 323261004119 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 323261004120 putative dimer interface [polypeptide binding]; other site 323261004121 N-terminal domain interface [polypeptide binding]; other site 323261004122 putative substrate binding pocket (H-site) [chemical binding]; other site 323261004123 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 323261004124 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 323261004125 Cupin domain; Region: Cupin_2; pfam07883 323261004126 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 323261004127 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261004128 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 323261004129 DNA binding residues [nucleotide binding] 323261004130 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 323261004131 putative active site [active] 323261004132 putative metal binding site [ion binding]; other site 323261004133 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 323261004134 putative active site [active] 323261004135 putative metal binding site [ion binding]; other site 323261004136 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323261004137 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 323261004138 Predicted integral membrane protein [Function unknown]; Region: COG5615 323261004139 Domain of unknown function DUF59; Region: DUF59; cl00941 323261004140 NnrS protein; Region: NnrS; pfam05940 323261004141 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 323261004142 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 323261004143 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 323261004144 PAS fold; Region: PAS_3; pfam08447 323261004145 putative active site [active] 323261004146 heme pocket [chemical binding]; other site 323261004147 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 323261004148 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323261004149 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323261004150 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 323261004151 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323261004152 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 323261004153 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 323261004154 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 323261004155 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 323261004156 PDZ domain; Region: PDZ_2; pfam13180 323261004157 protein binding site [polypeptide binding]; other site 323261004158 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 323261004159 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 323261004160 active site 323261004161 phosphorylation site [posttranslational modification] 323261004162 intermolecular recognition site; other site 323261004163 dimerization interface [polypeptide binding]; other site 323261004164 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 323261004165 GAF domain; Region: GAF; pfam01590 323261004166 PAS domain S-box; Region: sensory_box; TIGR00229 323261004167 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 323261004168 putative active site [active] 323261004169 heme pocket [chemical binding]; other site 323261004170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323261004171 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 323261004172 ATP binding site [chemical binding]; other site 323261004173 Mg2+ binding site [ion binding]; other site 323261004174 G-X-G motif; other site 323261004175 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 323261004176 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 323261004177 active site 323261004178 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 323261004179 Chain length determinant protein; Region: Wzz; pfam02706 323261004180 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 323261004181 Chain length determinant protein; Region: Wzz; cl15801 323261004182 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 323261004183 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; cd01983 323261004184 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 323261004185 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 323261004186 HSP70 interaction site [polypeptide binding]; other site 323261004187 SnoaL-like domain; Region: SnoaL_2; pfam12680 323261004188 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 323261004189 binding surface 323261004190 TPR motif; other site 323261004191 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 323261004192 Transposase IS200 like; Region: Y1_Tnp; pfam01797 323261004193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261004194 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261004195 Probable transposase; Region: OrfB_IS605; pfam01385 323261004196 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261004197 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 323261004198 O-Antigen ligase; Region: Wzy_C; pfam04932 323261004199 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 323261004200 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 323261004201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261004202 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261004203 Probable transposase; Region: OrfB_IS605; pfam01385 323261004204 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261004205 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 323261004206 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 323261004207 Bacterial sugar transferase; Region: Bac_transf; pfam02397 323261004208 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 323261004209 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323261004210 NAD binding site [chemical binding]; other site 323261004211 substrate binding site [chemical binding]; other site 323261004212 active site 323261004213 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 323261004214 S-adenosylmethionine binding site [chemical binding]; other site 323261004215 dihydropteroate synthase-related protein; Region: TIGR00284 323261004216 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 323261004217 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323261004218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323261004219 NAD(P) binding site [chemical binding]; other site 323261004220 active site 323261004221 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261004222 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 323261004223 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 323261004224 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261004225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261004226 Probable transposase; Region: OrfB_IS605; pfam01385 323261004227 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261004228 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 323261004229 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 323261004230 putative active site [active] 323261004231 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 323261004232 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 323261004233 NADP-binding site; other site 323261004234 homotetramer interface [polypeptide binding]; other site 323261004235 substrate binding site [chemical binding]; other site 323261004236 homodimer interface [polypeptide binding]; other site 323261004237 active site 323261004238 putative glycosyl transferase; Provisional; Region: PRK10307 323261004239 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 323261004240 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323261004241 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 323261004242 SLBB domain; Region: SLBB; pfam10531 323261004243 Outer membrane efflux protein; Region: OEP; pfam02321 323261004244 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323261004245 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 323261004246 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 323261004247 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261004248 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323261004249 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323261004250 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 323261004251 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323261004252 Soluble P-type ATPase [General function prediction only]; Region: COG4087 323261004253 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 323261004254 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323261004255 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 323261004256 YtkA-like; Region: YtkA; pfam13115 323261004257 YtkA-like; Region: YtkA; pfam13115 323261004258 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323261004259 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261004260 Outer membrane efflux protein; Region: OEP; pfam02321 323261004261 Outer membrane efflux protein; Region: OEP; pfam02321 323261004262 Outer membrane efflux protein; Region: OEP; pfam02321 323261004263 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 323261004264 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 323261004265 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323261004266 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323261004267 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 323261004268 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 323261004269 ferrochelatase; Reviewed; Region: hemH; PRK00035 323261004270 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 323261004271 C-terminal domain interface [polypeptide binding]; other site 323261004272 active site 323261004273 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 323261004274 active site 323261004275 N-terminal domain interface [polypeptide binding]; other site 323261004276 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323261004277 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 323261004278 S-adenosylmethionine binding site [chemical binding]; other site 323261004279 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 323261004280 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323261004281 putative substrate translocation pore; other site 323261004282 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 323261004283 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 323261004284 putative active site [active] 323261004285 Zn binding site [ion binding]; other site 323261004286 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 323261004287 RimK-like ATP-grasp domain; Region: RimK; pfam08443 323261004288 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 323261004289 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 323261004290 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323261004291 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 323261004292 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323261004293 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323261004294 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 323261004295 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 323261004296 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 323261004297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261004298 putative ADP-binding pocket [chemical binding]; other site 323261004299 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323261004300 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323261004301 active site 323261004302 ribonuclease Z; Provisional; Region: PRK02126 323261004303 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 323261004304 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 323261004305 metabolite-proton symporter; Region: 2A0106; TIGR00883 323261004306 putative substrate translocation pore; other site 323261004307 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 323261004308 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 323261004309 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 323261004310 inhibitor-cofactor binding pocket; inhibition site 323261004311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261004312 catalytic residue [active] 323261004313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323261004314 Coenzyme A binding pocket [chemical binding]; other site 323261004315 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 323261004316 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 323261004317 putative active site [active] 323261004318 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 323261004319 PemK-like protein; Region: PemK; pfam02452 323261004320 Peptidase family M48; Region: Peptidase_M48; cl12018 323261004321 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323261004322 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323261004323 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 323261004324 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 323261004325 Na binding site [ion binding]; other site 323261004326 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 323261004327 Protein of unknown function, DUF488; Region: DUF488; pfam04343 323261004328 L-lactate permease; Region: Lactate_perm; cl00701 323261004329 L-lactate permease; Region: Lactate_perm; cl00701 323261004330 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 323261004331 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 323261004332 Malic enzyme, N-terminal domain; Region: malic; pfam00390 323261004333 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 323261004334 putative NAD(P) binding site [chemical binding]; other site 323261004335 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 323261004336 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 323261004337 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 323261004338 FAD binding pocket [chemical binding]; other site 323261004339 FAD binding motif [chemical binding]; other site 323261004340 phosphate binding motif [ion binding]; other site 323261004341 beta-alpha-beta structure motif; other site 323261004342 NAD binding pocket [chemical binding]; other site 323261004343 Iron coordination center [ion binding]; other site 323261004344 MutS domain III; Region: MutS_III; cl17822 323261004345 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 323261004346 Walker A/P-loop; other site 323261004347 ATP binding site [chemical binding]; other site 323261004348 Q-loop/lid; other site 323261004349 ABC transporter signature motif; other site 323261004350 Walker B; other site 323261004351 D-loop; other site 323261004352 H-loop/switch region; other site 323261004353 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region...; Region: FNR_like_1; cd06196 323261004354 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 323261004355 FAD binding pocket [chemical binding]; other site 323261004356 FAD binding motif [chemical binding]; other site 323261004357 phosphate binding motif [ion binding]; other site 323261004358 beta-alpha-beta structure motif; other site 323261004359 NAD binding pocket [chemical binding]; other site 323261004360 Probable transposase; Region: OrfB_IS605; pfam01385 323261004361 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261004362 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 323261004363 Domain of unknown function (DUF389); Region: DUF389; cl00781 323261004364 Predicted membrane protein [Function unknown]; Region: COG2323 323261004365 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 323261004366 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 323261004367 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 323261004368 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261004369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261004370 Probable transposase; Region: OrfB_IS605; pfam01385 323261004371 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261004372 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 323261004373 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 323261004374 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 323261004375 Ligand Binding Site [chemical binding]; other site 323261004376 transposase gene of IS630 family insertion sequence ISY100h 323261004377 Transposase 323261004378 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 323261004379 Na binding site [ion binding]; other site 323261004380 CheB methylesterase; Region: CheB_methylest; pfam01339 323261004381 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 323261004382 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 323261004383 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 323261004384 Prefoldin subunit; Region: Prefoldin_2; pfam01920 323261004385 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 323261004386 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323261004387 putative active site [active] 323261004388 heme pocket [chemical binding]; other site 323261004389 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 323261004390 dimer interface [polypeptide binding]; other site 323261004391 phosphorylation site [posttranslational modification] 323261004392 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 323261004393 ATP binding site [chemical binding]; other site 323261004394 Mg2+ binding site [ion binding]; other site 323261004395 G-X-G motif; other site 323261004396 Response regulator receiver domain; Region: Response_reg; pfam00072 323261004397 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 323261004398 active site 323261004399 phosphorylation site [posttranslational modification] 323261004400 intermolecular recognition site; other site 323261004401 dimerization interface [polypeptide binding]; other site 323261004402 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 323261004403 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 323261004404 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323261004405 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 323261004406 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 323261004407 active site 323261004408 dimer interface [polypeptide binding]; other site 323261004409 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 323261004410 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323261004411 active site 323261004412 FMN binding site [chemical binding]; other site 323261004413 substrate binding site [chemical binding]; other site 323261004414 3Fe-4S cluster binding site [ion binding]; other site 323261004415 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 323261004416 domain interface; other site 323261004417 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 323261004418 substrate binding site [chemical binding]; other site 323261004419 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 323261004420 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 323261004421 anti sigma factor interaction site; other site 323261004422 regulatory phosphorylation site [posttranslational modification]; other site 323261004423 glutathione reductase; Validated; Region: PRK06116 323261004424 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323261004425 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261004426 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261004427 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323261004428 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323261004429 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323261004430 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 323261004431 PAS domain; Region: PAS_9; pfam13426 323261004432 putative active site [active] 323261004433 heme pocket [chemical binding]; other site 323261004434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261004435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261004436 metal binding site [ion binding]; metal-binding site 323261004437 active site 323261004438 I-site; other site 323261004439 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 323261004440 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 323261004441 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 323261004442 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 323261004443 Winged helix-turn helix; Region: HTH_29; pfam13551 323261004444 Helix-turn-helix domain; Region: HTH_28; pfam13518 323261004445 Helix-turn-helix domain; Region: HTH_17; pfam12728 323261004446 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 323261004447 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 323261004448 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323261004449 Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]; Region: LysS; COG1384 323261004450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323261004451 active site 323261004452 nucleotide binding site [chemical binding]; other site 323261004453 HIGH motif; other site 323261004454 KMSKS motif; other site 323261004455 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 323261004456 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 323261004457 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 323261004458 Walker A motif; other site 323261004459 ATP binding site [chemical binding]; other site 323261004460 Walker B motif; other site 323261004461 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 323261004462 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 323261004463 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323261004464 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 323261004465 active site 323261004466 phosphorylation site [posttranslational modification] 323261004467 intermolecular recognition site; other site 323261004468 dimerization interface [polypeptide binding]; other site 323261004469 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 323261004470 Walker A motif; other site 323261004471 ATP binding site [chemical binding]; other site 323261004472 Walker B motif; other site 323261004473 arginine finger; other site 323261004474 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261004475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323261004476 HAMP domain; Region: HAMP; pfam00672 323261004477 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 323261004478 dimer interface [polypeptide binding]; other site 323261004479 phosphorylation site [posttranslational modification] 323261004480 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 323261004481 ATP binding site [chemical binding]; other site 323261004482 G-X-G motif; other site 323261004483 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 323261004484 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 323261004485 Sulfate transporter family; Region: Sulfate_transp; pfam00916 323261004486 fumarate hydratase; Reviewed; Region: fumC; PRK00485 323261004487 Class II fumarases; Region: Fumarase_classII; cd01362 323261004488 active site 323261004489 tetramer interface [polypeptide binding]; other site 323261004490 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323261004491 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 323261004492 ligand binding site [chemical binding]; other site 323261004493 flexible hinge region; other site 323261004494 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 323261004495 putative switch regulator; other site 323261004496 non-specific DNA interactions [nucleotide binding]; other site 323261004497 DNA binding site [nucleotide binding] 323261004498 sequence specific DNA binding site [nucleotide binding]; other site 323261004499 putative cAMP binding site [chemical binding]; other site 323261004500 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323261004501 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 323261004502 active site 323261004503 phosphorylation site [posttranslational modification] 323261004504 intermolecular recognition site; other site 323261004505 dimerization interface [polypeptide binding]; other site 323261004506 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 323261004507 dimerization interface [polypeptide binding]; other site 323261004508 DNA binding residues [nucleotide binding] 323261004509 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 323261004510 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 323261004511 thiS-thiF/thiG interaction site; other site 323261004512 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 323261004513 ThiS interaction site; other site 323261004514 putative active site [active] 323261004515 tetramer interface [polypeptide binding]; other site 323261004516 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 323261004517 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 323261004518 active site residues [active] 323261004519 dimer interface [polypeptide binding]; other site 323261004520 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 323261004521 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323261004522 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 323261004523 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 323261004524 Predicted transcriptional regulator [Transcription]; Region: COG1959 323261004525 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 323261004526 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 323261004527 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 323261004528 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 323261004529 TrkA-N domain; Region: TrkA_N; pfam02254 323261004530 TrkA-C domain; Region: TrkA_C; pfam02080 323261004531 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 323261004532 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 323261004533 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 323261004534 ATP binding site [chemical binding]; other site 323261004535 putative Mg++ binding site [ion binding]; other site 323261004536 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 323261004537 nucleotide binding region [chemical binding]; other site 323261004538 ATP-binding site [chemical binding]; other site 323261004539 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 323261004540 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323261004541 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 323261004542 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 323261004543 GIY-YIG motif/motif A; other site 323261004544 active site 323261004545 catalytic site [active] 323261004546 putative DNA binding site [nucleotide binding]; other site 323261004547 metal binding site [ion binding]; metal-binding site 323261004548 UvrB/uvrC motif; Region: UVR; pfam02151 323261004549 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 323261004550 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 323261004551 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 323261004552 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 323261004553 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323261004554 serine O-acetyltransferase; Region: cysE; TIGR01172 323261004555 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 323261004556 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 323261004557 trimer interface [polypeptide binding]; other site 323261004558 active site 323261004559 substrate binding site [chemical binding]; other site 323261004560 CoA binding site [chemical binding]; other site 323261004561 Transcriptional regulator; Region: Rrf2; cl17282 323261004562 Rrf2 family protein; Region: rrf2_super; TIGR00738 323261004563 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 323261004564 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 323261004565 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261004566 catalytic residue [active] 323261004567 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 323261004568 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 323261004569 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323261004570 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 323261004571 non-specific DNA binding site [nucleotide binding]; other site 323261004572 salt bridge; other site 323261004573 sequence-specific DNA binding site [nucleotide binding]; other site 323261004574 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323261004575 Catalytic site; other site 323261004576 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 323261004577 YccA-like proteins; Region: YccA_like; cd10433 323261004578 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 323261004579 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323261004580 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 323261004581 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261004582 catalytic residue [active] 323261004583 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323261004584 active site 323261004585 PilZ domain; Region: PilZ; cl01260 323261004586 DNA polymerase III subunit delta'; Validated; Region: PRK05707 323261004587 DNA polymerase III subunit delta'; Validated; Region: PRK08485 323261004588 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 323261004589 thymidylate kinase; Validated; Region: tmk; PRK00698 323261004590 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 323261004591 TMP-binding site; other site 323261004592 ATP-binding site [chemical binding]; other site 323261004593 YceG-like family; Region: YceG; pfam02618 323261004594 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 323261004595 dimerization interface [polypeptide binding]; other site 323261004596 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323261004597 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 323261004598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261004599 catalytic residue [active] 323261004600 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 323261004601 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 323261004602 dimer interface [polypeptide binding]; other site 323261004603 active site 323261004604 acyl carrier protein; Provisional; Region: acpP; PRK00982 323261004605 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 323261004606 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 323261004607 NAD(P) binding site [chemical binding]; other site 323261004608 homotetramer interface [polypeptide binding]; other site 323261004609 homodimer interface [polypeptide binding]; other site 323261004610 active site 323261004611 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 323261004612 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 323261004613 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 323261004614 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 323261004615 dimer interface [polypeptide binding]; other site 323261004616 active site 323261004617 CoA binding pocket [chemical binding]; other site 323261004618 putative phosphate acyltransferase; Provisional; Region: PRK05331 323261004619 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 323261004620 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 323261004621 amidophosphoribosyltransferase; Provisional; Region: PRK09246 323261004622 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 323261004623 active site 323261004624 tetramer interface [polypeptide binding]; other site 323261004625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261004626 active site 323261004627 Colicin V production protein; Region: Colicin_V; cl00567 323261004628 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 323261004629 Sporulation related domain; Region: SPOR; pfam05036 323261004630 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 323261004631 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323261004632 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 323261004633 Walker A motif; other site 323261004634 ATP binding site [chemical binding]; other site 323261004635 Walker B motif; other site 323261004636 arginine finger; other site 323261004637 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323261004638 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 323261004639 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 323261004640 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 323261004641 Walker A motif; other site 323261004642 ATP binding site [chemical binding]; other site 323261004643 Walker B motif; other site 323261004644 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323261004645 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 323261004646 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 323261004647 oligomer interface [polypeptide binding]; other site 323261004648 active site residues [active] 323261004649 trigger factor; Provisional; Region: tig; PRK01490 323261004650 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323261004651 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 323261004652 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 323261004653 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 323261004654 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 323261004655 active site 323261004656 catalytic site [active] 323261004657 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 323261004658 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 323261004659 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 323261004660 catalytic site [active] 323261004661 active site 323261004662 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 323261004663 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 323261004664 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 323261004665 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 323261004666 putative active site [active] 323261004667 catalytic site [active] 323261004668 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 323261004669 putative active site [active] 323261004670 catalytic site [active] 323261004671 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 323261004672 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 323261004673 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_1; cd08581 323261004674 putative active site [active] 323261004675 catalytic site [active] 323261004676 putative metal binding site [ion binding]; other site 323261004677 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 323261004678 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261004679 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261004680 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261004681 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 323261004682 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 323261004683 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323261004684 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 323261004685 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 323261004686 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 323261004687 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 323261004688 nucleotide binding pocket [chemical binding]; other site 323261004689 K-X-D-G motif; other site 323261004690 catalytic site [active] 323261004691 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 323261004692 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 323261004693 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 323261004694 Dimer interface [polypeptide binding]; other site 323261004695 BRCT sequence motif; other site 323261004696 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 323261004697 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 323261004698 FtsZ protein binding site [polypeptide binding]; other site 323261004699 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323261004700 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 323261004701 Walker A/P-loop; other site 323261004702 ATP binding site [chemical binding]; other site 323261004703 Q-loop/lid; other site 323261004704 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 323261004705 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 323261004706 ABC transporter signature motif; other site 323261004707 Walker B; other site 323261004708 D-loop; other site 323261004709 H-loop/switch region; other site 323261004710 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 323261004711 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 323261004712 D-xylulose kinase; Region: XylB; TIGR01312 323261004713 nucleotide binding site [chemical binding]; other site 323261004714 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 323261004715 DNA binding site [nucleotide binding] 323261004716 dimer interface [polypeptide binding]; other site 323261004717 active site 323261004718 Int/Topo IB signature motif; other site 323261004719 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 323261004720 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323261004721 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 323261004722 active site 323261004723 phosphorylation site [posttranslational modification] 323261004724 intermolecular recognition site; other site 323261004725 dimerization interface [polypeptide binding]; other site 323261004726 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 323261004727 PAS domain; Region: PAS_9; pfam13426 323261004728 putative active site [active] 323261004729 heme pocket [chemical binding]; other site 323261004730 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 323261004731 dimer interface [polypeptide binding]; other site 323261004732 phosphorylation site [posttranslational modification] 323261004733 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 323261004734 ATP binding site [chemical binding]; other site 323261004735 Mg2+ binding site [ion binding]; other site 323261004736 G-X-G motif; other site 323261004737 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323261004738 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 323261004739 active site 323261004740 phosphorylation site [posttranslational modification] 323261004741 intermolecular recognition site; other site 323261004742 dimerization interface [polypeptide binding]; other site 323261004743 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 323261004744 DNA binding residues [nucleotide binding] 323261004745 dimerization interface [polypeptide binding]; other site 323261004746 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 323261004747 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323261004748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261004749 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323261004750 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 323261004751 DNA binding residues [nucleotide binding] 323261004752 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 323261004753 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323261004754 putative active site [active] 323261004755 heme pocket [chemical binding]; other site 323261004756 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 323261004757 dimer interface [polypeptide binding]; other site 323261004758 phosphorylation site [posttranslational modification] 323261004759 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 323261004760 ATP binding site [chemical binding]; other site 323261004761 Mg2+ binding site [ion binding]; other site 323261004762 G-X-G motif; other site 323261004763 Response regulator receiver domain; Region: Response_reg; pfam00072 323261004764 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 323261004765 active site 323261004766 phosphorylation site [posttranslational modification] 323261004767 intermolecular recognition site; other site 323261004768 dimerization interface [polypeptide binding]; other site 323261004769 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 323261004770 Proline dehydrogenase; Region: Pro_dh; pfam01619 323261004771 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 323261004772 Glutamate binding site [chemical binding]; other site 323261004773 NAD binding site [chemical binding]; other site 323261004774 catalytic residues [active] 323261004775 Ferritin-like domain; Region: Ferritin; pfam00210 323261004776 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 323261004777 dinuclear metal binding motif [ion binding]; other site 323261004778 Dodecin; Region: Dodecin; pfam07311 323261004779 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 323261004780 Indoleamine 2,3-dioxygenase; Region: IDO; pfam01231 323261004781 aldehyde dehydrogenase family 7 member; Region: PLN02315 323261004782 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 323261004783 tetrameric interface [polypeptide binding]; other site 323261004784 NAD binding site [chemical binding]; other site 323261004785 catalytic residues [active] 323261004786 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 323261004787 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 323261004788 inhibitor-cofactor binding pocket; inhibition site 323261004789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261004790 catalytic residue [active] 323261004791 Arginase family; Region: Arginase; cd09989 323261004792 active site 323261004793 Mn binding site [ion binding]; other site 323261004794 oligomer interface [polypeptide binding]; other site 323261004795 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323261004796 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323261004797 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323261004798 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 323261004799 Protein of unknown function, DUF482; Region: DUF482; pfam04339 323261004800 Transcriptional regulator; Region: Rrf2; cl17282 323261004801 Rrf2 family protein; Region: rrf2_super; TIGR00738 323261004802 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323261004803 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 323261004804 active site 323261004805 phosphorylation site [posttranslational modification] 323261004806 intermolecular recognition site; other site 323261004807 dimerization interface [polypeptide binding]; other site 323261004808 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 323261004809 DNA binding residues [nucleotide binding] 323261004810 dimerization interface [polypeptide binding]; other site 323261004811 heat shock protein 90; Provisional; Region: PRK05218 323261004812 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 323261004813 ATP binding site [chemical binding]; other site 323261004814 Mg2+ binding site [ion binding]; other site 323261004815 G-X-G motif; other site 323261004816 phosphoglucomutase; Region: PLN02307 323261004817 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 323261004818 substrate binding site [chemical binding]; other site 323261004819 dimer interface [polypeptide binding]; other site 323261004820 active site 323261004821 metal binding site [ion binding]; metal-binding site 323261004822 Maf-like protein; Region: Maf; pfam02545 323261004823 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 323261004824 active site 323261004825 dimer interface [polypeptide binding]; other site 323261004826 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 323261004827 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 323261004828 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 323261004829 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 323261004830 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 323261004831 SurA N-terminal domain; Region: SurA_N; pfam09312 323261004832 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323261004833 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323261004834 organic solvent tolerance protein; Provisional; Region: PRK04423 323261004835 OstA-like protein; Region: OstA; cl00844 323261004836 Organic solvent tolerance protein; Region: OstA_C; pfam04453 323261004837 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 323261004838 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 323261004839 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 323261004840 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323261004841 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323261004842 putative acyl-acceptor binding pocket; other site 323261004843 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323261004844 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323261004845 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323261004846 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 323261004847 S-adenosylmethionine binding site [chemical binding]; other site 323261004848 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 323261004849 active site 323261004850 catalytic residues [active] 323261004851 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323261004852 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 323261004853 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 323261004854 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 323261004855 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 323261004856 substrate binding site [chemical binding]; other site 323261004857 oxyanion hole (OAH) forming residues; other site 323261004858 trimer interface [polypeptide binding]; other site 323261004859 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 323261004860 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323261004861 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 323261004862 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 323261004863 dimer interface [polypeptide binding]; other site 323261004864 active site 323261004865 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 323261004866 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323261004867 active site 323261004868 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 323261004869 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 323261004870 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 323261004871 Uncharacterized conserved protein [Function unknown]; Region: COG2135 323261004872 hopanoid C-3 methylase HpnR; Region: HpnR_B12_rSAM; TIGR04367 323261004873 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 323261004874 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 323261004875 FeS/SAM binding site; other site 323261004876 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 323261004877 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 323261004878 THF binding site; other site 323261004879 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 323261004880 substrate binding site [chemical binding]; other site 323261004881 THF binding site; other site 323261004882 zinc-binding site [ion binding]; other site 323261004883 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 323261004884 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 323261004885 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 323261004886 active site 323261004887 catalytic site [active] 323261004888 Copper resistance protein D; Region: CopD; cl00563 323261004889 CopC domain; Region: CopC; pfam04234 323261004890 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 323261004891 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 323261004892 TPP-binding site; other site 323261004893 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 323261004894 PYR/PP interface [polypeptide binding]; other site 323261004895 dimer interface [polypeptide binding]; other site 323261004896 TPP binding site [chemical binding]; other site 323261004897 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323261004898 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 323261004899 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 323261004900 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 323261004901 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 323261004902 FeS/SAM binding site; other site 323261004903 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 323261004904 hopanoid biosynthesis associated membrane protein HpnM; Region: HpnM; TIGR03481 323261004905 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 323261004906 putative membrane protein; Region: HpnL; TIGR03476 323261004907 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323261004908 GcpE protein; Region: GcpE; pfam04551 323261004909 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323261004910 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323261004911 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 323261004912 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 323261004913 active site 323261004914 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 323261004915 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 323261004916 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 323261004917 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 323261004918 inhibitor-cofactor binding pocket; inhibition site 323261004919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261004920 catalytic residue [active] 323261004921 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 323261004922 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 323261004923 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323261004924 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 323261004925 putative active site [active] 323261004926 heme pocket [chemical binding]; other site 323261004927 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 323261004928 dimer interface [polypeptide binding]; other site 323261004929 phosphorylation site [posttranslational modification] 323261004930 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 323261004931 ATP binding site [chemical binding]; other site 323261004932 Mg2+ binding site [ion binding]; other site 323261004933 G-X-G motif; other site 323261004934 Response regulator receiver domain; Region: Response_reg; pfam00072 323261004935 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 323261004936 active site 323261004937 phosphorylation site [posttranslational modification] 323261004938 intermolecular recognition site; other site 323261004939 dimerization interface [polypeptide binding]; other site 323261004940 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323261004941 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 323261004942 active site 323261004943 phosphorylation site [posttranslational modification] 323261004944 intermolecular recognition site; other site 323261004945 dimerization interface [polypeptide binding]; other site 323261004946 PAS domain S-box; Region: sensory_box; TIGR00229 323261004947 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 323261004948 putative active site [active] 323261004949 heme pocket [chemical binding]; other site 323261004950 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261004951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261004952 metal binding site [ion binding]; metal-binding site 323261004953 active site 323261004954 I-site; other site 323261004955 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 323261004956 acyl-CoA esterase; Provisional; Region: PRK10673 323261004957 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323261004958 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261004959 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323261004960 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323261004961 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323261004962 Cytochrome c; Region: Cytochrom_C; cl11414 323261004963 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 323261004964 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 323261004965 D-pathway; other site 323261004966 Putative ubiquinol binding site [chemical binding]; other site 323261004967 Low-spin heme (heme b) binding site [chemical binding]; other site 323261004968 Putative water exit pathway; other site 323261004969 Binuclear center (heme o3/CuB) [ion binding]; other site 323261004970 K-pathway; other site 323261004971 Putative proton exit pathway; other site 323261004972 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 323261004973 Subunit I/III interface [polypeptide binding]; other site 323261004974 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 323261004975 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323261004976 Cytochrome c; Region: Cytochrom_C; pfam00034 323261004977 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 323261004978 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 323261004979 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 323261004980 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 323261004981 NAD binding site [chemical binding]; other site 323261004982 homotetramer interface [polypeptide binding]; other site 323261004983 homodimer interface [polypeptide binding]; other site 323261004984 substrate binding site [chemical binding]; other site 323261004985 active site 323261004986 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323261004987 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323261004988 periplasmic folding chaperone; Provisional; Region: PRK10788 323261004989 SurA N-terminal domain; Region: SurA_N_3; cl07813 323261004990 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323261004991 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 323261004992 IHF dimer interface [polypeptide binding]; other site 323261004993 IHF - DNA interface [nucleotide binding]; other site 323261004994 BON domain; Region: BON; pfam04972 323261004995 BON domain; Region: BON; pfam04972 323261004996 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 323261004997 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 323261004998 motif II; other site 323261004999 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 323261005000 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 323261005001 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 323261005002 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 323261005003 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 323261005004 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 323261005005 methionine sulfoxide reductase A; Provisional; Region: PRK14054 323261005006 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 323261005007 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 323261005008 dimer interface [polypeptide binding]; other site 323261005009 active site 323261005010 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 323261005011 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261005012 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261005013 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323261005014 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 323261005015 Walker A/P-loop; other site 323261005016 ATP binding site [chemical binding]; other site 323261005017 Q-loop/lid; other site 323261005018 ABC transporter signature motif; other site 323261005019 Walker B; other site 323261005020 D-loop; other site 323261005021 H-loop/switch region; other site 323261005022 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 323261005023 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323261005024 Walker A/P-loop; other site 323261005025 ATP binding site [chemical binding]; other site 323261005026 Q-loop/lid; other site 323261005027 ABC transporter signature motif; other site 323261005028 Walker B; other site 323261005029 D-loop; other site 323261005030 H-loop/switch region; other site 323261005031 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323261005032 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 323261005033 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323261005034 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 323261005035 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 323261005036 Cation efflux family; Region: Cation_efflux; pfam01545 323261005037 MgtE intracellular N domain; Region: MgtE_N; pfam03448 323261005038 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323261005039 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 323261005040 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 323261005041 Divalent cation transporter; Region: MgtE; pfam01769 323261005042 aconitate hydratase; Validated; Region: PRK09277 323261005043 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 323261005044 substrate binding site [chemical binding]; other site 323261005045 ligand binding site [chemical binding]; other site 323261005046 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 323261005047 substrate binding site [chemical binding]; other site 323261005048 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 323261005049 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 323261005050 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 323261005051 putative active site [active] 323261005052 putative substrate binding site [chemical binding]; other site 323261005053 putative cosubstrate binding site; other site 323261005054 catalytic site [active] 323261005055 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 323261005056 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261005057 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261005058 DNA-binding interface [nucleotide binding]; DNA binding site 323261005059 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261005060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261005061 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 323261005062 active site 323261005063 nucleophile elbow; other site 323261005064 choline dehydrogenase; Validated; Region: PRK02106 323261005065 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323261005066 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323261005067 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323261005068 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 323261005069 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 323261005070 active site 323261005071 FMN binding site [chemical binding]; other site 323261005072 substrate binding site [chemical binding]; other site 323261005073 putative catalytic residue [active] 323261005074 Protein of unknown function (DUF726); Region: DUF726; pfam05277 323261005075 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 323261005076 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 323261005077 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 323261005078 ATP binding site [chemical binding]; other site 323261005079 putative Mg++ binding site [ion binding]; other site 323261005080 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 323261005081 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 323261005082 Fic/DOC family; Region: Fic; pfam02661 323261005083 Abi-like protein; Region: Abi_2; cl01988 323261005084 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 323261005085 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261005086 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 323261005087 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261005088 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261005089 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 323261005090 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261005091 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 323261005092 putative active site [active] 323261005093 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 323261005094 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 323261005095 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 323261005096 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323261005097 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 323261005098 IucA / IucC family; Region: IucA_IucC; pfam04183 323261005099 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 323261005100 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 323261005101 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 323261005102 IucA / IucC family; Region: IucA_IucC; pfam04183 323261005103 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 323261005104 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 323261005105 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 323261005106 HlyD family secretion protein; Region: HlyD; pfam00529 323261005107 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261005108 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261005109 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 323261005110 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323261005111 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 323261005112 Walker A/P-loop; other site 323261005113 ATP binding site [chemical binding]; other site 323261005114 Q-loop/lid; other site 323261005115 ABC transporter signature motif; other site 323261005116 Walker B; other site 323261005117 D-loop; other site 323261005118 H-loop/switch region; other site 323261005119 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 323261005120 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323261005121 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323261005122 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261005123 N-terminal plug; other site 323261005124 ligand-binding site [chemical binding]; other site 323261005125 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 323261005126 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 323261005127 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 323261005128 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 323261005129 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323261005130 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261005131 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261005132 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261005133 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 323261005134 putative ADP-ribose binding site [chemical binding]; other site 323261005135 putative active site [active] 323261005136 Peptidase family M48; Region: Peptidase_M48; cl12018 323261005137 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 323261005138 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 323261005139 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 323261005140 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 323261005141 active site 323261005142 substrate binding site [chemical binding]; other site 323261005143 Mg2+ binding site [ion binding]; other site 323261005144 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 323261005145 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323261005146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261005147 Walker A/P-loop; other site 323261005148 ATP binding site [chemical binding]; other site 323261005149 Q-loop/lid; other site 323261005150 ABC transporter signature motif; other site 323261005151 Walker B; other site 323261005152 D-loop; other site 323261005153 H-loop/switch region; other site 323261005154 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 323261005155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323261005156 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 323261005157 putative dimerization interface [polypeptide binding]; other site 323261005158 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323261005159 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 323261005160 active site 323261005161 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323261005162 MgtE intracellular N domain; Region: MgtE_N; smart00924 323261005163 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 323261005164 Divalent cation transporter; Region: MgtE; pfam01769 323261005165 Uncharacterized conserved protein [Function unknown]; Region: COG0398 323261005166 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 323261005167 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 323261005168 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 323261005169 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 323261005170 metal ion-dependent adhesion site (MIDAS); other site 323261005171 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 323261005172 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323261005173 Walker A motif; other site 323261005174 ATP binding site [chemical binding]; other site 323261005175 Walker B motif; other site 323261005176 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 323261005177 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 323261005178 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323261005179 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323261005180 Putative water exit pathway; other site 323261005181 Putative proton exit pathway; other site 323261005182 Cytochrome c; Region: Cytochrom_C; pfam00034 323261005183 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323261005184 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323261005185 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323261005186 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 323261005187 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 323261005188 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323261005189 NHL repeat; Region: NHL; pfam01436 323261005190 phage tail protein domain; Region: tail_TIGR02242 323261005191 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 323261005192 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 323261005193 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 323261005194 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 323261005195 PAAR motif; Region: PAAR_motif; pfam05488 323261005196 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 323261005197 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 323261005198 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 323261005199 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261005200 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 323261005201 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323261005202 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 323261005203 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 323261005204 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 323261005205 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 323261005206 Flagellin N-methylase; Region: FliB; pfam03692 323261005207 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 323261005208 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323261005209 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323261005210 ligand binding site [chemical binding]; other site 323261005211 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 323261005212 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 323261005213 Walker A motif; other site 323261005214 ATP binding site [chemical binding]; other site 323261005215 Walker B motif; other site 323261005216 arginine finger; other site 323261005217 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323261005218 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 323261005219 Walker A motif; other site 323261005220 ATP binding site [chemical binding]; other site 323261005221 Walker B motif; other site 323261005222 arginine finger; other site 323261005223 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323261005224 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261005225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261005226 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 323261005227 amidase catalytic site [active] 323261005228 Zn binding residues [ion binding]; other site 323261005229 substrate binding site [chemical binding]; other site 323261005230 Caspase domain; Region: Peptidase_C14; pfam00656 323261005231 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 323261005232 Zn binding site [ion binding]; other site 323261005233 Helix-turn-helix domain; Region: HTH_37; pfam13744 323261005234 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 323261005235 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 323261005236 active site 323261005237 catalytic residues [active] 323261005238 metal binding site [ion binding]; metal-binding site 323261005239 enoyl-CoA hydratase; Provisional; Region: PRK05995 323261005240 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 323261005241 substrate binding site [chemical binding]; other site 323261005242 oxyanion hole (OAH) forming residues; other site 323261005243 trimer interface [polypeptide binding]; other site 323261005244 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 323261005245 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 323261005246 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 323261005247 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 323261005248 dimer interface [polypeptide binding]; other site 323261005249 active site 323261005250 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 323261005251 B12 binding site [chemical binding]; other site 323261005252 cobalt ligand [ion binding]; other site 323261005253 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 323261005254 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 323261005255 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 323261005256 putative active site [active] 323261005257 putative substrate binding site [chemical binding]; other site 323261005258 putative coenzyme B12 binding site [chemical binding]; other site 323261005259 Domain of unknown function DUF29; Region: DUF29; pfam01724 323261005260 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 323261005261 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 323261005262 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 323261005263 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 323261005264 FtsH Extracellular; Region: FtsH_ext; pfam06480 323261005265 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 323261005266 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 323261005267 Walker A motif; other site 323261005268 ATP binding site [chemical binding]; other site 323261005269 Walker B motif; other site 323261005270 arginine finger; other site 323261005271 Peptidase family M41; Region: Peptidase_M41; pfam01434 323261005272 hypothetical protein; Provisional; Region: PRK10316 323261005273 YfdX protein; Region: YfdX; pfam10938 323261005274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 323261005275 Smr domain; Region: Smr; pfam01713 323261005276 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 323261005277 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 323261005278 dimerization interface [polypeptide binding]; other site 323261005279 ATP binding site [chemical binding]; other site 323261005280 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 323261005281 dimerization interface [polypeptide binding]; other site 323261005282 ATP binding site [chemical binding]; other site 323261005283 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 323261005284 putative active site [active] 323261005285 catalytic triad [active] 323261005286 RDD family; Region: RDD; pfam06271 323261005287 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 323261005288 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323261005289 Predicted permeases [General function prediction only]; Region: COG0795 323261005290 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323261005291 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323261005292 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 323261005293 Walker A motif; other site 323261005294 ATP binding site [chemical binding]; other site 323261005295 Walker B motif; other site 323261005296 arginine finger; other site 323261005297 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261005298 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 323261005299 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 323261005300 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323261005301 putative active site [active] 323261005302 putative active site [active] 323261005303 catalytic site [active] 323261005304 catalytic site [active] 323261005305 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 323261005306 putative active site [active] 323261005307 catalytic site [active] 323261005308 Uncharacterized conserved protein [Function unknown]; Region: COG0398 323261005309 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 323261005310 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323261005311 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323261005312 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 323261005313 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 323261005314 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323261005315 LysR family transcriptional regulator; Provisional; Region: PRK14997 323261005316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323261005317 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 323261005318 putative effector binding pocket; other site 323261005319 dimerization interface [polypeptide binding]; other site 323261005320 Uncharacterized conserved protein [Function unknown]; Region: COG3339 323261005321 Protein of unknown function, DUF393; Region: DUF393; pfam04134 323261005322 CAAX protease self-immunity; Region: Abi; pfam02517 323261005323 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323261005324 FAD binding domain; Region: FAD_binding_4; pfam01565 323261005325 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323261005326 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 323261005327 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 323261005328 N-terminal plug; other site 323261005329 ligand-binding site [chemical binding]; other site 323261005330 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 323261005331 catalytic core [active] 323261005332 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 323261005333 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 323261005334 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 323261005335 active site 323261005336 (T/H)XGH motif; other site 323261005337 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 323261005338 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 323261005339 S-adenosylmethionine binding site [chemical binding]; other site 323261005340 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323261005341 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323261005342 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323261005343 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323261005344 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323261005345 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 323261005346 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 323261005347 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 323261005348 P loop; other site 323261005349 GTP binding site [chemical binding]; other site 323261005350 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 323261005351 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261005352 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 323261005353 DNA binding residues [nucleotide binding] 323261005354 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 323261005355 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323261005356 VanZ like family; Region: VanZ; cl01971 323261005357 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 323261005358 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 323261005359 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 323261005360 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 323261005361 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 323261005362 Ligand Binding Site [chemical binding]; other site 323261005363 Transposase IS200 like; Region: Y1_Tnp; pfam01797 323261005364 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 323261005365 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 323261005366 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 323261005367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323261005368 NAD(P) binding site [chemical binding]; other site 323261005369 active site 323261005370 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323261005371 FAD binding domain; Region: FAD_binding_4; pfam01565 323261005372 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 323261005373 probable O-glycosylation ligase, exosortase A-associated; Region: PEP_O_lig_1; TIGR03097 323261005374 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 323261005375 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 323261005376 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323261005377 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 323261005378 acyl-activating enzyme (AAE) consensus motif; other site 323261005379 acyl-activating enzyme (AAE) consensus motif; other site 323261005380 putative AMP binding site [chemical binding]; other site 323261005381 putative active site [active] 323261005382 putative CoA binding site [chemical binding]; other site 323261005383 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 323261005384 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 323261005385 dimer interface [polypeptide binding]; other site 323261005386 active site 323261005387 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323261005388 catalytic residues [active] 323261005389 substrate binding site [chemical binding]; other site 323261005390 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 323261005391 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 323261005392 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 323261005393 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 323261005394 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261005395 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 323261005396 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 323261005397 acyl carrier protein; Provisional; Region: PRK07639 323261005398 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 323261005399 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 323261005400 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 323261005401 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323261005402 Ligand Binding Site [chemical binding]; other site 323261005403 Molecular Tunnel; other site 323261005404 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 323261005405 TPR motif; other site 323261005406 binding surface 323261005407 TPR repeat; Region: TPR_11; pfam13414 323261005408 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 323261005409 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 323261005410 putative active site [active] 323261005411 putative metal binding site [ion binding]; other site 323261005412 Trm112p-like protein; Region: Trm112p; cl01066 323261005413 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 323261005414 S-adenosylmethionine binding site [chemical binding]; other site 323261005415 Phosphotransferase enzyme family; Region: APH; pfam01636 323261005416 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 323261005417 active site 323261005418 ATP binding site [chemical binding]; other site 323261005419 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 323261005420 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 323261005421 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323261005422 acyl-activating enzyme (AAE) consensus motif; other site 323261005423 AMP binding site [chemical binding]; other site 323261005424 active site 323261005425 CoA binding site [chemical binding]; other site 323261005426 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 323261005427 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261005428 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 323261005429 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 323261005430 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 323261005431 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 323261005432 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 323261005433 active site 323261005434 dimer interface [polypeptide binding]; other site 323261005435 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323261005436 Ligand Binding Site [chemical binding]; other site 323261005437 Molecular Tunnel; other site 323261005438 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 323261005439 active site 323261005440 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 323261005441 homodimer interface [polypeptide binding]; other site 323261005442 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 323261005443 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 323261005444 putative ADP-binding pocket [chemical binding]; other site 323261005445 exosortase A; Region: exosortase_1; TIGR03109 323261005446 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 323261005447 EpsI family protein; Region: EpsI_fam; TIGR02914 323261005448 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 323261005449 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 323261005450 FemAB-related protein, PEP-CTERM system-associated; Region: pepcterm_femAB; TIGR03019 323261005451 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 323261005452 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 323261005453 putative active site [active] 323261005454 putative catalytic site [active] 323261005455 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 323261005456 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 323261005457 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 323261005458 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 323261005459 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 323261005460 Chain length determinant protein; Region: Wzz; pfam02706 323261005461 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323261005462 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 323261005463 SLBB domain; Region: SLBB; pfam10531 323261005464 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 323261005465 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 323261005466 binding surface 323261005467 TPR motif; other site 323261005468 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 323261005469 binding surface 323261005470 TPR motif; other site 323261005471 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 323261005472 binding surface 323261005473 TPR motif; other site 323261005474 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 323261005475 binding surface 323261005476 TPR motif; other site 323261005477 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 323261005478 TPR motif; other site 323261005479 binding surface 323261005480 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 323261005481 TPR motif; other site 323261005482 binding surface 323261005483 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 323261005484 binding surface 323261005485 TPR motif; other site 323261005486 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 323261005487 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 323261005488 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 323261005489 putative CoA binding site [chemical binding]; other site 323261005490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261005491 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261005492 Probable transposase; Region: OrfB_IS605; pfam01385 323261005493 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261005494 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261005495 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261005496 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323261005497 hypothetical protein; Validated; Region: PRK08223 323261005498 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; cd01483 323261005499 hypothetical protein; Provisional; Region: PRK07877 323261005500 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 323261005501 dimer interface [polypeptide binding]; other site 323261005502 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 323261005503 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 323261005504 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 323261005505 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 323261005506 active site 323261005507 phosphorylation site [posttranslational modification] 323261005508 intermolecular recognition site; other site 323261005509 dimerization interface [polypeptide binding]; other site 323261005510 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 323261005511 Walker A motif; other site 323261005512 ATP binding site [chemical binding]; other site 323261005513 Walker B motif; other site 323261005514 arginine finger; other site 323261005515 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261005516 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 323261005517 GAF domain; Region: GAF; pfam01590 323261005518 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 323261005519 dimer interface [polypeptide binding]; other site 323261005520 phosphorylation site [posttranslational modification] 323261005521 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 323261005522 ATP binding site [chemical binding]; other site 323261005523 Mg2+ binding site [ion binding]; other site 323261005524 G-X-G motif; other site 323261005525 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 323261005526 Bacterial sugar transferase; Region: Bac_transf; pfam02397 323261005527 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323261005528 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 323261005529 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 323261005530 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 323261005531 Part of AAA domain; Region: AAA_19; pfam13245 323261005532 Family description; Region: UvrD_C_2; pfam13538 323261005533 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 323261005534 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 323261005535 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 323261005536 Walker A motif; other site 323261005537 ATP binding site [chemical binding]; other site 323261005538 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 323261005539 Membrane fusogenic activity; Region: BMFP; pfam04380 323261005540 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 323261005541 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 323261005542 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323261005543 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 323261005544 active site residue [active] 323261005545 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 323261005546 hypothetical protein; Reviewed; Region: PRK09588 323261005547 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 323261005548 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 323261005549 FOG: CBS domain [General function prediction only]; Region: COG0517 323261005550 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 323261005551 N-acetylglutamate synthase; Validated; Region: PRK05279 323261005552 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 323261005553 putative feedback inhibition sensing region; other site 323261005554 putative nucleotide binding site [chemical binding]; other site 323261005555 putative substrate binding site [chemical binding]; other site 323261005556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323261005557 Coenzyme A binding pocket [chemical binding]; other site 323261005558 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 323261005559 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 323261005560 GatB domain; Region: GatB_Yqey; smart00845 323261005561 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 323261005562 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 323261005563 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 323261005564 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 323261005565 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 323261005566 Walker A motif; other site 323261005567 ATP binding site [chemical binding]; other site 323261005568 Walker B motif; other site 323261005569 arginine finger; other site 323261005570 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 323261005571 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 323261005572 motif II; other site 323261005573 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 323261005574 putative active site [active] 323261005575 Ap4A binding site [chemical binding]; other site 323261005576 nudix motif; other site 323261005577 putative metal binding site [ion binding]; other site 323261005578 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 323261005579 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 323261005580 G1 box; other site 323261005581 putative GEF interaction site [polypeptide binding]; other site 323261005582 GTP/Mg2+ binding site [chemical binding]; other site 323261005583 Switch I region; other site 323261005584 G2 box; other site 323261005585 G3 box; other site 323261005586 Switch II region; other site 323261005587 G4 box; other site 323261005588 G5 box; other site 323261005589 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 323261005590 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 323261005591 PAS domain; Region: PAS_9; pfam13426 323261005592 putative active site [active] 323261005593 heme pocket [chemical binding]; other site 323261005594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261005595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261005596 metal binding site [ion binding]; metal-binding site 323261005597 active site 323261005598 I-site; other site 323261005599 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 323261005600 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 323261005601 RNA/DNA hybrid binding site [nucleotide binding]; other site 323261005602 active site 323261005603 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 323261005604 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 323261005605 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 323261005606 dimerization interface [polypeptide binding]; other site 323261005607 active site 323261005608 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 323261005609 Lumazine binding domain; Region: Lum_binding; pfam00677 323261005610 Lumazine binding domain; Region: Lum_binding; pfam00677 323261005611 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 323261005612 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 323261005613 catalytic motif [active] 323261005614 Zn binding site [ion binding]; other site 323261005615 RibD C-terminal domain; Region: RibD_C; cl17279 323261005616 transcriptional regulator NrdR; Region: TIGR00244 323261005617 ATP cone domain; Region: ATP-cone; pfam03477 323261005618 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 323261005619 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 323261005620 dimer interface [polypeptide binding]; other site 323261005621 active site 323261005622 glycine-pyridoxal phosphate binding site [chemical binding]; other site 323261005623 folate binding site [chemical binding]; other site 323261005624 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 323261005625 Methyltransferase domain; Region: Methyltransf_25; pfam13649 323261005626 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 323261005627 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 323261005628 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 323261005629 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 323261005630 glycerate dehydrogenase; Provisional; Region: PRK06487 323261005631 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 323261005632 putative ligand binding site [chemical binding]; other site 323261005633 putative NAD binding site [chemical binding]; other site 323261005634 catalytic site [active] 323261005635 Beta-propeller repeat; Region: SBBP; pfam06739 323261005636 Beta-propeller repeat; Region: SBBP; pfam06739 323261005637 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 323261005638 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 323261005639 active site 323261005640 Riboflavin kinase; Region: Flavokinase; pfam01687 323261005641 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 323261005642 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323261005643 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323261005644 substrate binding pocket [chemical binding]; other site 323261005645 chain length determination region; other site 323261005646 substrate-Mg2+ binding site; other site 323261005647 catalytic residues [active] 323261005648 aspartate-rich region 1; other site 323261005649 active site lid residues [active] 323261005650 aspartate-rich region 2; other site 323261005651 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 323261005652 active site 323261005653 putative GTP cyclohydrolase; Provisional; Region: PRK13674 323261005654 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 323261005655 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 323261005656 putative lysogenization regulator; Reviewed; Region: PRK00218 323261005657 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 323261005658 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323261005659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323261005660 ligand binding site [chemical binding]; other site 323261005661 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 323261005662 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 323261005663 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 323261005664 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 323261005665 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 323261005666 NADP binding site [chemical binding]; other site 323261005667 dimer interface [polypeptide binding]; other site 323261005668 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 323261005669 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 323261005670 acyl-activating enzyme (AAE) consensus motif; other site 323261005671 putative AMP binding site [chemical binding]; other site 323261005672 putative active site [active] 323261005673 putative CoA binding site [chemical binding]; other site 323261005674 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261005675 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261005676 DNA-binding interface [nucleotide binding]; DNA binding site 323261005677 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261005678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261005679 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 323261005680 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323261005681 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 323261005682 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323261005683 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 323261005684 NAD(P) binding site [chemical binding]; other site 323261005685 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323261005686 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 323261005687 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 323261005688 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 323261005689 putative active site [active] 323261005690 transaldolase; Provisional; Region: PRK03903 323261005691 catalytic residue [active] 323261005692 Colicin pore forming domain; Region: Colicin; pfam01024 323261005693 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 323261005694 Predicted transcriptional regulator [Transcription]; Region: COG2345 323261005695 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 323261005696 putative DNA binding site [nucleotide binding]; other site 323261005697 putative Zn2+ binding site [ion binding]; other site 323261005698 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323261005699 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 323261005700 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 323261005701 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 323261005702 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 323261005703 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 323261005704 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 323261005705 active site 323261005706 catalytic triad [active] 323261005707 oxyanion hole [active] 323261005708 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 323261005709 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 323261005710 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323261005711 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 323261005712 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261005713 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323261005714 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 323261005715 DNA binding residues [nucleotide binding] 323261005716 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261005717 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 323261005718 Putative addiction module component; Region: Unstab_antitox; pfam09720 323261005719 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 323261005720 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 323261005721 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 323261005722 dimerization interface [polypeptide binding]; other site 323261005723 domain crossover interface; other site 323261005724 redox-dependent activation switch; other site 323261005725 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 323261005726 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 323261005727 motif II; other site 323261005728 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 323261005729 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323261005730 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323261005731 Peptidase M16C associated; Region: M16C_assoc; pfam08367 323261005732 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 323261005733 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323261005734 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 323261005735 active site 323261005736 Protein of unknown function (DUF423); Region: DUF423; pfam04241 323261005737 methionine sulfoxide reductase A; Provisional; Region: PRK00058 323261005738 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 323261005739 V-type ATP synthase subunit B; Provisional; Region: PRK04196 323261005740 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 323261005741 Walker A motif homologous position; other site 323261005742 Walker B motif; other site 323261005743 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323261005744 V-type ATP synthase subunit A; Provisional; Region: PRK04192 323261005745 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323261005746 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 323261005747 Walker A motif/ATP binding site; other site 323261005748 Walker B motif; other site 323261005749 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323261005750 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 323261005751 ATP synthase subunit C; Region: ATP-synt_C; cl00466 323261005752 V-type ATP synthase subunit I; Validated; Region: PRK05771 323261005753 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 323261005754 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 323261005755 Uncharacterized conserved protein [Function unknown]; Region: COG3189 323261005756 TIGR03032 family protein; Region: TIGR03032 323261005757 FG-GAP repeat; Region: FG-GAP; cl15299 323261005758 FG-GAP repeat; Region: FG-GAP; cl15299 323261005759 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005760 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005761 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005762 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005763 FG-GAP repeat; Region: FG-GAP; cl15299 323261005764 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005765 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005766 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005767 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005768 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005769 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005770 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 323261005771 FG-GAP repeat; Region: FG-GAP; cl15299 323261005772 NAD synthetase; Reviewed; Region: nadE; PRK02628 323261005773 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 323261005774 multimer interface [polypeptide binding]; other site 323261005775 active site 323261005776 catalytic triad [active] 323261005777 protein interface 1 [polypeptide binding]; other site 323261005778 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 323261005779 homodimer interface [polypeptide binding]; other site 323261005780 NAD binding pocket [chemical binding]; other site 323261005781 ATP binding pocket [chemical binding]; other site 323261005782 Mg binding site [ion binding]; other site 323261005783 active-site loop [active] 323261005784 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 323261005785 AAA domain; Region: AAA_26; pfam13500 323261005786 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 323261005787 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 323261005788 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 323261005789 S-adenosylmethionine binding site [chemical binding]; other site 323261005790 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 323261005791 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 323261005792 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 323261005793 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 323261005794 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261005795 catalytic residue [active] 323261005796 biotin synthase; Region: bioB; TIGR00433 323261005797 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 323261005798 FeS/SAM binding site; other site 323261005799 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 323261005800 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 323261005801 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261005802 active site 323261005803 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 323261005804 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 323261005805 substrate binding site [chemical binding]; other site 323261005806 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 323261005807 substrate binding site [chemical binding]; other site 323261005808 ligand binding site [chemical binding]; other site 323261005809 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 323261005810 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 323261005811 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 323261005812 DNA binding site [nucleotide binding] 323261005813 active site 323261005814 adenylosuccinate lyase; Provisional; Region: PRK09285 323261005815 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 323261005816 tetramer interface [polypeptide binding]; other site 323261005817 active site 323261005818 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323261005819 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323261005820 argininosuccinate synthase; Provisional; Region: PRK13820 323261005821 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 323261005822 ANP binding site [chemical binding]; other site 323261005823 Substrate Binding Site II [chemical binding]; other site 323261005824 Substrate Binding Site I [chemical binding]; other site 323261005825 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 323261005826 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 323261005827 E3 interaction surface; other site 323261005828 lipoyl attachment site [posttranslational modification]; other site 323261005829 e3 binding domain; Region: E3_binding; pfam02817 323261005830 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323261005831 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 323261005832 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 323261005833 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261005834 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261005835 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 323261005836 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 323261005837 alpha subunit interface [polypeptide binding]; other site 323261005838 TPP binding site [chemical binding]; other site 323261005839 heterodimer interface [polypeptide binding]; other site 323261005840 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323261005841 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 323261005842 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 323261005843 tetramer interface [polypeptide binding]; other site 323261005844 TPP-binding site [chemical binding]; other site 323261005845 heterodimer interface [polypeptide binding]; other site 323261005846 phosphorylation loop region [posttranslational modification] 323261005847 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 323261005848 dinuclear metal binding motif [ion binding]; other site 323261005849 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 323261005850 active site 1 [active] 323261005851 dimer interface [polypeptide binding]; other site 323261005852 active site 2 [active] 323261005853 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 323261005854 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 323261005855 homodimer interface [polypeptide binding]; other site 323261005856 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 323261005857 active site pocket [active] 323261005858 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 323261005859 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 323261005860 RNase E interface [polypeptide binding]; other site 323261005861 trimer interface [polypeptide binding]; other site 323261005862 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 323261005863 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 323261005864 RNase E interface [polypeptide binding]; other site 323261005865 trimer interface [polypeptide binding]; other site 323261005866 active site 323261005867 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 323261005868 putative nucleic acid binding region [nucleotide binding]; other site 323261005869 G-X-X-G motif; other site 323261005870 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 323261005871 RNA binding site [nucleotide binding]; other site 323261005872 domain interface; other site 323261005873 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 323261005874 16S/18S rRNA binding site [nucleotide binding]; other site 323261005875 S13e-L30e interaction site [polypeptide binding]; other site 323261005876 25S rRNA binding site [nucleotide binding]; other site 323261005877 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 323261005878 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 323261005879 RNA binding site [nucleotide binding]; other site 323261005880 active site 323261005881 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 323261005882 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 323261005883 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 323261005884 translation initiation factor IF-2; Region: IF-2; TIGR00487 323261005885 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 323261005886 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 323261005887 G1 box; other site 323261005888 putative GEF interaction site [polypeptide binding]; other site 323261005889 GTP/Mg2+ binding site [chemical binding]; other site 323261005890 Switch I region; other site 323261005891 G2 box; other site 323261005892 G3 box; other site 323261005893 Switch II region; other site 323261005894 G4 box; other site 323261005895 G5 box; other site 323261005896 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 323261005897 Translation-initiation factor 2; Region: IF-2; pfam11987 323261005898 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 323261005899 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 323261005900 NusA N-terminal domain; Region: NusA_N; pfam08529 323261005901 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 323261005902 RNA binding site [nucleotide binding]; other site 323261005903 homodimer interface [polypeptide binding]; other site 323261005904 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 323261005905 G-X-X-G motif; other site 323261005906 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 323261005907 G-X-X-G motif; other site 323261005908 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 323261005909 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 323261005910 ribosome maturation protein RimP; Reviewed; Region: PRK00092 323261005911 Sm and related proteins; Region: Sm_like; cl00259 323261005912 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 323261005913 putative oligomer interface [polypeptide binding]; other site 323261005914 putative RNA binding site [nucleotide binding]; other site 323261005915 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 323261005916 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 323261005917 Walker A motif; other site 323261005918 ATP binding site [chemical binding]; other site 323261005919 Walker B motif; other site 323261005920 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 323261005921 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 323261005922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261005923 homodimer interface [polypeptide binding]; other site 323261005924 catalytic residue [active] 323261005925 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 323261005926 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 323261005927 trimer interface [polypeptide binding]; other site 323261005928 active site 323261005929 substrate binding site [chemical binding]; other site 323261005930 CoA binding site [chemical binding]; other site 323261005931 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 323261005932 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 323261005933 metal binding site [ion binding]; metal-binding site 323261005934 dimer interface [polypeptide binding]; other site 323261005935 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 323261005936 homotrimer interaction site [polypeptide binding]; other site 323261005937 putative active site [active] 323261005938 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 323261005939 homodimer interface [polypeptide binding]; other site 323261005940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261005941 catalytic residue [active] 323261005942 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323261005943 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 323261005944 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323261005945 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323261005946 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 323261005947 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323261005948 RibD C-terminal domain; Region: RibD_C; cl17279 323261005949 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323261005950 putative catalytic site [active] 323261005951 putative metal binding site [ion binding]; other site 323261005952 putative phosphate binding site [ion binding]; other site 323261005953 Uncharacterized conserved protein [Function unknown]; Region: COG0398 323261005954 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 323261005955 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 323261005956 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 323261005957 Horizontally Transferred TransMembrane Domain; Region: HTTM; smart00752 323261005958 Protein of unknown function, DUF393; Region: DUF393; pfam04134 323261005959 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 323261005960 Domain of unknown function DUF77; Region: DUF77; pfam01910 323261005961 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323261005962 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323261005963 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 323261005964 protein binding site [polypeptide binding]; other site 323261005965 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 323261005966 protein binding site [polypeptide binding]; other site 323261005967 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 323261005968 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 323261005969 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 323261005970 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 323261005971 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 323261005972 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 323261005973 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 323261005974 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323261005975 Walker A/P-loop; other site 323261005976 ATP binding site [chemical binding]; other site 323261005977 Q-loop/lid; other site 323261005978 ABC transporter signature motif; other site 323261005979 Walker B; other site 323261005980 D-loop; other site 323261005981 H-loop/switch region; other site 323261005982 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 323261005983 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 323261005984 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 323261005985 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 323261005986 putative hydrophobic ligand binding site [chemical binding]; other site 323261005987 Domain of unknown function (DUF336); Region: DUF336; pfam03928 323261005988 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 323261005989 HSP70 interaction site [polypeptide binding]; other site 323261005990 von Willebrand factor type A domain; Region: VWA_2; pfam13519 323261005991 metal ion-dependent adhesion site (MIDAS); other site 323261005992 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 323261005993 S-adenosylmethionine binding site [chemical binding]; other site 323261005994 hypothetical protein; Provisional; Region: PRK11281 323261005995 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 323261005996 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323261005997 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 323261005998 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 323261005999 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261006000 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 323261006001 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261006002 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 323261006003 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 323261006004 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261006005 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323261006006 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 323261006007 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 323261006008 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 323261006009 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 323261006010 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 323261006011 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 323261006012 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 323261006013 FHIPEP family; Region: FHIPEP; pfam00771 323261006014 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 323261006015 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 323261006016 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 323261006017 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 323261006018 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 323261006019 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 323261006020 flagellar motor switch protein; Validated; Region: fliN; PRK05698 323261006021 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 323261006022 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 323261006023 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 323261006024 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 323261006025 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323261006026 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 323261006027 putative NAD(P) binding site [chemical binding]; other site 323261006028 active site 323261006029 putative substrate binding site [chemical binding]; other site 323261006030 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 323261006031 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323261006032 Probable Catalytic site; other site 323261006033 metal-binding site 323261006034 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 323261006035 putative active site [active] 323261006036 putative catalytic triad [active] 323261006037 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 323261006038 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 323261006039 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261006040 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 323261006041 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 323261006042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261006043 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 323261006044 Methyltransferase domain; Region: Methyltransf_24; pfam13578 323261006045 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323261006046 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 323261006047 active site 323261006048 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 323261006049 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 323261006050 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 323261006051 Ligand binding site; other site 323261006052 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323261006053 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 323261006054 S-adenosylmethionine binding site [chemical binding]; other site 323261006055 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 323261006056 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323261006057 Probable Catalytic site; other site 323261006058 metal-binding site 323261006059 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 323261006060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261006061 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 323261006062 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 323261006063 trimer interface [polypeptide binding]; other site 323261006064 active site 323261006065 substrate binding site [chemical binding]; other site 323261006066 CoA binding site [chemical binding]; other site 323261006067 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 323261006068 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 323261006069 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 323261006070 Walker A/P-loop; other site 323261006071 ATP binding site [chemical binding]; other site 323261006072 Q-loop/lid; other site 323261006073 ABC transporter signature motif; other site 323261006074 Walker B; other site 323261006075 D-loop; other site 323261006076 H-loop/switch region; other site 323261006077 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 323261006078 putative carbohydrate binding site [chemical binding]; other site 323261006079 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 323261006080 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 323261006081 beta-hexosaminidase; Provisional; Region: PRK05337 323261006082 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 323261006083 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 323261006084 dimer interface [polypeptide binding]; other site 323261006085 conserved gate region; other site 323261006086 putative PBP binding loops; other site 323261006087 ABC-ATPase subunit interface; other site 323261006088 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 323261006089 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 323261006090 dimer interface [polypeptide binding]; other site 323261006091 conserved gate region; other site 323261006092 putative PBP binding loops; other site 323261006093 ABC-ATPase subunit interface; other site 323261006094 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323261006095 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323261006096 putative cation:proton antiport protein; Provisional; Region: PRK10669 323261006097 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 323261006098 TrkA-N domain; Region: TrkA_N; pfam02254 323261006099 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 323261006100 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 323261006101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261006102 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 323261006103 Probable transposase; Region: OrfB_IS605; pfam01385 323261006104 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261006105 Protein of unknown function DUF262; Region: DUF262; pfam03235 323261006106 Uncharacterized conserved protein [Function unknown]; Region: COG1479 323261006107 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323261006108 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323261006109 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 323261006110 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 323261006111 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 323261006112 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 323261006113 putative active site [active] 323261006114 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 323261006115 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 323261006116 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 323261006117 2-methylcitrate dehydratase; Region: prpD; TIGR02330 323261006118 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 323261006119 dimer interface [polypeptide binding]; other site 323261006120 Citrate synthase; Region: Citrate_synt; pfam00285 323261006121 active site 323261006122 citrylCoA binding site [chemical binding]; other site 323261006123 oxalacetate/citrate binding site [chemical binding]; other site 323261006124 coenzyme A binding site [chemical binding]; other site 323261006125 catalytic triad [active] 323261006126 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 323261006127 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 323261006128 tetramer interface [polypeptide binding]; other site 323261006129 active site 323261006130 Mg2+/Mn2+ binding site [ion binding]; other site 323261006131 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261006132 Ligand Binding Site [chemical binding]; other site 323261006133 Probable transposase; Region: OrfB_IS605; pfam01385 323261006134 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261006135 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 323261006136 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 323261006137 hydrophobic ligand binding site; other site 323261006138 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261006139 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323261006140 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261006141 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323261006142 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323261006143 Walker A/P-loop; other site 323261006144 ATP binding site [chemical binding]; other site 323261006145 Q-loop/lid; other site 323261006146 ABC transporter signature motif; other site 323261006147 Walker B; other site 323261006148 D-loop; other site 323261006149 H-loop/switch region; other site 323261006150 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323261006151 FtsX-like permease family; Region: FtsX; pfam02687 323261006152 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 323261006153 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323261006154 FtsX-like permease family; Region: FtsX; pfam02687 323261006155 putative S-transferase; Provisional; Region: PRK11752 323261006156 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 323261006157 C-terminal domain interface [polypeptide binding]; other site 323261006158 GSH binding site (G-site) [chemical binding]; other site 323261006159 dimer interface [polypeptide binding]; other site 323261006160 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 323261006161 dimer interface [polypeptide binding]; other site 323261006162 N-terminal domain interface [polypeptide binding]; other site 323261006163 active site 323261006164 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261006165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261006166 Probable transposase; Region: OrfB_IS605; pfam01385 323261006167 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261006168 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 323261006169 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 323261006170 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 323261006171 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 323261006172 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 323261006173 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 323261006174 elongation factor G; Reviewed; Region: PRK12740 323261006175 G1 box; other site 323261006176 putative GEF interaction site [polypeptide binding]; other site 323261006177 GTP/Mg2+ binding site [chemical binding]; other site 323261006178 Switch I region; other site 323261006179 G2 box; other site 323261006180 G3 box; other site 323261006181 Switch II region; other site 323261006182 G4 box; other site 323261006183 G5 box; other site 323261006184 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 323261006185 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 323261006186 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 323261006187 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 323261006188 aromatic arch; other site 323261006189 DCoH dimer interaction site [polypeptide binding]; other site 323261006190 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 323261006191 DCoH tetramer interaction site [polypeptide binding]; other site 323261006192 substrate binding site [chemical binding]; other site 323261006193 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 323261006194 PilZ domain; Region: PilZ; pfam07238 323261006195 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 323261006196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261006197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261006198 metal binding site [ion binding]; metal-binding site 323261006199 active site 323261006200 I-site; other site 323261006201 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 323261006202 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323261006203 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 323261006204 substrate binding pocket [chemical binding]; other site 323261006205 substrate-Mg2+ binding site; other site 323261006206 aspartate-rich region 1; other site 323261006207 aspartate-rich region 2; other site 323261006208 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 323261006209 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 323261006210 S-adenosylmethionine binding site [chemical binding]; other site 323261006211 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 323261006212 multidrug efflux system protein; Provisional; Region: PRK11431 323261006213 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 323261006214 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 323261006215 catalytic triad [active] 323261006216 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 323261006217 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 323261006218 active site 323261006219 DNA binding site [nucleotide binding] 323261006220 Int/Topo IB signature motif; other site 323261006221 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 323261006222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 323261006223 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 323261006224 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 323261006225 active site 323261006226 metal binding site [ion binding]; metal-binding site 323261006227 interdomain interaction site; other site 323261006228 Domain of unknown function (DUF927); Region: DUF927; pfam06048 323261006229 T5orf172 domain; Region: T5orf172; pfam10544 323261006230 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 323261006231 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 323261006232 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 323261006233 homodimer interface [polypeptide binding]; other site 323261006234 NADP binding site [chemical binding]; other site 323261006235 substrate binding site [chemical binding]; other site 323261006236 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 323261006237 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323261006238 active site 323261006239 HIGH motif; other site 323261006240 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323261006241 KMSKS motif; other site 323261006242 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 323261006243 tRNA binding surface [nucleotide binding]; other site 323261006244 anticodon binding site; other site 323261006245 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323261006246 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 323261006247 HIGH motif; other site 323261006248 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323261006249 active site 323261006250 KMSKS motif; other site 323261006251 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 323261006252 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 323261006253 substrate binding site [chemical binding]; other site 323261006254 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 323261006255 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323261006256 putative active site [active] 323261006257 putative metal binding site [ion binding]; other site 323261006258 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 323261006259 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 323261006260 dimerization domain [polypeptide binding]; other site 323261006261 dimer interface [polypeptide binding]; other site 323261006262 catalytic residues [active] 323261006263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 323261006264 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 323261006265 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 323261006266 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 323261006267 active site 323261006268 DNA binding site [nucleotide binding] 323261006269 Int/Topo IB signature motif; other site 323261006270 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 323261006271 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 323261006272 DNA binding site [nucleotide binding] 323261006273 active site 323261006274 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 323261006275 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 323261006276 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 323261006277 RimM N-terminal domain; Region: RimM; pfam01782 323261006278 PRC-barrel domain; Region: PRC; pfam05239 323261006279 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 323261006280 signal recognition particle protein; Provisional; Region: PRK10867 323261006281 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 323261006282 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 323261006283 P loop; other site 323261006284 GTP binding site [chemical binding]; other site 323261006285 Signal peptide binding domain; Region: SRP_SPB; pfam02978 323261006286 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 323261006287 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 323261006288 Domain of unknown function DUF21; Region: DUF21; pfam01595 323261006289 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 323261006290 Transporter associated domain; Region: CorC_HlyC; smart01091 323261006291 AsmA family; Region: AsmA; pfam05170 323261006292 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323261006293 putative assembly protein; Provisional; Region: PRK10833 323261006294 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323261006295 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 323261006296 hydrophobic ligand binding site; other site 323261006297 adenine DNA glycosylase; Provisional; Region: PRK10880 323261006298 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323261006299 minor groove reading motif; other site 323261006300 helix-hairpin-helix signature motif; other site 323261006301 substrate binding pocket [chemical binding]; other site 323261006302 active site 323261006303 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 323261006304 DNA binding and oxoG recognition site [nucleotide binding] 323261006305 oxidative damage protection protein; Provisional; Region: PRK05408 323261006306 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 323261006307 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 323261006308 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 323261006309 Type II transport protein GspH; Region: GspH; pfam12019 323261006310 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 323261006311 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323261006312 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 323261006313 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 323261006314 PilX N-terminal; Region: PilX_N; pfam14341 323261006315 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 323261006316 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 323261006317 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 323261006318 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 323261006319 lipoprotein signal peptidase; Provisional; Region: PRK14787 323261006320 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 323261006321 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323261006322 active site 323261006323 HIGH motif; other site 323261006324 nucleotide binding site [chemical binding]; other site 323261006325 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323261006326 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 323261006327 active site 323261006328 KMSKS motif; other site 323261006329 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 323261006330 tRNA binding surface [nucleotide binding]; other site 323261006331 anticodon binding site; other site 323261006332 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323261006333 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 323261006334 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 323261006335 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 323261006336 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 323261006337 active site 323261006338 tetramer interface; other site 323261006339 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 323261006340 CoA binding domain; Region: CoA_binding; cl17356 323261006341 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 323261006342 NAD(P) binding site [chemical binding]; other site 323261006343 homodimer interface [polypeptide binding]; other site 323261006344 substrate binding site [chemical binding]; other site 323261006345 active site 323261006346 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 323261006347 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 323261006348 CAP-like domain; other site 323261006349 active site 323261006350 primary dimer interface [polypeptide binding]; other site 323261006351 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 323261006352 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 323261006353 ATP binding site [chemical binding]; other site 323261006354 Mg2+ binding site [ion binding]; other site 323261006355 G-X-G motif; other site 323261006356 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 323261006357 anchoring element; other site 323261006358 dimer interface [polypeptide binding]; other site 323261006359 ATP binding site [chemical binding]; other site 323261006360 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 323261006361 active site 323261006362 metal binding site [ion binding]; metal-binding site 323261006363 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323261006364 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 323261006365 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 323261006366 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_6; cd06256 323261006367 putative active site [active] 323261006368 Zn binding site [ion binding]; other site 323261006369 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 323261006370 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 323261006371 CysD dimerization site [polypeptide binding]; other site 323261006372 G1 box; other site 323261006373 putative GEF interaction site [polypeptide binding]; other site 323261006374 GTP/Mg2+ binding site [chemical binding]; other site 323261006375 Switch I region; other site 323261006376 G2 box; other site 323261006377 G3 box; other site 323261006378 Switch II region; other site 323261006379 G4 box; other site 323261006380 G5 box; other site 323261006381 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 323261006382 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 323261006383 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 323261006384 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 323261006385 Active Sites [active] 323261006386 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 323261006387 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 323261006388 Active Sites [active] 323261006389 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323261006390 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 323261006391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323261006392 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 323261006393 substrate binding site [chemical binding]; other site 323261006394 dimerization interface [polypeptide binding]; other site 323261006395 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 323261006396 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 323261006397 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 323261006398 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 323261006399 active site 323261006400 putative substrate binding pocket [chemical binding]; other site 323261006401 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 323261006402 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 323261006403 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 323261006404 S-adenosylmethionine binding site [chemical binding]; other site 323261006405 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 323261006406 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 323261006407 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 323261006408 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 323261006409 alphaNTD homodimer interface [polypeptide binding]; other site 323261006410 alphaNTD - beta interaction site [polypeptide binding]; other site 323261006411 alphaNTD - beta' interaction site [polypeptide binding]; other site 323261006412 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 323261006413 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 323261006414 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 323261006415 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 323261006416 RNA binding surface [nucleotide binding]; other site 323261006417 30S ribosomal protein S11; Validated; Region: PRK05309 323261006418 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 323261006419 30S ribosomal protein S13; Region: bact_S13; TIGR03631 323261006420 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 323261006421 SecY translocase; Region: SecY; pfam00344 323261006422 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 323261006423 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 323261006424 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 323261006425 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 323261006426 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 323261006427 5S rRNA interface [nucleotide binding]; other site 323261006428 23S rRNA interface [nucleotide binding]; other site 323261006429 L5 interface [polypeptide binding]; other site 323261006430 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 323261006431 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323261006432 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323261006433 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 323261006434 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 323261006435 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 323261006436 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 323261006437 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 323261006438 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 323261006439 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 323261006440 RNA binding site [nucleotide binding]; other site 323261006441 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 323261006442 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 323261006443 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 323261006444 trigger factor interaction site; other site 323261006445 23S rRNA interface [nucleotide binding]; other site 323261006446 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 323261006447 23S rRNA interface [nucleotide binding]; other site 323261006448 5S rRNA interface [nucleotide binding]; other site 323261006449 putative antibiotic binding site [chemical binding]; other site 323261006450 L25 interface [polypeptide binding]; other site 323261006451 L27 interface [polypeptide binding]; other site 323261006452 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 323261006453 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 323261006454 G-X-X-G motif; other site 323261006455 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 323261006456 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 323261006457 putative translocon binding site; other site 323261006458 protein-rRNA interface [nucleotide binding]; other site 323261006459 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 323261006460 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 323261006461 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 323261006462 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 323261006463 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 323261006464 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 323261006465 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 323261006466 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 323261006467 elongation factor Tu; Reviewed; Region: PRK00049 323261006468 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323261006469 G1 box; other site 323261006470 GEF interaction site [polypeptide binding]; other site 323261006471 GTP/Mg2+ binding site [chemical binding]; other site 323261006472 Switch I region; other site 323261006473 G2 box; other site 323261006474 G3 box; other site 323261006475 Switch II region; other site 323261006476 G4 box; other site 323261006477 G5 box; other site 323261006478 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 323261006479 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 323261006480 Antibiotic Binding Site [chemical binding]; other site 323261006481 elongation factor G; Reviewed; Region: PRK00007 323261006482 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 323261006483 G1 box; other site 323261006484 putative GEF interaction site [polypeptide binding]; other site 323261006485 GTP/Mg2+ binding site [chemical binding]; other site 323261006486 Switch I region; other site 323261006487 G2 box; other site 323261006488 G3 box; other site 323261006489 Switch II region; other site 323261006490 G4 box; other site 323261006491 G5 box; other site 323261006492 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 323261006493 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 323261006494 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 323261006495 30S ribosomal protein S7; Validated; Region: PRK05302 323261006496 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 323261006497 S17 interaction site [polypeptide binding]; other site 323261006498 S8 interaction site; other site 323261006499 16S rRNA interaction site [nucleotide binding]; other site 323261006500 streptomycin interaction site [chemical binding]; other site 323261006501 23S rRNA interaction site [nucleotide binding]; other site 323261006502 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 323261006503 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 323261006504 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 323261006505 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 323261006506 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 323261006507 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 323261006508 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323261006509 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 323261006510 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323261006511 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 323261006512 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 323261006513 DNA binding site [nucleotide binding] 323261006514 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 323261006515 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 323261006516 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 323261006517 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 323261006518 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 323261006519 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 323261006520 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 323261006521 RPB3 interaction site [polypeptide binding]; other site 323261006522 RPB1 interaction site [polypeptide binding]; other site 323261006523 RPB11 interaction site [polypeptide binding]; other site 323261006524 RPB10 interaction site [polypeptide binding]; other site 323261006525 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 323261006526 peripheral dimer interface [polypeptide binding]; other site 323261006527 core dimer interface [polypeptide binding]; other site 323261006528 L10 interface [polypeptide binding]; other site 323261006529 L11 interface [polypeptide binding]; other site 323261006530 putative EF-Tu interaction site [polypeptide binding]; other site 323261006531 putative EF-G interaction site [polypeptide binding]; other site 323261006532 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 323261006533 23S rRNA interface [nucleotide binding]; other site 323261006534 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 323261006535 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 323261006536 mRNA/rRNA interface [nucleotide binding]; other site 323261006537 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 323261006538 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 323261006539 23S rRNA interface [nucleotide binding]; other site 323261006540 L7/L12 interface [polypeptide binding]; other site 323261006541 putative thiostrepton binding site; other site 323261006542 L25 interface [polypeptide binding]; other site 323261006543 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 323261006544 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 323261006545 putative homodimer interface [polypeptide binding]; other site 323261006546 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 323261006547 heterodimer interface [polypeptide binding]; other site 323261006548 homodimer interface [polypeptide binding]; other site 323261006549 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 323261006550 elongation factor Tu; Reviewed; Region: PRK00049 323261006551 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323261006552 G1 box; other site 323261006553 GEF interaction site [polypeptide binding]; other site 323261006554 GTP/Mg2+ binding site [chemical binding]; other site 323261006555 Switch I region; other site 323261006556 G2 box; other site 323261006557 G3 box; other site 323261006558 Switch II region; other site 323261006559 G4 box; other site 323261006560 G5 box; other site 323261006561 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 323261006562 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 323261006563 Antibiotic Binding Site [chemical binding]; other site 323261006564 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 323261006565 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 323261006566 NAD binding site [chemical binding]; other site 323261006567 homodimer interface [polypeptide binding]; other site 323261006568 active site 323261006569 substrate binding site [chemical binding]; other site 323261006570 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 323261006571 active site 323261006572 HslU subunit interaction site [polypeptide binding]; other site 323261006573 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 323261006574 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 323261006575 Walker A motif; other site 323261006576 ATP binding site [chemical binding]; other site 323261006577 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 323261006578 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323261006579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 323261006580 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 323261006581 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 323261006582 S-adenosylmethionine binding site [chemical binding]; other site 323261006583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 323261006584 SCP-2 sterol transfer family; Region: SCP2; pfam02036 323261006585 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 323261006586 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 323261006587 aromatic acid decarboxylase; Validated; Region: PRK05920 323261006588 Flavoprotein; Region: Flavoprotein; pfam02441 323261006589 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 323261006590 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323261006591 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323261006592 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323261006593 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 323261006594 Protein export membrane protein; Region: SecD_SecF; pfam02355 323261006595 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 323261006596 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 323261006597 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323261006598 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 323261006599 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 323261006600 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 323261006601 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 323261006602 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 323261006603 active site 323261006604 dimer interface [polypeptide binding]; other site 323261006605 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 323261006606 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 323261006607 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 323261006608 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 323261006609 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 323261006610 Walker A motif/ATP binding site; other site 323261006611 Walker B motif; other site 323261006612 flagellar assembly protein H; Validated; Region: fliH; PRK05687 323261006613 Flagellar assembly protein FliH; Region: FliH; pfam02108 323261006614 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 323261006615 FliG C-terminal domain; Region: FliG_C; pfam01706 323261006616 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 323261006617 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 323261006618 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 323261006619 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 323261006620 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323261006621 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 323261006622 active site 323261006623 phosphorylation site [posttranslational modification] 323261006624 intermolecular recognition site; other site 323261006625 dimerization interface [polypeptide binding]; other site 323261006626 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 323261006627 Walker A motif; other site 323261006628 ATP binding site [chemical binding]; other site 323261006629 Walker B motif; other site 323261006630 arginine finger; other site 323261006631 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261006632 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323261006633 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 323261006634 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 323261006635 Walker A motif; other site 323261006636 ATP binding site [chemical binding]; other site 323261006637 Walker B motif; other site 323261006638 arginine finger; other site 323261006639 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261006640 flagellar protein FliS; Validated; Region: fliS; PRK05685 323261006641 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 323261006642 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 323261006643 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 323261006644 FlaG protein; Region: FlaG; pfam03646 323261006645 flagellin; Provisional; Region: PRK12806 323261006646 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323261006647 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323261006648 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 323261006649 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323261006650 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323261006651 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 323261006652 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 323261006653 Rod binding protein; Region: Rod-binding; cl01626 323261006654 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 323261006655 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 323261006656 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 323261006657 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 323261006658 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 323261006659 Flagellar L-ring protein; Region: FlgH; pfam02107 323261006660 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 323261006661 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323261006662 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323261006663 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 323261006664 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 323261006665 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 323261006666 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323261006667 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 323261006668 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323261006669 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 323261006670 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 323261006671 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 323261006672 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 323261006673 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323261006674 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323261006675 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 323261006676 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 323261006677 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 323261006678 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 323261006679 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323261006680 putative acyl-acceptor binding pocket; other site 323261006681 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 323261006682 acyl-activating enzyme (AAE) consensus motif; other site 323261006683 putative AMP binding site [chemical binding]; other site 323261006684 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 323261006685 Clp amino terminal domain; Region: Clp_N; pfam02861 323261006686 Clp amino terminal domain; Region: Clp_N; pfam02861 323261006687 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 323261006688 Walker A motif; other site 323261006689 ATP binding site [chemical binding]; other site 323261006690 Walker B motif; other site 323261006691 arginine finger; other site 323261006692 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 323261006693 Walker A motif; other site 323261006694 ATP binding site [chemical binding]; other site 323261006695 Walker B motif; other site 323261006696 arginine finger; other site 323261006697 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 323261006698 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323261006699 putative acyl-acceptor binding pocket; other site 323261006700 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 323261006701 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 323261006702 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 323261006703 active site 323261006704 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 323261006705 intracellular septation protein A; Reviewed; Region: PRK00259 323261006706 YciI-like protein; Reviewed; Region: PRK11370 323261006707 BolA-like protein; Region: BolA; pfam01722 323261006708 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 323261006709 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 323261006710 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 323261006711 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323261006712 putative active site [active] 323261006713 catalytic site [active] 323261006714 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 323261006715 putative active site [active] 323261006716 putative domain interface [polypeptide binding]; other site 323261006717 catalytic site [active] 323261006718 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261006719 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323261006720 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323261006721 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323261006722 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323261006723 DsrE/DsrF-like family; Region: DrsE; pfam02635 323261006724 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 323261006725 putative active site [active] 323261006726 putative metal binding residues [ion binding]; other site 323261006727 signature motif; other site 323261006728 putative triphosphate binding site [ion binding]; other site 323261006729 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 323261006730 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 323261006731 transcriptional regulator PhoU; Provisional; Region: PRK11115 323261006732 PhoU domain; Region: PhoU; pfam01895 323261006733 PhoU domain; Region: PhoU; pfam01895 323261006734 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 323261006735 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 323261006736 Walker A/P-loop; other site 323261006737 ATP binding site [chemical binding]; other site 323261006738 Q-loop/lid; other site 323261006739 ABC transporter signature motif; other site 323261006740 Walker B; other site 323261006741 D-loop; other site 323261006742 H-loop/switch region; other site 323261006743 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 323261006744 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 323261006745 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 323261006746 dimer interface [polypeptide binding]; other site 323261006747 conserved gate region; other site 323261006748 putative PBP binding loops; other site 323261006749 ABC-ATPase subunit interface; other site 323261006750 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 323261006751 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 323261006752 conserved gate region; other site 323261006753 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 323261006754 ABC-ATPase subunit interface; other site 323261006755 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 323261006756 PBP superfamily domain; Region: PBP_like_2; cl17296 323261006757 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 323261006758 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323261006759 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 323261006760 dimer interface [polypeptide binding]; other site 323261006761 phosphorylation site [posttranslational modification] 323261006762 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 323261006763 ATP binding site [chemical binding]; other site 323261006764 Mg2+ binding site [ion binding]; other site 323261006765 G-X-G motif; other site 323261006766 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 323261006767 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 323261006768 active site 323261006769 phosphorylation site [posttranslational modification] 323261006770 intermolecular recognition site; other site 323261006771 dimerization interface [polypeptide binding]; other site 323261006772 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 323261006773 DNA binding site [nucleotide binding] 323261006774 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323261006775 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323261006776 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 323261006777 putative FMN binding site [chemical binding]; other site 323261006778 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323261006779 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323261006780 FAD binding domain; Region: FAD_binding_4; pfam01565 323261006781 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323261006782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323261006783 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 323261006784 dimerization interface [polypeptide binding]; other site 323261006785 Predicted membrane protein [Function unknown]; Region: COG2259 323261006786 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 323261006787 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 323261006788 putative active site [active] 323261006789 metal binding site [ion binding]; metal-binding site 323261006790 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 323261006791 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323261006792 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 323261006793 putative active site [active] 323261006794 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 323261006795 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 323261006796 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 323261006797 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 323261006798 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323261006799 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 323261006800 active site 323261006801 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 323261006802 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 323261006803 dimer interface [polypeptide binding]; other site 323261006804 ADP-ribose binding site [chemical binding]; other site 323261006805 active site 323261006806 nudix motif; other site 323261006807 metal binding site [ion binding]; metal-binding site 323261006808 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 323261006809 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 323261006810 ABC-ATPase subunit interface; other site 323261006811 dimer interface [polypeptide binding]; other site 323261006812 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 323261006813 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 323261006814 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 323261006815 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 323261006816 putative metal binding residues [ion binding]; other site 323261006817 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323261006818 metal binding site 2 [ion binding]; metal-binding site 323261006819 putative DNA binding helix; other site 323261006820 metal binding site 1 [ion binding]; metal-binding site 323261006821 dimer interface [polypeptide binding]; other site 323261006822 structural Zn2+ binding site [ion binding]; other site 323261006823 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 323261006824 Clp amino terminal domain; Region: Clp_N; pfam02861 323261006825 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 323261006826 Walker A motif; other site 323261006827 ATP binding site [chemical binding]; other site 323261006828 Walker B motif; other site 323261006829 arginine finger; other site 323261006830 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 323261006831 Walker A motif; other site 323261006832 ATP binding site [chemical binding]; other site 323261006833 Walker B motif; other site 323261006834 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 323261006835 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 323261006836 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 323261006837 putative GSH binding site [chemical binding]; other site 323261006838 catalytic residues [active] 323261006839 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 323261006840 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 323261006841 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 323261006842 acetylornithine aminotransferase; Provisional; Region: PRK02627 323261006843 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 323261006844 inhibitor-cofactor binding pocket; inhibition site 323261006845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261006846 catalytic residue [active] 323261006847 ornithine carbamoyltransferase; Provisional; Region: PRK00779 323261006848 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323261006849 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323261006850 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 323261006851 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 323261006852 Substrate binding site; other site 323261006853 metal-binding site 323261006854 Phosphotransferase enzyme family; Region: APH; pfam01636 323261006855 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 323261006856 active site 323261006857 ATP binding site [chemical binding]; other site 323261006858 substrate binding site [chemical binding]; other site 323261006859 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 323261006860 TPR motif; other site 323261006861 binding surface 323261006862 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323261006863 Peptidase family M23; Region: Peptidase_M23; pfam01551 323261006864 Haemolytic domain; Region: Haemolytic; pfam01809 323261006865 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 323261006866 30S subunit binding site; other site 323261006867 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 323261006868 DNA-binding site [nucleotide binding]; DNA binding site 323261006869 RNA-binding motif; other site 323261006870 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 323261006871 ribonuclease PH; Reviewed; Region: rph; PRK00173 323261006872 Ribonuclease PH; Region: RNase_PH_bact; cd11362 323261006873 hexamer interface [polypeptide binding]; other site 323261006874 active site 323261006875 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 323261006876 active site 323261006877 dimerization interface [polypeptide binding]; other site 323261006878 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 323261006879 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 323261006880 FeS/SAM binding site; other site 323261006881 HemN C-terminal domain; Region: HemN_C; pfam06969 323261006882 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323261006883 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 323261006884 active site 323261006885 phosphorylation site [posttranslational modification] 323261006886 intermolecular recognition site; other site 323261006887 dimerization interface [polypeptide binding]; other site 323261006888 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 323261006889 DNA binding residues [nucleotide binding] 323261006890 dimerization interface [polypeptide binding]; other site 323261006891 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 323261006892 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 323261006893 transmembrane helices; other site 323261006894 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 323261006895 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 323261006896 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 323261006897 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 323261006898 putative active site; other site 323261006899 catalytic triad [active] 323261006900 putative dimer interface [polypeptide binding]; other site 323261006901 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 323261006902 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323261006903 putative active site [active] 323261006904 heme pocket [chemical binding]; other site 323261006905 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323261006906 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 323261006907 putative active site [active] 323261006908 heme pocket [chemical binding]; other site 323261006909 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 323261006910 dimer interface [polypeptide binding]; other site 323261006911 phosphorylation site [posttranslational modification] 323261006912 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 323261006913 ATP binding site [chemical binding]; other site 323261006914 Mg2+ binding site [ion binding]; other site 323261006915 G-X-G motif; other site 323261006916 Response regulator receiver domain; Region: Response_reg; pfam00072 323261006917 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 323261006918 active site 323261006919 phosphorylation site [posttranslational modification] 323261006920 intermolecular recognition site; other site 323261006921 dimerization interface [polypeptide binding]; other site 323261006922 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323261006923 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 323261006924 active site 323261006925 phosphorylation site [posttranslational modification] 323261006926 intermolecular recognition site; other site 323261006927 dimerization interface [polypeptide binding]; other site 323261006928 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323261006929 GAF domain; Region: GAF; pfam01590 323261006930 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 323261006931 dimer interface [polypeptide binding]; other site 323261006932 phosphorylation site [posttranslational modification] 323261006933 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 323261006934 ATP binding site [chemical binding]; other site 323261006935 Mg2+ binding site [ion binding]; other site 323261006936 G-X-G motif; other site 323261006937 threonine synthase; Reviewed; Region: PRK06721 323261006938 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 323261006939 homodimer interface [polypeptide binding]; other site 323261006940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261006941 catalytic residue [active] 323261006942 homoserine dehydrogenase; Provisional; Region: PRK06349 323261006943 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 323261006944 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 323261006945 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 323261006946 aminotransferase; Validated; Region: PRK08175 323261006947 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 323261006948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261006949 homodimer interface [polypeptide binding]; other site 323261006950 catalytic residue [active] 323261006951 HDOD domain; Region: HDOD; pfam08668 323261006952 GTPase Era; Reviewed; Region: era; PRK00089 323261006953 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 323261006954 G1 box; other site 323261006955 GTP/Mg2+ binding site [chemical binding]; other site 323261006956 Switch I region; other site 323261006957 G2 box; other site 323261006958 Switch II region; other site 323261006959 G3 box; other site 323261006960 G4 box; other site 323261006961 G5 box; other site 323261006962 KH domain; Region: KH_2; pfam07650 323261006963 G-X-X-G motif; other site 323261006964 ribonuclease III; Reviewed; Region: rnc; PRK00102 323261006965 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 323261006966 dimerization interface [polypeptide binding]; other site 323261006967 active site 323261006968 metal binding site [ion binding]; metal-binding site 323261006969 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 323261006970 dsRNA binding site [nucleotide binding]; other site 323261006971 signal peptidase I; Provisional; Region: PRK10861 323261006972 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 323261006973 Catalytic site [active] 323261006974 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 323261006975 GTP-binding protein LepA; Provisional; Region: PRK05433 323261006976 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 323261006977 G1 box; other site 323261006978 putative GEF interaction site [polypeptide binding]; other site 323261006979 GTP/Mg2+ binding site [chemical binding]; other site 323261006980 Switch I region; other site 323261006981 G2 box; other site 323261006982 G3 box; other site 323261006983 Switch II region; other site 323261006984 G4 box; other site 323261006985 G5 box; other site 323261006986 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 323261006987 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 323261006988 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 323261006989 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323261006990 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323261006991 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 323261006992 protein binding site [polypeptide binding]; other site 323261006993 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 323261006994 protein binding site [polypeptide binding]; other site 323261006995 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 323261006996 anti-sigma E factor; Provisional; Region: rseB; PRK09455 323261006997 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 323261006998 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 323261006999 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 323261007000 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323261007001 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 323261007002 DNA binding residues [nucleotide binding] 323261007003 L-aspartate oxidase; Provisional; Region: PRK09077 323261007004 L-aspartate oxidase; Provisional; Region: PRK06175 323261007005 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323261007006 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 323261007007 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 323261007008 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 323261007009 catalytic loop [active] 323261007010 iron binding site [ion binding]; other site 323261007011 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 323261007012 L-aspartate oxidase; Provisional; Region: PRK06175 323261007013 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323261007014 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 323261007015 SdhC subunit interface [polypeptide binding]; other site 323261007016 proximal heme binding site [chemical binding]; other site 323261007017 cardiolipin binding site; other site 323261007018 Iron-sulfur protein interface; other site 323261007019 proximal quinone binding site [chemical binding]; other site 323261007020 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 323261007021 Iron-sulfur protein interface; other site 323261007022 proximal quinone binding site [chemical binding]; other site 323261007023 SdhD (CybS) interface [polypeptide binding]; other site 323261007024 proximal heme binding site [chemical binding]; other site 323261007025 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 323261007026 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 323261007027 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 323261007028 IHF - DNA interface [nucleotide binding]; other site 323261007029 IHF dimer interface [polypeptide binding]; other site 323261007030 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 323261007031 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 323261007032 Mg++ binding site [ion binding]; other site 323261007033 putative catalytic motif [active] 323261007034 putative substrate binding site [chemical binding]; other site 323261007035 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 323261007036 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261007037 putative ADP-binding pocket [chemical binding]; other site 323261007038 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 323261007039 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 323261007040 active site 323261007041 dimer interface [polypeptide binding]; other site 323261007042 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323261007043 Ligand Binding Site [chemical binding]; other site 323261007044 Molecular Tunnel; other site 323261007045 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261007046 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 323261007047 putative ADP-binding pocket [chemical binding]; other site 323261007048 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 323261007049 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261007050 putative ADP-binding pocket [chemical binding]; other site 323261007051 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 323261007052 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 323261007053 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 323261007054 ligand-binding site [chemical binding]; other site 323261007055 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 323261007056 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 323261007057 Substrate binding site; other site 323261007058 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 323261007059 transcriptional activator RfaH; Region: RfaH; TIGR01955 323261007060 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 323261007061 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 323261007062 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 323261007063 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 323261007064 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 323261007065 trimerization site [polypeptide binding]; other site 323261007066 active site 323261007067 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323261007068 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 323261007069 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261007070 catalytic residue [active] 323261007071 FeS assembly protein SufD; Region: sufD; TIGR01981 323261007072 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 323261007073 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 323261007074 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 323261007075 Walker A/P-loop; other site 323261007076 ATP binding site [chemical binding]; other site 323261007077 Q-loop/lid; other site 323261007078 ABC transporter signature motif; other site 323261007079 Walker B; other site 323261007080 D-loop; other site 323261007081 H-loop/switch region; other site 323261007082 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 323261007083 putative ABC transporter; Region: ycf24; CHL00085 323261007084 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 323261007085 Transcriptional regulator; Region: Rrf2; pfam02082 323261007086 Transcriptional regulator; Region: Rrf2; cl17282 323261007087 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 323261007088 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 323261007089 substrate binding site [chemical binding]; other site 323261007090 hexamer interface [polypeptide binding]; other site 323261007091 metal binding site [ion binding]; metal-binding site 323261007092 phosphoglycolate phosphatase; Provisional; Region: PRK13222 323261007093 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 323261007094 motif II; other site 323261007095 anthranilate synthase component I; Provisional; Region: PRK13565 323261007096 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323261007097 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 323261007098 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 323261007099 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 323261007100 glutamine binding [chemical binding]; other site 323261007101 catalytic triad [active] 323261007102 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 323261007103 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 323261007104 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 323261007105 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 323261007106 active site 323261007107 ribulose/triose binding site [chemical binding]; other site 323261007108 phosphate binding site [ion binding]; other site 323261007109 substrate (anthranilate) binding pocket [chemical binding]; other site 323261007110 product (indole) binding pocket [chemical binding]; other site 323261007111 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 323261007112 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 323261007113 Ammonia monooxygenase; Region: AMO; pfam02461 323261007114 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 323261007115 phosphoserine phosphatase SerB; Region: serB; TIGR00338 323261007116 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 323261007117 motif II; other site 323261007118 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323261007119 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 323261007120 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323261007121 Multicopper oxidase; Region: Cu-oxidase; pfam00394 323261007122 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 323261007123 SpoVR like protein; Region: SpoVR; pfam04293 323261007124 Protein of unknown function (DUF444); Region: DUF444; cl17371 323261007125 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 323261007126 metal ion-dependent adhesion site (MIDAS); other site 323261007127 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 323261007128 AAA ATPase domain; Region: AAA_16; pfam13191 323261007129 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 323261007130 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323261007131 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 323261007132 dimer interface [polypeptide binding]; other site 323261007133 ADP-ribose binding site [chemical binding]; other site 323261007134 active site 323261007135 nudix motif; other site 323261007136 metal binding site [ion binding]; metal-binding site 323261007137 Predicted membrane protein [Function unknown]; Region: COG3174 323261007138 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 323261007139 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 323261007140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323261007141 Coenzyme A binding pocket [chemical binding]; other site 323261007142 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 323261007143 Fe-S cluster binding site [ion binding]; other site 323261007144 active site 323261007145 2-isopropylmalate synthase; Validated; Region: PRK00915 323261007146 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 323261007147 active site 323261007148 catalytic residues [active] 323261007149 metal binding site [ion binding]; metal-binding site 323261007150 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 323261007151 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 323261007152 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 323261007153 ketol-acid reductoisomerase; Provisional; Region: PRK05479 323261007154 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 323261007155 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 323261007156 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 323261007157 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 323261007158 putative valine binding site [chemical binding]; other site 323261007159 dimer interface [polypeptide binding]; other site 323261007160 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 323261007161 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 323261007162 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323261007163 PYR/PP interface [polypeptide binding]; other site 323261007164 dimer interface [polypeptide binding]; other site 323261007165 TPP binding site [chemical binding]; other site 323261007166 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323261007167 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 323261007168 TPP-binding site [chemical binding]; other site 323261007169 dimer interface [polypeptide binding]; other site 323261007170 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 323261007171 active site 323261007172 substrate binding pocket [chemical binding]; other site 323261007173 dimer interface [polypeptide binding]; other site 323261007174 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 323261007175 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 323261007176 ATP binding site [chemical binding]; other site 323261007177 active site 323261007178 substrate binding site [chemical binding]; other site 323261007179 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 323261007180 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 323261007181 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 323261007182 dihydrodipicolinate synthase; Region: dapA; TIGR00674 323261007183 dimer interface [polypeptide binding]; other site 323261007184 active site 323261007185 catalytic residue [active] 323261007186 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 323261007187 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 323261007188 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 323261007189 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323261007190 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 323261007191 catalytic triad [active] 323261007192 ATP cone domain; Region: ATP-cone; pfam03477 323261007193 ATP cone domain; Region: ATP-cone; pfam03477 323261007194 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 323261007195 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 323261007196 protein-splicing catalytic site; other site 323261007197 thioester formation/cholesterol transfer; other site 323261007198 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 323261007199 Class I ribonucleotide reductase; Region: RNR_I; cd01679 323261007200 R2 peptide binding site; other site 323261007201 catalytic residues [active] 323261007202 active site 323261007203 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 323261007204 dimer interface [polypeptide binding]; other site 323261007205 putative radical transfer pathway; other site 323261007206 diiron center [ion binding]; other site 323261007207 tyrosyl radical; other site 323261007208 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 323261007209 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 323261007210 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323261007211 catalytic residue [active] 323261007212 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323261007213 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323261007214 ligand binding site [chemical binding]; other site 323261007215 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 323261007216 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 323261007217 Predicted membrane protein [Function unknown]; Region: COG1238 323261007218 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 323261007219 active site 323261007220 NTP binding site [chemical binding]; other site 323261007221 metal binding triad [ion binding]; metal-binding site 323261007222 antibiotic binding site [chemical binding]; other site 323261007223 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 323261007224 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 323261007225 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 323261007226 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 323261007227 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 323261007228 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 323261007229 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323261007230 Pilin (bacterial filament); Region: Pilin; pfam00114 323261007231 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 323261007232 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323261007233 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 323261007234 non-specific DNA binding site [nucleotide binding]; other site 323261007235 salt bridge; other site 323261007236 sequence-specific DNA binding site [nucleotide binding]; other site 323261007237 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261007238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261007239 Probable transposase; Region: OrfB_IS605; pfam01385 323261007240 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261007241 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 323261007242 putative active site [active] 323261007243 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 323261007244 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 323261007245 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 323261007246 putative active site [active] 323261007247 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 323261007248 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261007249 catalytic residue [active] 323261007250 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 323261007251 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323261007252 substrate binding site [chemical binding]; other site 323261007253 ATP binding site [chemical binding]; other site 323261007254 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 323261007255 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 323261007256 catalytic residues [active] 323261007257 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 323261007258 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 323261007259 RNA binding surface [nucleotide binding]; other site 323261007260 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323261007261 active site 323261007262 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 323261007263 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 323261007264 putative NAD(P) binding site [chemical binding]; other site 323261007265 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 323261007266 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261007267 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323261007268 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261007269 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 323261007270 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323261007271 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323261007272 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 323261007273 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 323261007274 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 323261007275 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 323261007276 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 323261007277 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 323261007278 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 323261007279 NADH dehydrogenase subunit G; Validated; Region: PRK09129 323261007280 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 323261007281 catalytic loop [active] 323261007282 iron binding site [ion binding]; other site 323261007283 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 323261007284 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 323261007285 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 323261007286 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 323261007287 SLBB domain; Region: SLBB; pfam10531 323261007288 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 323261007289 NADH dehydrogenase subunit E; Validated; Region: PRK07539 323261007290 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 323261007291 putative dimer interface [polypeptide binding]; other site 323261007292 [2Fe-2S] cluster binding site [ion binding]; other site 323261007293 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 323261007294 NADH dehydrogenase subunit D; Validated; Region: PRK06075 323261007295 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 323261007296 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 323261007297 NADH dehydrogenase subunit B; Validated; Region: PRK06411 323261007298 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 323261007299 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 323261007300 triosephosphate isomerase; Provisional; Region: PRK14567 323261007301 substrate binding site [chemical binding]; other site 323261007302 dimer interface [polypeptide binding]; other site 323261007303 catalytic triad [active] 323261007304 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 323261007305 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 323261007306 active site 323261007307 substrate binding site [chemical binding]; other site 323261007308 metal binding site [ion binding]; metal-binding site 323261007309 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 323261007310 dihydropteroate synthase; Region: DHPS; TIGR01496 323261007311 substrate binding pocket [chemical binding]; other site 323261007312 dimer interface [polypeptide binding]; other site 323261007313 inhibitor binding site; inhibition site 323261007314 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 323261007315 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 323261007316 Walker A motif; other site 323261007317 ATP binding site [chemical binding]; other site 323261007318 Walker B motif; other site 323261007319 arginine finger; other site 323261007320 Peptidase family M41; Region: Peptidase_M41; pfam01434 323261007321 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 323261007322 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 323261007323 S-adenosylmethionine binding site [chemical binding]; other site 323261007324 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 323261007325 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 323261007326 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323261007327 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 323261007328 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323261007329 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 323261007330 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 323261007331 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323261007332 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323261007333 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 323261007334 IMP binding site; other site 323261007335 dimer interface [polypeptide binding]; other site 323261007336 interdomain contacts; other site 323261007337 partial ornithine binding site; other site 323261007338 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 323261007339 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 323261007340 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 323261007341 catalytic site [active] 323261007342 subunit interface [polypeptide binding]; other site 323261007343 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 323261007344 dimer interface [polypeptide binding]; other site 323261007345 active site 323261007346 aspartate-rich active site metal binding site; other site 323261007347 allosteric magnesium binding site [ion binding]; other site 323261007348 Schiff base residues; other site 323261007349 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 323261007350 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 323261007351 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 323261007352 shikimate binding site; other site 323261007353 NAD(P) binding site [chemical binding]; other site 323261007354 Cell division protein ZapA; Region: ZapA; pfam05164 323261007355 TIGR02449 family protein; Region: TIGR02449 323261007356 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 323261007357 proline aminopeptidase P II; Provisional; Region: PRK10879 323261007358 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 323261007359 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 323261007360 active site 323261007361 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 323261007362 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 323261007363 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 323261007364 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 323261007365 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 323261007366 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 323261007367 ATP binding site [chemical binding]; other site 323261007368 Mg++ binding site [ion binding]; other site 323261007369 motif III; other site 323261007370 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 323261007371 nucleotide binding region [chemical binding]; other site 323261007372 ATP-binding site [chemical binding]; other site 323261007373 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 323261007374 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323261007375 catalytic residues [active] 323261007376 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 323261007377 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 323261007378 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 323261007379 GDP-binding site [chemical binding]; other site 323261007380 ACT binding site; other site 323261007381 IMP binding site; other site 323261007382 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 323261007383 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 323261007384 dimer interface [polypeptide binding]; other site 323261007385 motif 1; other site 323261007386 active site 323261007387 motif 2; other site 323261007388 motif 3; other site 323261007389 FtsH protease regulator HflC; Provisional; Region: PRK11029 323261007390 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 323261007391 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 323261007392 HflK protein; Region: hflK; TIGR01933 323261007393 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 323261007394 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 323261007395 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 323261007396 HflX GTPase family; Region: HflX; cd01878 323261007397 G1 box; other site 323261007398 GTP/Mg2+ binding site [chemical binding]; other site 323261007399 Switch I region; other site 323261007400 G2 box; other site 323261007401 G3 box; other site 323261007402 Switch II region; other site 323261007403 G4 box; other site 323261007404 G5 box; other site 323261007405 bacterial Hfq-like; Region: Hfq; cd01716 323261007406 hexamer interface [polypeptide binding]; other site 323261007407 Sm1 motif; other site 323261007408 RNA binding site [nucleotide binding]; other site 323261007409 Sm2 motif; other site 323261007410 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 323261007411 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; cd02019 323261007412 active site 323261007413 transcription termination factor Rho; Provisional; Region: rho; PRK09376 323261007414 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 323261007415 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 323261007416 RNA binding site [nucleotide binding]; other site 323261007417 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 323261007418 multimer interface [polypeptide binding]; other site 323261007419 Walker A motif; other site 323261007420 ATP binding site [chemical binding]; other site 323261007421 Walker B motif; other site 323261007422 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 323261007423 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 323261007424 Walker A motif; other site 323261007425 ATP binding site [chemical binding]; other site 323261007426 Walker B motif; other site 323261007427 arginine finger; other site 323261007428 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 323261007429 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 323261007430 hypothetical protein; Validated; Region: PRK00153 323261007431 recombination protein RecR; Reviewed; Region: recR; PRK00076 323261007432 RecR protein; Region: RecR; pfam02132 323261007433 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 323261007434 putative active site [active] 323261007435 putative metal-binding site [ion binding]; other site 323261007436 tetramer interface [polypeptide binding]; other site 323261007437 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 323261007438 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 323261007439 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 323261007440 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 323261007441 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 323261007442 rRNA binding site [nucleotide binding]; other site 323261007443 predicted 30S ribosome binding site; other site 323261007444 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 323261007445 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 323261007446 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 323261007447 Gram-negative porin; Region: Porin_4; pfam13609 323261007448 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 323261007449 nucleoside/Zn binding site; other site 323261007450 dimer interface [polypeptide binding]; other site 323261007451 catalytic motif [active] 323261007452 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 323261007453 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 323261007454 dimer interface [polypeptide binding]; other site 323261007455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261007456 catalytic residue [active] 323261007457 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 323261007458 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323261007459 NAD(P) binding site [chemical binding]; other site 323261007460 catalytic residues [active] 323261007461 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 323261007462 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 323261007463 tetramer interface [polypeptide binding]; other site 323261007464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261007465 catalytic residue [active] 323261007466 acetylornithine deacetylase; Provisional; Region: PRK07522 323261007467 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 323261007468 metal binding site [ion binding]; metal-binding site 323261007469 putative dimer interface [polypeptide binding]; other site 323261007470 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 323261007471 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 323261007472 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 323261007473 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 323261007474 active site 323261007475 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 323261007476 DNA-binding site [nucleotide binding]; DNA binding site 323261007477 RNA-binding motif; other site 323261007478 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 323261007479 RNA recognition motif; Region: RRM; smart00360 323261007480 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 323261007481 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 323261007482 ATP binding site [chemical binding]; other site 323261007483 Mg++ binding site [ion binding]; other site 323261007484 motif III; other site 323261007485 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 323261007486 nucleotide binding region [chemical binding]; other site 323261007487 ATP-binding site [chemical binding]; other site 323261007488 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323261007489 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323261007490 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 323261007491 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 323261007492 putative ribose interaction site [chemical binding]; other site 323261007493 putative ADP binding site [chemical binding]; other site 323261007494 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 323261007495 active site 323261007496 HIGH motif; other site 323261007497 nucleotide binding site [chemical binding]; other site 323261007498 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 323261007499 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 323261007500 NADP binding site [chemical binding]; other site 323261007501 homopentamer interface [polypeptide binding]; other site 323261007502 substrate binding site [chemical binding]; other site 323261007503 active site 323261007504 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 323261007505 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 323261007506 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 323261007507 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 323261007508 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323261007509 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 323261007510 S-adenosylmethionine binding site [chemical binding]; other site 323261007511 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 323261007512 CPxP motif; other site 323261007513 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 323261007514 Peptidase family M48; Region: Peptidase_M48; pfam01435 323261007515 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 323261007516 TPR motif; other site 323261007517 binding surface 323261007518 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 323261007519 binding surface 323261007520 TPR motif; other site 323261007521 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 323261007522 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 323261007523 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 323261007524 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 323261007525 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 323261007526 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 323261007527 FeS/SAM binding site; other site 323261007528 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 323261007529 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 323261007530 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 323261007531 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 323261007532 motif 1; other site 323261007533 dimer interface [polypeptide binding]; other site 323261007534 active site 323261007535 motif 2; other site 323261007536 motif 3; other site 323261007537 elongation factor P; Validated; Region: PRK00529 323261007538 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 323261007539 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 323261007540 RNA binding site [nucleotide binding]; other site 323261007541 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 323261007542 RNA binding site [nucleotide binding]; other site 323261007543 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 323261007544 Radical SAM superfamily; Region: Radical_SAM; pfam04055 323261007545 FeS/SAM binding site; other site 323261007546 citrate synthase; Provisional; Region: PRK14036 323261007547 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_1; cd06112 323261007548 dimer interface [polypeptide binding]; other site 323261007549 active site 323261007550 citrylCoA binding site [chemical binding]; other site 323261007551 oxalacetate/citrate binding site [chemical binding]; other site 323261007552 coenzyme A binding site [chemical binding]; other site 323261007553 catalytic triad [active] 323261007554 lipoyl synthase; Provisional; Region: PRK05481 323261007555 lipoate-protein ligase B; Provisional; Region: PRK14342 323261007556 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323261007557 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 323261007558 homodimer interface [polypeptide binding]; other site 323261007559 substrate-cofactor binding pocket; other site 323261007560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261007561 catalytic residue [active] 323261007562 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 323261007563 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 323261007564 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 323261007565 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 323261007566 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 323261007567 Sporulation related domain; Region: SPOR; pfam05036 323261007568 Transglycosylase SLT domain; Region: SLT_2; pfam13406 323261007569 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 323261007570 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323261007571 catalytic residue [active] 323261007572 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 323261007573 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 323261007574 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 323261007575 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 323261007576 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 323261007577 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 323261007578 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323261007579 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 323261007580 putative NAD(P) binding site [chemical binding]; other site 323261007581 active site 323261007582 putative substrate binding site [chemical binding]; other site 323261007583 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323261007584 putative catalytic site [active] 323261007585 putative metal binding site [ion binding]; other site 323261007586 putative phosphate binding site [ion binding]; other site 323261007587 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 323261007588 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 323261007589 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 323261007590 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323261007591 Di-iron ligands [ion binding]; other site 323261007592 Transposase; Region: DDE_Tnp_ISL3; pfam01610 323261007593 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 323261007594 nudix motif; other site 323261007595 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 323261007596 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323261007597 Walker A/P-loop; other site 323261007598 ATP binding site [chemical binding]; other site 323261007599 Q-loop/lid; other site 323261007600 ABC transporter signature motif; other site 323261007601 Walker B; other site 323261007602 D-loop; other site 323261007603 H-loop/switch region; other site 323261007604 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 323261007605 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 323261007606 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 323261007607 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 323261007608 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 323261007609 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 323261007610 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 323261007611 DNA binding site [nucleotide binding] 323261007612 catalytic residue [active] 323261007613 H2TH interface [polypeptide binding]; other site 323261007614 putative catalytic residues [active] 323261007615 turnover-facilitating residue; other site 323261007616 intercalation triad [nucleotide binding]; other site 323261007617 8OG recognition residue [nucleotide binding]; other site 323261007618 putative reading head residues; other site 323261007619 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 323261007620 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323261007621 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323261007622 glutamine synthetase; Provisional; Region: glnA; PRK09469 323261007623 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 323261007624 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 323261007625 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 323261007626 CPxP motif; other site 323261007627 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 323261007628 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 323261007629 Ligand Binding Site [chemical binding]; other site 323261007630 nitrilase; Region: PLN02798 323261007631 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 323261007632 putative active site [active] 323261007633 catalytic triad [active] 323261007634 dimer interface [polypeptide binding]; other site 323261007635 TIGR02099 family protein; Region: TIGR02099 323261007636 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323261007637 ribonuclease G; Provisional; Region: PRK11712 323261007638 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 323261007639 homodimer interface [polypeptide binding]; other site 323261007640 oligonucleotide binding site [chemical binding]; other site 323261007641 Maf-like protein; Region: Maf; pfam02545 323261007642 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 323261007643 active site 323261007644 dimer interface [polypeptide binding]; other site 323261007645 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 323261007646 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 323261007647 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 323261007648 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 323261007649 active site 323261007650 (T/H)XGH motif; other site 323261007651 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 323261007652 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 323261007653 putative catalytic cysteine [active] 323261007654 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 323261007655 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 323261007656 Lipopolysaccharide-assembly; Region: LptE; cl01125 323261007657 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 323261007658 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 323261007659 HIGH motif; other site 323261007660 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323261007661 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323261007662 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 323261007663 active site 323261007664 KMSKS motif; other site 323261007665 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 323261007666 tRNA binding surface [nucleotide binding]; other site 323261007667 threonine dehydratase; Reviewed; Region: PRK09224 323261007668 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 323261007669 tetramer interface [polypeptide binding]; other site 323261007670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261007671 catalytic residue [active] 323261007672 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 323261007673 putative Ile/Val binding site [chemical binding]; other site 323261007674 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 323261007675 putative Ile/Val binding site [chemical binding]; other site 323261007676 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 323261007677 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323261007678 active site 323261007679 dimer interface [polypeptide binding]; other site 323261007680 PilZ domain; Region: PilZ; pfam07238 323261007681 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 323261007682 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323261007683 FtsX-like permease family; Region: FtsX; pfam02687 323261007684 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 323261007685 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323261007686 Walker A/P-loop; other site 323261007687 ATP binding site [chemical binding]; other site 323261007688 Q-loop/lid; other site 323261007689 ABC transporter signature motif; other site 323261007690 Walker B; other site 323261007691 D-loop; other site 323261007692 H-loop/switch region; other site 323261007693 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 323261007694 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 323261007695 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 323261007696 Competence protein; Region: Competence; pfam03772 323261007697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 323261007698 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 323261007699 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 323261007700 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323261007701 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 323261007702 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323261007703 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 323261007704 Walker A/P-loop; other site 323261007705 ATP binding site [chemical binding]; other site 323261007706 Q-loop/lid; other site 323261007707 ABC transporter signature motif; other site 323261007708 Walker B; other site 323261007709 D-loop; other site 323261007710 H-loop/switch region; other site 323261007711 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 323261007712 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 323261007713 Uncharacterized conserved protein [Function unknown]; Region: COG2835 323261007714 S-adenosylmethionine synthetase; Validated; Region: PRK05250 323261007715 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 323261007716 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 323261007717 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 323261007718 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 323261007719 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 323261007720 homotetramer interface [polypeptide binding]; other site 323261007721 ligand binding site [chemical binding]; other site 323261007722 catalytic site [active] 323261007723 NAD binding site [chemical binding]; other site 323261007724 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 323261007725 FAD binding site [chemical binding]; other site 323261007726 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323261007727 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 323261007728 dimer interface [polypeptide binding]; other site 323261007729 active site 323261007730 metal binding site [ion binding]; metal-binding site 323261007731 glutathione binding site [chemical binding]; other site 323261007732 PAS fold; Region: PAS_4; pfam08448 323261007733 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 323261007734 putative active site [active] 323261007735 heme pocket [chemical binding]; other site 323261007736 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323261007737 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323261007738 metal binding site [ion binding]; metal-binding site 323261007739 active site 323261007740 I-site; other site 323261007741 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 323261007742 SAF-like; Region: SAF_2; pfam13144 323261007743 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 323261007744 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 323261007745 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 323261007746 FlgN protein; Region: FlgN; pfam05130 323261007747 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 323261007748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261007749 Probable transposase; Region: OrfB_IS605; pfam01385 323261007750 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261007751 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261007752 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 323261007753 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261007754 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 323261007755 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261007756 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 323261007757 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 323261007758 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 323261007759 C factor cell-cell signaling protein; Provisional; Region: PRK09009 323261007760 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 323261007761 NADP binding site [chemical binding]; other site 323261007762 homodimer interface [polypeptide binding]; other site 323261007763 active site 323261007764 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 323261007765 active site 323261007766 NTP binding site [chemical binding]; other site 323261007767 metal binding triad [ion binding]; metal-binding site 323261007768 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 323261007769 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 323261007770 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 323261007771 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 323261007772 glycerol kinase; Provisional; Region: glpK; PRK00047 323261007773 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 323261007774 N- and C-terminal domain interface [polypeptide binding]; other site 323261007775 active site 323261007776 MgATP binding site [chemical binding]; other site 323261007777 catalytic site [active] 323261007778 metal binding site [ion binding]; metal-binding site 323261007779 glycerol binding site [chemical binding]; other site 323261007780 homotetramer interface [polypeptide binding]; other site 323261007781 homodimer interface [polypeptide binding]; other site 323261007782 FBP binding site [chemical binding]; other site 323261007783 protein IIAGlc interface [polypeptide binding]; other site 323261007784 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 323261007785 homoserine O-succinyltransferase; Provisional; Region: PRK05368 323261007786 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 323261007787 conserved cys residue [active] 323261007788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323261007789 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323261007790 Sel1-like repeats; Region: SEL1; smart00671 323261007791 Sel1-like repeats; Region: SEL1; smart00671 323261007792 Sel1-like repeats; Region: SEL1; smart00671 323261007793 Sel1-like repeats; Region: SEL1; smart00671 323261007794 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 323261007795 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 323261007796 Helicase; Region: Helicase_RecD; pfam05127 323261007797 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 323261007798 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 323261007799 aconitate hydratase; Validated; Region: PRK07229 323261007800 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 323261007801 substrate binding site [chemical binding]; other site 323261007802 ligand binding site [chemical binding]; other site 323261007803 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 323261007804 substrate binding site [chemical binding]; other site 323261007805 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 323261007806 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323261007807 Walker A motif; other site 323261007808 ATP binding site [chemical binding]; other site 323261007809 Domain of unknown function DUF87; Region: DUF87; pfam01935 323261007810 AAA-like domain; Region: AAA_10; pfam12846 323261007811 TRL-like protein family; Region: TRL; pfam13146 323261007812 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 323261007813 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 323261007814 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 323261007815 putative active site pocket [active] 323261007816 dimerization interface [polypeptide binding]; other site 323261007817 putative catalytic residue [active] 323261007818 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 323261007819 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 323261007820 homodimer interface [polypeptide binding]; other site 323261007821 substrate-cofactor binding pocket; other site 323261007822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261007823 catalytic residue [active] 323261007824 Predicted metalloprotease [General function prediction only]; Region: COG2321 323261007825 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 323261007826 propionate/acetate kinase; Provisional; Region: PRK12379 323261007827 Acetokinase family; Region: Acetate_kinase; cl17229 323261007828 putative phosphoketolase; Provisional; Region: PRK05261 323261007829 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 323261007830 TPP-binding site; other site 323261007831 XFP C-terminal domain; Region: XFP_C; pfam09363 323261007832 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 323261007833 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 323261007834 YcgL domain; Region: YcgL; pfam05166 323261007835 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 323261007836 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323261007837 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 323261007838 Paraquat-inducible protein A; Region: PqiA; pfam04403 323261007839 Paraquat-inducible protein A; Region: PqiA; pfam04403 323261007840 paraquat-inducible protein B; Provisional; Region: PRK10807 323261007841 mce related protein; Region: MCE; pfam02470 323261007842 mce related protein; Region: MCE; pfam02470 323261007843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 323261007844 Protein of unknown function (DUF330); Region: DUF330; pfam03886 323261007845 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 323261007846 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 323261007847 ApbE family; Region: ApbE; pfam02424 323261007848 methionine sulfoxide reductase B; Provisional; Region: PRK00222 323261007849 SelR domain; Region: SelR; pfam01641 323261007850 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 323261007851 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261007852 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261007853 ABC transporter; Region: ABC_tran_2; pfam12848 323261007854 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323261007855 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323261007856 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323261007857 putative dimer interface [polypeptide binding]; other site 323261007858 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323261007859 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323261007860 putative dimer interface [polypeptide binding]; other site 323261007861 Protein of unknown function DUF45; Region: DUF45; pfam01863 323261007862 Uncharacterized conserved protein [Function unknown]; Region: COG5316 323261007863 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 323261007864 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 323261007865 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 323261007866 Predicted transcriptional regulator [Transcription]; Region: COG2944 323261007867 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 323261007868 non-specific DNA binding site [nucleotide binding]; other site 323261007869 salt bridge; other site 323261007870 sequence-specific DNA binding site [nucleotide binding]; other site 323261007871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261007872 AAA domain; Region: AAA_21; pfam13304 323261007873 Walker A/P-loop; other site 323261007874 ATP binding site [chemical binding]; other site 323261007875 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 323261007876 HicB family; Region: HicB; pfam05534 323261007877 YcfA-like protein; Region: YcfA; cl00752 323261007878 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 323261007879 nudix motif; other site 323261007880 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 323261007881 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 323261007882 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 323261007883 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 323261007884 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 323261007885 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 323261007886 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 323261007887 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 323261007888 Interdomain contacts; other site 323261007889 Cytokine receptor motif; other site 323261007890 putative mercuric reductase; Provisional; Region: PRK14694 323261007891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323261007892 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323261007893 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 323261007894 putative transcriptional regulator MerR; Provisional; Region: PRK13752 323261007895 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 323261007896 DNA binding residues [nucleotide binding] 323261007897 dimer interface [polypeptide binding]; other site 323261007898 mercury binding site [ion binding]; other site 323261007899 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323261007900 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 323261007901 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 323261007902 non-specific DNA binding site [nucleotide binding]; other site 323261007903 salt bridge; other site 323261007904 sequence-specific DNA binding site [nucleotide binding]; other site 323261007905 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261007906 Tetratricopeptide repeat; Region: TPR_10; pfam13374 323261007907 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261007908 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 323261007909 binding surface 323261007910 TPR motif; other site 323261007911 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261007912 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 323261007913 binding surface 323261007914 TPR motif; other site 323261007915 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323261007916 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 323261007917 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323261007918 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 323261007919 active site 323261007920 metal binding site [ion binding]; metal-binding site 323261007921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 323261007922 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 323261007923 Probable transposase; Region: OrfB_IS605; pfam01385 323261007924 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261007925 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 323261007926 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 323261007927 peptide binding site [polypeptide binding]; other site 323261007928 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 323261007929 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 323261007930 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 323261007931 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 323261007932 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 323261007933 ABC-ATPase subunit interface; other site 323261007934 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 323261007935 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 323261007936 putative PBP binding loops; other site 323261007937 dimer interface [polypeptide binding]; other site 323261007938 ABC-ATPase subunit interface; other site 323261007939 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 323261007940 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323261007941 Walker A/P-loop; other site 323261007942 ATP binding site [chemical binding]; other site 323261007943 Q-loop/lid; other site 323261007944 ABC transporter signature motif; other site 323261007945 Walker B; other site 323261007946 D-loop; other site 323261007947 H-loop/switch region; other site 323261007948 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 323261007949 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323261007950 Walker A/P-loop; other site 323261007951 ATP binding site [chemical binding]; other site 323261007952 Q-loop/lid; other site 323261007953 ABC transporter signature motif; other site 323261007954 Walker B; other site 323261007955 D-loop; other site 323261007956 H-loop/switch region; other site 323261007957 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 323261007958 Predicted amidohydrolase [General function prediction only]; Region: COG0388 323261007959 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 323261007960 putative active site [active] 323261007961 catalytic triad [active] 323261007962 putative dimer interface [polypeptide binding]; other site 323261007963 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 323261007964 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323261007965 Di-iron ligands [ion binding]; other site 323261007966 Transposase; Region: DDE_Tnp_ISL3; pfam01610 323261007967 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 323261007968 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323261007969 putative NAD(P) binding site [chemical binding]; other site 323261007970 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 323261007971 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 323261007972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323261007973 homodimer interface [polypeptide binding]; other site 323261007974 catalytic residue [active] 323261007975 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 323261007976 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 323261007977 NAD binding site [chemical binding]; other site 323261007978 dimerization interface [polypeptide binding]; other site 323261007979 product binding site; other site 323261007980 substrate binding site [chemical binding]; other site 323261007981 zinc binding site [ion binding]; other site 323261007982 catalytic residues [active] 323261007983 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 323261007984 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 323261007985 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 323261007986 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 323261007987 hinge; other site 323261007988 active site 323261007989 BolA-like protein; Region: BolA; pfam01722 323261007990 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 323261007991 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 323261007992 anti sigma factor interaction site; other site 323261007993 regulatory phosphorylation site [posttranslational modification]; other site 323261007994 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 323261007995 mce related protein; Region: MCE; pfam02470 323261007996 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 323261007997 Permease; Region: Permease; cl00510 323261007998 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 323261007999 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 323261008000 Walker A/P-loop; other site 323261008001 ATP binding site [chemical binding]; other site 323261008002 Q-loop/lid; other site 323261008003 ABC transporter signature motif; other site 323261008004 Walker B; other site 323261008005 D-loop; other site 323261008006 H-loop/switch region; other site 323261008007 VacJ like lipoprotein; Region: VacJ; cl01073 323261008008 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 323261008009 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 323261008010 putative active site [active] 323261008011 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 323261008012 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 323261008013 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 323261008014 active site 323261008015 motif I; other site 323261008016 motif II; other site 323261008017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 323261008018 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 323261008019 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 323261008020 OstA-like protein; Region: OstA; pfam03968 323261008021 Bacterial SH3 domain; Region: SH3_3; pfam08239 323261008022 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 323261008023 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 323261008024 Walker A/P-loop; other site 323261008025 ATP binding site [chemical binding]; other site 323261008026 Q-loop/lid; other site 323261008027 ABC transporter signature motif; other site 323261008028 Walker B; other site 323261008029 D-loop; other site 323261008030 H-loop/switch region; other site 323261008031 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 323261008032 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 323261008033 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 323261008034 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 323261008035 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 323261008036 30S subunit binding site; other site 323261008037 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 323261008038 active site 323261008039 phosphorylation site [posttranslational modification] 323261008040 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 323261008041 Hpr binding site; other site 323261008042 active site 323261008043 homohexamer subunit interaction site [polypeptide binding]; other site 323261008044 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 323261008045 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 323261008046 active pocket/dimerization site; other site 323261008047 active site 323261008048 phosphorylation site [posttranslational modification] 323261008049 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 323261008050 dimerization domain swap beta strand [polypeptide binding]; other site 323261008051 regulatory protein interface [polypeptide binding]; other site 323261008052 active site 323261008053 regulatory phosphorylation site [posttranslational modification]; other site 323261008054 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 323261008055 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 323261008056 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323261008057 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323261008058 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323261008059 MgtE intracellular N domain; Region: MgtE_N; smart00924 323261008060 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 323261008061 Divalent cation transporter; Region: MgtE; cl00786 323261008062 malate dehydrogenase; Reviewed; Region: PRK06223 323261008063 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 323261008064 NAD(P) binding site [chemical binding]; other site 323261008065 dimer interface [polypeptide binding]; other site 323261008066 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323261008067 substrate binding site [chemical binding]; other site 323261008068 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 323261008069 MFS_1 like family; Region: MFS_1_like; pfam12832 323261008070 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 323261008071 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 323261008072 intersubunit interface [polypeptide binding]; other site 323261008073 active site 323261008074 zinc binding site [ion binding]; other site 323261008075 Na+ binding site [ion binding]; other site 323261008076 pyruvate kinase; Provisional; Region: PRK05826 323261008077 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 323261008078 domain interfaces; other site 323261008079 active site 323261008080 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 323261008081 Phosphoglycerate kinase; Region: PGK; pfam00162 323261008082 substrate binding site [chemical binding]; other site 323261008083 hinge regions; other site 323261008084 ADP binding site [chemical binding]; other site 323261008085 catalytic site [active] 323261008086 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 323261008087 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 323261008088 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 323261008089 transketolase; Reviewed; Region: PRK12753 323261008090 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 323261008091 TPP-binding site [chemical binding]; other site 323261008092 dimer interface [polypeptide binding]; other site 323261008093 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 323261008094 PYR/PP interface [polypeptide binding]; other site 323261008095 dimer interface [polypeptide binding]; other site 323261008096 TPP binding site [chemical binding]; other site 323261008097 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323261008098 dihydrodipicolinate reductase; Provisional; Region: PRK00048 323261008099 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 323261008100 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 323261008101 chaperone protein DnaJ; Provisional; Region: PRK10767 323261008102 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 323261008103 HSP70 interaction site [polypeptide binding]; other site 323261008104 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 323261008105 substrate binding site [polypeptide binding]; other site 323261008106 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 323261008107 Zn binding sites [ion binding]; other site 323261008108 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323261008109 dimer interface [polypeptide binding]; other site 323261008110 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 323261008111 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 323261008112 nucleotide binding site [chemical binding]; other site 323261008113 GrpE; Region: GrpE; pfam01025 323261008114 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 323261008115 dimer interface [polypeptide binding]; other site 323261008116 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 323261008117 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 323261008118 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 323261008119 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 323261008120 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 323261008121 active site 323261008122 catalytic site [active] 323261008123 substrate binding site [chemical binding]; other site 323261008124 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 323261008125 RNA/DNA hybrid binding site [nucleotide binding]; other site 323261008126 active site 323261008127 Methyltransferase domain; Region: Methyltransf_11; pfam08241 323261008128 Phospholipid methyltransferase; Region: PEMT; cl17370 323261008129 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 323261008130 S-adenosylmethionine binding site [chemical binding]; other site 323261008131 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323261008132 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323261008133 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 323261008134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323261008135 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 323261008136 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 323261008137 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 323261008138 heterodimer interface [polypeptide binding]; other site 323261008139 active site 323261008140 FMN binding site [chemical binding]; other site 323261008141 homodimer interface [polypeptide binding]; other site 323261008142 substrate binding site [chemical binding]; other site 323261008143 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 323261008144 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 323261008145 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 323261008146 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 323261008147 phosphoribulokinase; Provisional; Region: PRK15453 323261008148 active site 323261008149 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 323261008150 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 323261008151 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 323261008152 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 323261008153 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 323261008154 ThiC-associated domain; Region: ThiC-associated; pfam13667 323261008155 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 323261008156 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 323261008157 putative DNA-binding cleft [nucleotide binding]; other site 323261008158 putative DNA clevage site; other site 323261008159 molecular lever; other site 323261008160 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323261008161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261008162 Walker A/P-loop; other site 323261008163 ATP binding site [chemical binding]; other site 323261008164 Q-loop/lid; other site 323261008165 ABC transporter signature motif; other site 323261008166 Walker B; other site 323261008167 D-loop; other site 323261008168 H-loop/switch region; other site 323261008169 inner membrane transport permease; Provisional; Region: PRK15066 323261008170 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323261008171 Bacitracin resistance protein BacA; Region: BacA; pfam02673 323261008172 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 323261008173 23S rRNA interface [nucleotide binding]; other site 323261008174 L3 interface [polypeptide binding]; other site 323261008175 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 323261008176 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 323261008177 putative FMN binding site [chemical binding]; other site 323261008178 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 323261008179 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 323261008180 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 323261008181 Ligand binding site; other site 323261008182 oligomer interface; other site 323261008183 Low molecular weight phosphatase family; Region: LMWPc; cd00115 323261008184 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 323261008185 active site 323261008186 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 323261008187 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 323261008188 homodimer interface [polypeptide binding]; other site 323261008189 oligonucleotide binding site [chemical binding]; other site 323261008190 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 323261008191 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 323261008192 RNA binding surface [nucleotide binding]; other site 323261008193 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323261008194 active site 323261008195 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323261008196 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 323261008197 tandem repeat interface [polypeptide binding]; other site 323261008198 oligomer interface [polypeptide binding]; other site 323261008199 active site residues [active] 323261008200 6-phosphofructokinase; Provisional; Region: PRK14072 323261008201 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 323261008202 active site 323261008203 ADP/pyrophosphate binding site [chemical binding]; other site 323261008204 dimerization interface [polypeptide binding]; other site 323261008205 allosteric effector site; other site 323261008206 fructose-1,6-bisphosphate binding site; other site 323261008207 adenylate kinase; Reviewed; Region: adk; PRK00279 323261008208 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 323261008209 AMP-binding site [chemical binding]; other site 323261008210 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 323261008211 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323261008212 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 323261008213 substrate binding site [chemical binding]; other site 323261008214 ATP binding site [chemical binding]; other site 323261008215 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 323261008216 iron-sulfur cluster [ion binding]; other site 323261008217 [2Fe-2S] cluster binding site [ion binding]; other site 323261008218 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 323261008219 heterotetramer interface [polypeptide binding]; other site 323261008220 active site pocket [active] 323261008221 cleavage site 323261008222 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 323261008223 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 323261008224 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; cl17351 323261008225 nucleotide binding region [chemical binding]; other site 323261008226 ATP-binding site [chemical binding]; other site 323261008227 SEC-C motif; Region: SEC-C; pfam02810 323261008228 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323261008229 Peptidase family M23; Region: Peptidase_M23; pfam01551 323261008230 Protein of unknown function (DUF721); Region: DUF721; pfam05258 323261008231 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 323261008232 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 323261008233 cell division protein FtsZ; Validated; Region: PRK09330 323261008234 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 323261008235 nucleotide binding site [chemical binding]; other site 323261008236 SulA interaction site; other site 323261008237 cell division protein FtsA; Region: ftsA; TIGR01174 323261008238 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 323261008239 nucleotide binding site [chemical binding]; other site 323261008240 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 323261008241 Cell division protein FtsA; Region: FtsA; pfam14450 323261008242 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 323261008243 Cell division protein FtsQ; Region: FtsQ; pfam03799 323261008244 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 323261008245 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 323261008246 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323261008247 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 323261008248 FAD binding domain; Region: FAD_binding_4; pfam01565 323261008249 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 323261008250 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 323261008251 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323261008252 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323261008253 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323261008254 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 323261008255 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 323261008256 active site 323261008257 homodimer interface [polypeptide binding]; other site 323261008258 cell division protein FtsW; Region: ftsW; TIGR02614 323261008259 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 323261008260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323261008261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323261008262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323261008263 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 323261008264 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 323261008265 Mg++ binding site [ion binding]; other site 323261008266 putative catalytic motif [active] 323261008267 putative substrate binding site [chemical binding]; other site 323261008268 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 323261008269 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323261008270 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323261008271 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323261008272 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 323261008273 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323261008274 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323261008275 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323261008276 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 323261008277 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 323261008278 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 323261008279 Cell division protein FtsL; Region: FtsL; pfam04999 323261008280 MraW methylase family; Region: Methyltransf_5; cl17771 323261008281 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 323261008282 cell division protein MraZ; Reviewed; Region: PRK00326 323261008283 MraZ protein; Region: MraZ; pfam02381 323261008284 MraZ protein; Region: MraZ; pfam02381 323261008285 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 323261008286 Cation efflux family; Region: Cation_efflux; cl00316 323261008287 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323261008288 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323261008289 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261008290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261008291 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261008292 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261008293 DNA-binding interface [nucleotide binding]; DNA binding site 323261008294 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 323261008295 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 323261008296 G1 box; other site 323261008297 GTP/Mg2+ binding site [chemical binding]; other site 323261008298 G2 box; other site 323261008299 Switch I region; other site 323261008300 G3 box; other site 323261008301 Switch II region; other site 323261008302 G4 box; other site 323261008303 G5 box; other site 323261008304 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 323261008305 UreF; Region: UreF; pfam01730 323261008306 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 323261008307 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 323261008308 dimer interface [polypeptide binding]; other site 323261008309 catalytic residues [active] 323261008310 urease subunit alpha; Reviewed; Region: ureC; PRK13207 323261008311 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 323261008312 subunit interactions [polypeptide binding]; other site 323261008313 active site 323261008314 flap region; other site 323261008315 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 323261008316 gamma-beta subunit interface [polypeptide binding]; other site 323261008317 alpha-beta subunit interface [polypeptide binding]; other site 323261008318 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 323261008319 alpha-gamma subunit interface [polypeptide binding]; other site 323261008320 beta-gamma subunit interface [polypeptide binding]; other site 323261008321 UreD urease accessory protein; Region: UreD; pfam01774 323261008322 urea transporter, Yersinia type; Region: urea_trans_yut; TIGR03441 323261008323 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 323261008324 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 323261008325 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323261008326 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 323261008327 putative ADP-binding pocket [chemical binding]; other site 323261008328 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 323261008329 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323261008330 Type II transport protein GspH; Region: GspH; pfam12019 323261008331 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 323261008332 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323261008333 type II secretion system protein F; Region: GspF; TIGR02120 323261008334 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323261008335 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323261008336 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 323261008337 type II secretion system protein E; Region: type_II_gspE; TIGR02533 323261008338 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 323261008339 Walker A motif; other site 323261008340 ATP binding site [chemical binding]; other site 323261008341 Walker B motif; other site 323261008342 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 323261008343 ribonuclease R; Region: RNase_R; TIGR02063 323261008344 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 323261008345 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 323261008346 RNB domain; Region: RNB; pfam00773 323261008347 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 323261008348 RNA binding site [nucleotide binding]; other site 323261008349 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323261008350 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323261008351 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323261008352 Cu(I) binding site [ion binding]; other site 323261008353 Probable transposase; Region: OrfB_IS605; pfam01385 323261008354 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 323261008355 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 323261008356 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 323261008357 HsdM N-terminal domain; Region: HsdM_N; pfam12161 323261008358 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323261008359 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261008360 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 323261008361 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261008362 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 323261008363 RES domain; Region: RES; smart00953 323261008364 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 323261008365 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 323261008366 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 323261008367 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 323261008368 ATP binding site [chemical binding]; other site 323261008369 putative Mg++ binding site [ion binding]; other site 323261008370 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 323261008371 Protein of unknown function DUF45; Region: DUF45; pfam01863 323261008372 Uncharacterized subfamily of glycoside hydrolase family 57 (GH57); Region: GH57N_like_1; cd10798 323261008373 active site 323261008374 catalytic site [active] 323261008375 multidrug efflux protein; Reviewed; Region: PRK09579 323261008376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 323261008377 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u9; cd10933 323261008378 putative active site [active] 323261008379 putative catalytic site [active] 323261008380 Protein of unknown function (DUF779); Region: DUF779; pfam05610 323261008381 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 323261008382 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323261008383 NAD(P) binding site [chemical binding]; other site 323261008384 catalytic residues [active] 323261008385 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 323261008386 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 323261008387 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 323261008388 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 323261008389 ring oligomerisation interface [polypeptide binding]; other site 323261008390 ATP/Mg binding site [chemical binding]; other site 323261008391 stacking interactions; other site 323261008392 hinge regions; other site 323261008393 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 323261008394 oligomerisation interface [polypeptide binding]; other site 323261008395 mobile loop; other site 323261008396 roof hairpin; other site 323261008397 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 323261008398 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 323261008399 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323261008400 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 323261008401 S-adenosylmethionine binding site [chemical binding]; other site 323261008402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 323261008403 Restriction endonuclease [Defense mechanisms]; Region: COG3587 323261008404 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 323261008405 ATP binding site [chemical binding]; other site 323261008406 putative Mg++ binding site [ion binding]; other site 323261008407 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 323261008408 DNA methylase; Region: N6_N4_Mtase; pfam01555 323261008409 DNA methylase; Region: N6_N4_Mtase; cl17433 323261008410 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 323261008411 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 323261008412 non-specific DNA binding site [nucleotide binding]; other site 323261008413 salt bridge; other site 323261008414 sequence-specific DNA binding site [nucleotide binding]; other site 323261008415 HipA N-terminal domain; Region: Couple_hipA; cl11853 323261008416 HipA-like N-terminal domain; Region: HipA_N; pfam07805 323261008417 HipA-like C-terminal domain; Region: HipA_C; pfam07804 323261008418 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 323261008419 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 323261008420 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 323261008421 HemK family putative methylases; Region: hemK_fam; TIGR00536 323261008422 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 323261008423 S-adenosylmethionine binding site [chemical binding]; other site 323261008424 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 323261008425 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 323261008426 substrate binding site [chemical binding]; other site 323261008427 ligand binding site [chemical binding]; other site 323261008428 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323261008429 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323261008430 HlyD family secretion protein; Region: HlyD_3; pfam13437 323261008431 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 323261008432 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 323261008433 Tetramer interface [polypeptide binding]; other site 323261008434 active site 323261008435 FMN-binding site [chemical binding]; other site 323261008436 Protein of unknown function (DUF497); Region: DUF497; pfam04365 323261008437 Ceramidase; Region: Ceramidase; pfam05875 323261008438 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 323261008439 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 323261008440 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 323261008441 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 323261008442 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 323261008443 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 323261008444 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 323261008445 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323261008446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261008447 Walker A/P-loop; other site 323261008448 ATP binding site [chemical binding]; other site 323261008449 Q-loop/lid; other site 323261008450 ABC transporter signature motif; other site 323261008451 Walker B; other site 323261008452 D-loop; other site 323261008453 H-loop/switch region; other site 323261008454 universal stress protein UspE; Provisional; Region: PRK11175 323261008455 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261008456 Ligand Binding Site [chemical binding]; other site 323261008457 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 323261008458 Ligand Binding Site [chemical binding]; other site 323261008459 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 323261008460 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323261008461 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 323261008462 TrkA-N domain; Region: TrkA_N; pfam02254 323261008463 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 323261008464 SnoaL-like domain; Region: SnoaL_3; pfam13474 323261008465 hypothetical protein; Provisional; Region: PRK02237 323261008466 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 323261008467 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 323261008468 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323261008469 active site 323261008470 FMN binding site [chemical binding]; other site 323261008471 substrate binding site [chemical binding]; other site 323261008472 3Fe-4S cluster binding site [ion binding]; other site 323261008473 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 323261008474 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 323261008475 FMN binding site [chemical binding]; other site 323261008476 active site 323261008477 catalytic residues [active] 323261008478 substrate binding site [chemical binding]; other site 323261008479 Protein of unknown function (DUF421); Region: DUF421; pfam04239 323261008480 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 323261008481 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 323261008482 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 323261008483 Walker A motif; other site 323261008484 ATP binding site [chemical binding]; other site 323261008485 Walker B motif; other site 323261008486 arginine finger; other site 323261008487 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323261008488 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 323261008489 IHF - DNA interface [nucleotide binding]; other site 323261008490 IHF dimer interface [polypeptide binding]; other site 323261008491 Predicted transcriptional regulator [Transcription]; Region: COG1959 323261008492 Transcriptional regulator; Region: Rrf2; cl17282 323261008493 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323261008494 Cu(I) binding site [ion binding]; other site 323261008495 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323261008496 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323261008497 Putative water exit pathway; other site 323261008498 Binuclear center (active site) [active] 323261008499 K-pathway; other site 323261008500 Putative proton exit pathway; other site 323261008501 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323261008502 Predicted membrane protein [Function unknown]; Region: COG2259 323261008503 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 323261008504 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 323261008505 Walker A motif; other site 323261008506 ATP binding site [chemical binding]; other site 323261008507 Walker B motif; other site 323261008508 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 323261008509 RxxxH motif; other site 323261008510 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 323261008511 anti sigma factor interaction site; other site 323261008512 regulatory phosphorylation site [posttranslational modification]; other site 323261008513 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 323261008514 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 323261008515 Mg2+ binding site [ion binding]; other site 323261008516 G-X-G motif; other site 323261008517 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 323261008518 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 323261008519 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 323261008520 PAS domain; Region: PAS_9; pfam13426 323261008521 putative active site [active] 323261008522 heme pocket [chemical binding]; other site 323261008523 PAS domain S-box; Region: sensory_box; TIGR00229 323261008524 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 323261008525 putative active site [active] 323261008526 heme pocket [chemical binding]; other site 323261008527 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 323261008528 PAS domain; Region: PAS_9; pfam13426 323261008529 putative active site [active] 323261008530 heme pocket [chemical binding]; other site 323261008531 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 323261008532 putative active site [active] 323261008533 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 323261008534 heme pocket [chemical binding]; other site 323261008535 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 323261008536 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 323261008537 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 323261008538 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 323261008539 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 323261008540 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 323261008541 tyrosine decarboxylase; Region: PLN02880 323261008542 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 323261008543 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323261008544 catalytic residue [active] 323261008545 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 323261008546 PAS domain; Region: PAS_9; pfam13426 323261008547 putative active site [active] 323261008548 heme pocket [chemical binding]; other site 323261008549 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 323261008550 putative hydrophobic ligand binding site [chemical binding]; other site 323261008551 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 323261008552 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323261008553 catalytic residue [active] 323261008554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261008555 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 323261008556 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261008557 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 323261008558 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 323261008559 putative metal binding site [ion binding]; other site 323261008560 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 323261008561 HSP70 interaction site [polypeptide binding]; other site 323261008562 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323261008563 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323261008564 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 323261008565 Flavoprotein; Region: Flavoprotein; pfam02441 323261008566 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 323261008567 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323261008568 trimer interface [polypeptide binding]; other site 323261008569 active site 323261008570 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 323261008571 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 323261008572 active site 323261008573 substrate binding site [chemical binding]; other site 323261008574 metal binding site [ion binding]; metal-binding site 323261008575 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 323261008576 feedback inhibition sensing region; other site 323261008577 homohexameric interface [polypeptide binding]; other site 323261008578 nucleotide binding site [chemical binding]; other site 323261008579 N-acetyl-L-glutamate binding site [chemical binding]; other site 323261008580 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323261008581 hypothetical protein; Provisional; Region: PRK10621 323261008582 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323261008583 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323261008584 active site 323261008585 muropeptide transporter; Reviewed; Region: ampG; PRK11902 323261008586 muropeptide transporter; Validated; Region: ampG; cl17669 323261008587 hypothetical protein; Validated; Region: PRK05090 323261008588 YGGT family; Region: YGGT; pfam02325 323261008589 YGGT family; Region: YGGT; pfam02325 323261008590 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 323261008591 pyrroline-5-carboxylate reductase; Region: PLN02688 323261008592 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 323261008593 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323261008594 catalytic residue [active] 323261008595 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 323261008596 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 323261008597 Walker A motif; other site 323261008598 ATP binding site [chemical binding]; other site 323261008599 Walker B motif; other site 323261008600 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 323261008601 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 323261008602 substrate binding site [chemical binding]; other site 323261008603 active site 323261008604 AIR carboxylase; Region: AIRC; pfam00731 323261008605 DNA topoisomerase I; Provisional; Region: PRK08780 323261008606 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 323261008607 active site 323261008608 interdomain interaction site; other site 323261008609 putative metal-binding site [ion binding]; other site 323261008610 nucleotide binding site [chemical binding]; other site 323261008611 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 323261008612 domain I; other site 323261008613 DNA binding groove [nucleotide binding] 323261008614 phosphate binding site [ion binding]; other site 323261008615 domain II; other site 323261008616 domain III; other site 323261008617 nucleotide binding site [chemical binding]; other site 323261008618 catalytic site [active] 323261008619 domain IV; other site 323261008620 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 323261008621 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 323261008622 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 323261008623 Protein of unknown function (DUF494); Region: DUF494; pfam04361 323261008624 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 323261008625 DNA protecting protein DprA; Region: dprA; TIGR00732 323261008626 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323261008627 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 323261008628 active site 323261008629 catalytic residues [active] 323261008630 metal binding site [ion binding]; metal-binding site 323261008631 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 323261008632 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 323261008633 putative active site [active] 323261008634 substrate binding site [chemical binding]; other site 323261008635 putative cosubstrate binding site; other site 323261008636 catalytic site [active] 323261008637 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 323261008638 substrate binding site [chemical binding]; other site 323261008639 16S rRNA methyltransferase B; Provisional; Region: PRK10901 323261008640 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 323261008641 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 323261008642 S-adenosylmethionine binding site [chemical binding]; other site 323261008643 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 323261008644 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 323261008645 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 323261008646 dimerization interface [polypeptide binding]; other site 323261008647 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 323261008648 dimer interface [polypeptide binding]; other site 323261008649 phosphorylation site [posttranslational modification] 323261008650 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 323261008651 ATP binding site [chemical binding]; other site 323261008652 Mg2+ binding site [ion binding]; other site 323261008653 G-X-G motif; other site 323261008654 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323261008655 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 323261008656 active site 323261008657 phosphorylation site [posttranslational modification] 323261008658 intermolecular recognition site; other site 323261008659 dimerization interface [polypeptide binding]; other site 323261008660 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 323261008661 Walker A motif; other site 323261008662 ATP binding site [chemical binding]; other site 323261008663 Walker B motif; other site 323261008664 arginine finger; other site 323261008665 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323261008666 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 323261008667 TrkA-N domain; Region: TrkA_N; pfam02254 323261008668 TrkA-C domain; Region: TrkA_C; pfam02080 323261008669 TrkA-N domain; Region: TrkA_N; pfam02254 323261008670 TrkA-C domain; Region: TrkA_C; pfam02080 323261008671 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 323261008672 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323261008673 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323261008674 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 323261008675 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 323261008676 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323261008677 putative substrate translocation pore; other site 323261008678 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 323261008679 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 323261008680 dimer interface [polypeptide binding]; other site 323261008681 ssDNA binding site [nucleotide binding]; other site 323261008682 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323261008683 Transposase; Region: HTH_Tnp_IS630; pfam01710 323261008684 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323261008685 DNA-binding interface [nucleotide binding]; DNA binding site 323261008686 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323261008687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323261008688 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 323261008689 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 323261008690 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 323261008691 ATP binding site [chemical binding]; other site 323261008692 putative Mg++ binding site [ion binding]; other site 323261008693 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; cl17351 323261008694 nucleotide binding region [chemical binding]; other site 323261008695 ATP-binding site [chemical binding]; other site 323261008696 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261008697 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 323261008698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323261008699 Walker A/P-loop; other site 323261008700 ATP binding site [chemical binding]; other site 323261008701 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323261008702 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323261008703 substrate binding pocket [chemical binding]; other site 323261008704 chain length determination region; other site 323261008705 substrate-Mg2+ binding site; other site 323261008706 catalytic residues [active] 323261008707 aspartate-rich region 1; other site 323261008708 active site lid residues [active] 323261008709 aspartate-rich region 2; other site 323261008710 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 323261008711 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 323261008712 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 323261008713 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 323261008714 GTP1/OBG; Region: GTP1_OBG; pfam01018 323261008715 Obg GTPase; Region: Obg; cd01898 323261008716 G1 box; other site 323261008717 GTP/Mg2+ binding site [chemical binding]; other site 323261008718 Switch I region; other site 323261008719 G2 box; other site 323261008720 G3 box; other site 323261008721 Switch II region; other site 323261008722 G4 box; other site 323261008723 G5 box; other site 323261008724 gamma-glutamyl kinase; Provisional; Region: PRK05429 323261008725 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 323261008726 nucleotide binding site [chemical binding]; other site 323261008727 homotetrameric interface [polypeptide binding]; other site 323261008728 putative phosphate binding site [ion binding]; other site 323261008729 putative allosteric binding site; other site 323261008730 PUA domain; Region: PUA; pfam01472 323261008731 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 323261008732 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 323261008733 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 323261008734 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 323261008735 UbiA prenyltransferase family; Region: UbiA; pfam01040 323261008736 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 323261008737 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 323261008738 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323261008739 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 323261008740 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 323261008741 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 323261008742 Subunit III/VIIa interface [polypeptide binding]; other site 323261008743 Phospholipid binding site [chemical binding]; other site 323261008744 Subunit I/III interface [polypeptide binding]; other site 323261008745 Subunit III/VIb interface [polypeptide binding]; other site 323261008746 Subunit III/VIa interface; other site 323261008747 Subunit III/Vb interface [polypeptide binding]; other site 323261008748 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 323261008749 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323261008750 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323261008751 Subunit I/III interface [polypeptide binding]; other site 323261008752 D-pathway; other site 323261008753 Subunit I/VIIc interface [polypeptide binding]; other site 323261008754 Subunit I/IV interface [polypeptide binding]; other site 323261008755 Subunit I/II interface [polypeptide binding]; other site 323261008756 Low-spin heme (heme a) binding site [chemical binding]; other site 323261008757 Subunit I/VIIa interface [polypeptide binding]; other site 323261008758 Subunit I/VIa interface [polypeptide binding]; other site 323261008759 Dimer interface; other site 323261008760 Putative water exit pathway; other site 323261008761 Binuclear center (heme a3/CuB) [ion binding]; other site 323261008762 K-pathway; other site 323261008763 Subunit I/Vb interface [polypeptide binding]; other site 323261008764 Putative proton exit pathway; other site 323261008765 Subunit I/VIb interface; other site 323261008766 Subunit I/VIc interface [polypeptide binding]; other site 323261008767 Electron transfer pathway; other site 323261008768 Subunit I/VIIIb interface [polypeptide binding]; other site 323261008769 Subunit I/VIIb interface [polypeptide binding]; other site 323261008770 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 323261008771 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 323261008772 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323261008773 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 323261008774 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323261008775 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323261008776 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 323261008777 putative active site pocket [active] 323261008778 4-fold oligomerization interface [polypeptide binding]; other site 323261008779 metal binding residues [ion binding]; metal-binding site 323261008780 3-fold/trimer interface [polypeptide binding]; other site 323261008781 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 323261008782 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 323261008783 putative active site [active] 323261008784 oxyanion strand; other site 323261008785 catalytic triad [active] 323261008786 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 323261008787 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 323261008788 catalytic residues [active] 323261008789 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 323261008790 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 323261008791 substrate binding site [chemical binding]; other site 323261008792 glutamase interaction surface [polypeptide binding]; other site 323261008793 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 323261008794 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 323261008795 metal binding site [ion binding]; metal-binding site 323261008796 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 323261008797 nucleotide binding site/active site [active] 323261008798 HIT family signature motif; other site 323261008799 catalytic residue [active] 323261008800 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 323261008801 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 323261008802 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 323261008803 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 323261008804 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323261008805 amino acid transporter; Region: 2A0306; TIGR00909 323261008806 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 323261008807 putative cation:proton antiport protein; Provisional; Region: PRK10669 323261008808 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 323261008809 TrkA-N domain; Region: TrkA_N; pfam02254 323261008810 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 323261008811 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 323261008812 P-loop; other site 323261008813 sucrose synthase; Region: sucr_synth; TIGR02470 323261008814 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 323261008815 putative ADP-binding pocket [chemical binding]; other site 323261008816 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 323261008817 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 323261008818 putative ADP-binding pocket [chemical binding]; other site 323261008819 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 323261008820 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 323261008821 active site 323261008822 motif I; other site 323261008823 motif II; other site 323261008824 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323261008825 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 323261008826 putative substrate binding site [chemical binding]; other site 323261008827 putative ATP binding site [chemical binding]; other site 323261008828 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 323261008829 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 323261008830 glutaminase active site [active] 323261008831 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 323261008832 dimer interface [polypeptide binding]; other site 323261008833 active site 323261008834 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 323261008835 dimer interface [polypeptide binding]; other site 323261008836 active site 323261008837 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 323261008838 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 323261008839 Substrate binding site; other site 323261008840 Mg++ binding site; other site 323261008841 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 323261008842 active site 323261008843 substrate binding site [chemical binding]; other site 323261008844 CoA binding site [chemical binding]; other site 323261008845 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 323261008846 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 323261008847 gamma subunit interface [polypeptide binding]; other site 323261008848 epsilon subunit interface [polypeptide binding]; other site 323261008849 LBP interface [polypeptide binding]; other site 323261008850 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 323261008851 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323261008852 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 323261008853 alpha subunit interaction interface [polypeptide binding]; other site 323261008854 Walker A motif; other site 323261008855 ATP binding site [chemical binding]; other site 323261008856 Walker B motif; other site 323261008857 inhibitor binding site; inhibition site 323261008858 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323261008859 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 323261008860 core domain interface [polypeptide binding]; other site 323261008861 delta subunit interface [polypeptide binding]; other site 323261008862 epsilon subunit interface [polypeptide binding]; other site 323261008863 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 323261008864 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323261008865 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 323261008866 beta subunit interaction interface [polypeptide binding]; other site 323261008867 Walker A motif; other site 323261008868 ATP binding site [chemical binding]; other site 323261008869 Walker B motif; other site 323261008870 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323261008871 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 323261008872 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 323261008873 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 323261008874 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 323261008875 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 323261008876 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 323261008877 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 323261008878 ATP synthase I chain; Region: ATP_synt_I; cl09170 323261008879 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 323261008880 ParB-like nuclease domain; Region: ParB; smart00470 323261008881 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323261008882 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 323261008883 P-loop; other site 323261008884 Magnesium ion binding site [ion binding]; other site 323261008885 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 323261008886 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 323261008887 S-adenosylmethionine binding site [chemical binding]; other site 323261008888 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 323261008889 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 323261008890 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 323261008891 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 323261008892 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 323261008893 trmE is a tRNA modification GTPase; Region: trmE; cd04164 323261008894 G1 box; other site 323261008895 GTP/Mg2+ binding site [chemical binding]; other site 323261008896 Switch I region; other site 323261008897 G2 box; other site 323261008898 Switch II region; other site 323261008899 G3 box; other site 323261008900 G4 box; other site 323261008901 G5 box; other site 323261008902 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 323261008903 membrane protein insertase; Provisional; Region: PRK01318 323261008904 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 323261008905 Ribonuclease P; Region: Ribonuclease_P; cl00457 323261008906 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399