-- dump date 20140619_164358 -- class Genbank::misc_feature -- table misc_feature_note -- id note 105559000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 105559000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 105559000003 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 105559000004 Walker A motif; other site 105559000005 ATP binding site [chemical binding]; other site 105559000006 Walker B motif; other site 105559000007 arginine finger; other site 105559000008 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 105559000009 DnaA box-binding interface [nucleotide binding]; other site 105559000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 105559000011 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 105559000012 putative DNA binding surface [nucleotide binding]; other site 105559000013 dimer interface [polypeptide binding]; other site 105559000014 beta-clamp/clamp loader binding surface; other site 105559000015 beta-clamp/translesion DNA polymerase binding surface; other site 105559000016 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559000017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559000018 Winged helix-turn helix; Region: HTH_29; pfam13551 105559000019 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 105559000020 recombination protein F; Reviewed; Region: recF; PRK00064 105559000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559000022 Walker A/P-loop; other site 105559000023 ATP binding site [chemical binding]; other site 105559000024 Q-loop/lid; other site 105559000025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559000026 ABC transporter signature motif; other site 105559000027 Walker B; other site 105559000028 D-loop; other site 105559000029 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 105559000030 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 105559000031 ATP binding site [chemical binding]; other site 105559000032 Mg2+ binding site [ion binding]; other site 105559000033 G-X-G motif; other site 105559000034 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 105559000035 anchoring element; other site 105559000036 dimer interface [polypeptide binding]; other site 105559000037 ATP binding site [chemical binding]; other site 105559000038 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 105559000039 active site 105559000040 putative metal-binding site [ion binding]; other site 105559000041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 105559000042 hypothetical protein; Provisional; Region: PRK02227 105559000043 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 105559000044 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 105559000045 putative C-terminal domain interface [polypeptide binding]; other site 105559000046 putative GSH binding site (G-site) [chemical binding]; other site 105559000047 putative dimer interface [polypeptide binding]; other site 105559000048 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 105559000049 N-terminal domain interface [polypeptide binding]; other site 105559000050 dimer interface [polypeptide binding]; other site 105559000051 substrate binding pocket (H-site) [chemical binding]; other site 105559000052 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 105559000053 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 105559000054 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 105559000055 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 105559000056 AMP binding site [chemical binding]; other site 105559000057 metal binding site [ion binding]; metal-binding site 105559000058 active site 105559000059 formylmethanofuran dehydrogenase subunit C; Region: one_C_dehyd_C; TIGR03122 105559000060 domain_subunit interface; other site 105559000061 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 105559000062 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 105559000063 FTR, proximal lobe; Region: FTR_C; pfam02741 105559000064 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 105559000065 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 105559000066 active site 105559000067 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 105559000068 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 105559000069 putative [4Fe-4S] binding site [ion binding]; other site 105559000070 putative molybdopterin cofactor binding site [chemical binding]; other site 105559000071 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 105559000072 Sporulation related domain; Region: SPOR; pfam05036 105559000073 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 105559000074 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 105559000075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559000076 active site 105559000077 HIGH motif; other site 105559000078 nucleotide binding site [chemical binding]; other site 105559000079 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 105559000080 KMSK motif region; other site 105559000081 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 105559000082 tRNA binding surface [nucleotide binding]; other site 105559000083 anticodon binding site; other site 105559000084 primosome assembly protein PriA; Validated; Region: PRK05580 105559000085 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 105559000086 ATP binding site [chemical binding]; other site 105559000087 putative Mg++ binding site [ion binding]; other site 105559000088 helicase superfamily c-terminal domain; Region: HELICc; smart00490 105559000089 DJ-1 family protein; Region: not_thiJ; TIGR01383 105559000090 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 105559000091 conserved cys residue [active] 105559000092 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 105559000093 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 105559000094 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 105559000095 protein binding site [polypeptide binding]; other site 105559000096 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 105559000097 Catalytic dyad [active] 105559000098 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 105559000099 phosphoglyceromutase; Provisional; Region: PRK05434 105559000100 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 105559000101 active site residue [active] 105559000102 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 105559000103 GSH binding site [chemical binding]; other site 105559000104 catalytic residues [active] 105559000105 preprotein translocase subunit SecB; Validated; Region: PRK05751 105559000106 SecA binding site; other site 105559000107 Preprotein binding site; other site 105559000108 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 105559000109 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 105559000110 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 105559000111 Uncharacterized conserved protein [Function unknown]; Region: COG1565 105559000112 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 105559000113 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 105559000114 catalytic center binding site [active] 105559000115 ATP binding site [chemical binding]; other site 105559000116 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 105559000117 homooctamer interface [polypeptide binding]; other site 105559000118 active site 105559000119 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 105559000120 UGMP family protein; Validated; Region: PRK09604 105559000121 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 105559000122 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 105559000123 Yqey-like protein; Region: YqeY; pfam09424 105559000124 DNA primase; Validated; Region: dnaG; PRK05667 105559000125 CHC2 zinc finger; Region: zf-CHC2; pfam01807 105559000126 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 105559000127 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 105559000128 active site 105559000129 metal binding site [ion binding]; metal-binding site 105559000130 interdomain interaction site; other site 105559000131 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 105559000132 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 105559000133 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 105559000134 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 105559000135 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559000136 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 105559000137 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559000138 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559000139 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 105559000140 DNA binding residues [nucleotide binding] 105559000141 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 105559000142 four helix bundle protein; Region: TIGR02436 105559000143 DNA methylase; Region: N6_N4_Mtase; cl17433 105559000144 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 105559000145 DNA methylase; Region: N6_N4_Mtase; cl17433 105559000146 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 105559000147 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 105559000148 ATP binding site [chemical binding]; other site 105559000149 Mg2+ binding site [ion binding]; other site 105559000150 G-X-G motif; other site 105559000151 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 105559000152 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 105559000153 putative active site [active] 105559000154 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 105559000155 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 105559000156 ATP binding site [chemical binding]; other site 105559000157 putative Mg++ binding site [ion binding]; other site 105559000158 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 105559000159 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 105559000160 nucleotide binding region [chemical binding]; other site 105559000161 ATP-binding site [chemical binding]; other site 105559000162 PglZ domain; Region: PglZ; pfam08665 105559000163 Replication initiator protein A; Region: RPA; cl17860 105559000164 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 105559000165 gating phenylalanine in ion channel; other site 105559000166 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 105559000167 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 105559000168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559000169 ABC transporter signature motif; other site 105559000170 Walker B; other site 105559000171 D-loop; other site 105559000172 H-loop/switch region; other site 105559000173 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 105559000174 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 105559000175 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 105559000176 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 105559000177 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 105559000178 active site 105559000179 DNA binding site [nucleotide binding] 105559000180 integron integrase; Region: integrase_gron; TIGR02249 105559000181 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 105559000182 Int/Topo IB signature motif; other site 105559000183 Putative addiction module component; Region: Unstab_antitox; cl09921 105559000184 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 105559000185 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 105559000186 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 105559000187 FAD binding domain; Region: FAD_binding_3; pfam01494 105559000188 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 105559000189 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559000190 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 105559000191 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 105559000192 non-specific DNA binding site [nucleotide binding]; other site 105559000193 salt bridge; other site 105559000194 sequence-specific DNA binding site [nucleotide binding]; other site 105559000195 YcfA-like protein; Region: YcfA; pfam07927 105559000196 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559000197 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 105559000198 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 105559000199 putative dimer interface [polypeptide binding]; other site 105559000200 ligand binding site [chemical binding]; other site 105559000201 Zn binding site [ion binding]; other site 105559000202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 105559000203 glycogen synthase; Provisional; Region: glgA; PRK00654 105559000204 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 105559000205 ADP-binding pocket [chemical binding]; other site 105559000206 homodimer interface [polypeptide binding]; other site 105559000207 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 105559000208 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 105559000209 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 105559000210 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 105559000211 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 105559000212 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 105559000213 NADH(P)-binding; Region: NAD_binding_10; pfam13460 105559000214 putative NAD(P) binding site [chemical binding]; other site 105559000215 active site 105559000216 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 105559000217 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559000218 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 105559000219 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 105559000220 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 105559000221 TPP-binding site [chemical binding]; other site 105559000222 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 105559000223 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 105559000224 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 105559000225 E3 interaction surface; other site 105559000226 lipoyl attachment site [posttranslational modification]; other site 105559000227 e3 binding domain; Region: E3_binding; pfam02817 105559000228 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 105559000229 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 105559000230 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 105559000231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559000232 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 105559000233 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 105559000234 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 105559000235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559000236 Walker A/P-loop; other site 105559000237 ATP binding site [chemical binding]; other site 105559000238 Q-loop/lid; other site 105559000239 ABC transporter signature motif; other site 105559000240 Walker B; other site 105559000241 D-loop; other site 105559000242 H-loop/switch region; other site 105559000243 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 105559000244 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559000245 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 105559000246 Transporter associated domain; Region: CorC_HlyC; smart01091 105559000247 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559000248 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 105559000249 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 105559000250 Transporter associated domain; Region: CorC_HlyC; smart01091 105559000251 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 105559000252 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 105559000253 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559000254 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559000255 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 105559000256 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 105559000257 putative substrate translocation pore; other site 105559000258 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 105559000259 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 105559000260 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 105559000261 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 105559000262 inhibitor-cofactor binding pocket; inhibition site 105559000263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559000264 catalytic residue [active] 105559000265 RNA methyltransferase, RsmE family; Region: TIGR00046 105559000266 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 105559000267 CheW-like domain; Region: CheW; pfam01584 105559000268 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 105559000269 CheB methylesterase; Region: CheB_methylest; pfam01339 105559000270 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 105559000271 putative binding surface; other site 105559000272 active site 105559000273 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 105559000274 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 105559000275 putative binding surface; other site 105559000276 active site 105559000277 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 105559000278 putative binding surface; other site 105559000279 active site 105559000280 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 105559000281 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 105559000282 ATP binding site [chemical binding]; other site 105559000283 Mg2+ binding site [ion binding]; other site 105559000284 G-X-G motif; other site 105559000285 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 105559000286 Response regulator receiver domain; Region: Response_reg; pfam00072 105559000287 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 105559000288 active site 105559000289 phosphorylation site [posttranslational modification] 105559000290 intermolecular recognition site; other site 105559000291 dimerization interface [polypeptide binding]; other site 105559000292 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 105559000293 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 105559000294 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 105559000295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 105559000296 dimer interface [polypeptide binding]; other site 105559000297 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 105559000298 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 105559000299 dimer interface [polypeptide binding]; other site 105559000300 putative CheW interface [polypeptide binding]; other site 105559000301 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 105559000302 Response regulator receiver domain; Region: Response_reg; pfam00072 105559000303 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 105559000304 active site 105559000305 phosphorylation site [posttranslational modification] 105559000306 intermolecular recognition site; other site 105559000307 dimerization interface [polypeptide binding]; other site 105559000308 Response regulator receiver domain; Region: Response_reg; pfam00072 105559000309 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 105559000310 active site 105559000311 phosphorylation site [posttranslational modification] 105559000312 intermolecular recognition site; other site 105559000313 dimerization interface [polypeptide binding]; other site 105559000314 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 105559000315 G1 box; other site 105559000316 GTP/Mg2+ binding site [chemical binding]; other site 105559000317 G2 box; other site 105559000318 Switch I region; other site 105559000319 G3 box; other site 105559000320 Switch II region; other site 105559000321 G4 box; other site 105559000322 G5 box; other site 105559000323 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 105559000324 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 105559000325 metal binding triad; other site 105559000326 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 105559000327 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 105559000328 metal binding triad; other site 105559000329 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 105559000330 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 105559000331 homodimer interface [polypeptide binding]; other site 105559000332 substrate-cofactor binding pocket; other site 105559000333 catalytic residue [active] 105559000334 hypothetical protein; Validated; Region: PRK00110 105559000335 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 105559000336 active site 105559000337 putative DNA-binding cleft [nucleotide binding]; other site 105559000338 dimer interface [polypeptide binding]; other site 105559000339 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 105559000340 RuvA N terminal domain; Region: RuvA_N; pfam01330 105559000341 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 105559000342 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 105559000343 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 105559000344 Walker A motif; other site 105559000345 ATP binding site [chemical binding]; other site 105559000346 Walker B motif; other site 105559000347 arginine finger; other site 105559000348 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 105559000349 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 105559000350 active site 105559000351 TolQ protein; Region: tolQ; TIGR02796 105559000352 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 105559000353 TolR protein; Region: tolR; TIGR02801 105559000354 TolA protein; Region: tolA_full; TIGR02794 105559000355 TonB C terminal; Region: TonB_2; pfam13103 105559000356 translocation protein TolB; Provisional; Region: tolB; PRK04922 105559000357 TolB amino-terminal domain; Region: TolB_N; pfam04052 105559000358 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559000359 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559000360 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559000361 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 105559000362 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559000363 ligand binding site [chemical binding]; other site 105559000364 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 105559000365 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 105559000366 binding surface 105559000367 TPR motif; other site 105559000368 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 105559000369 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 105559000370 FeS/SAM binding site; other site 105559000371 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 105559000372 Ligand Binding Site [chemical binding]; other site 105559000373 Outer membrane efflux protein; Region: OEP; pfam02321 105559000374 Outer membrane efflux protein; Region: OEP; pfam02321 105559000375 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559000376 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559000377 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559000378 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 105559000379 Methyltransferase domain; Region: Methyltransf_31; pfam13847 105559000380 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 105559000381 S-adenosylmethionine binding site [chemical binding]; other site 105559000382 HI0933-like protein; Region: HI0933_like; pfam03486 105559000383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 105559000384 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 105559000385 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 105559000386 Spondin_N; Region: Spond_N; pfam06468 105559000387 CHRD domain; Region: CHRD; pfam07452 105559000388 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559000389 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 105559000390 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 105559000391 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559000392 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 105559000393 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 105559000394 putative active site [active] 105559000395 Zn binding site [ion binding]; other site 105559000396 Uncharacterized conserved protein [Function unknown]; Region: COG5361 105559000397 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 105559000398 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 105559000399 Uncharacterized conserved protein [Function unknown]; Region: COG5361 105559000400 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 105559000401 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 105559000402 Bacterial PH domain; Region: DUF304; pfam03703 105559000403 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 105559000404 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 105559000405 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 105559000406 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 105559000407 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 105559000408 YcfA-like protein; Region: YcfA; cl00752 105559000409 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559000410 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559000411 active site 105559000412 DNA gyrase subunit A; Validated; Region: PRK05560 105559000413 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 105559000414 CAP-like domain; other site 105559000415 active site 105559000416 primary dimer interface [polypeptide binding]; other site 105559000417 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000418 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000419 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000420 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000421 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000422 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 105559000423 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 105559000424 homodimer interface [polypeptide binding]; other site 105559000425 substrate-cofactor binding pocket; other site 105559000426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559000427 catalytic residue [active] 105559000428 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 105559000429 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 105559000430 putative ligand binding site [chemical binding]; other site 105559000431 putative NAD binding site [chemical binding]; other site 105559000432 putative catalytic site [active] 105559000433 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 105559000434 L-serine binding site [chemical binding]; other site 105559000435 ACT domain interface; other site 105559000436 Chorismate mutase type II; Region: CM_2; cl00693 105559000437 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 105559000438 Prephenate dehydratase; Region: PDT; pfam00800 105559000439 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 105559000440 putative L-Phe binding site [chemical binding]; other site 105559000441 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 105559000442 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 105559000443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559000444 homodimer interface [polypeptide binding]; other site 105559000445 catalytic residue [active] 105559000446 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 105559000447 prephenate dehydrogenase; Validated; Region: PRK08507 105559000448 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 105559000449 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 105559000450 hinge; other site 105559000451 active site 105559000452 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 105559000453 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 105559000454 motif II; other site 105559000455 cytidylate kinase; Provisional; Region: cmk; PRK00023 105559000456 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 105559000457 CMP-binding site; other site 105559000458 The sites determining sugar specificity; other site 105559000459 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 105559000460 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 105559000461 RNA binding site [nucleotide binding]; other site 105559000462 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 105559000463 RNA binding site [nucleotide binding]; other site 105559000464 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 105559000465 RNA binding site [nucleotide binding]; other site 105559000466 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 105559000467 RNA binding site [nucleotide binding]; other site 105559000468 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 105559000469 RNA binding site [nucleotide binding]; other site 105559000470 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 105559000471 RNA binding site [nucleotide binding]; other site 105559000472 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 105559000473 IHF dimer interface [polypeptide binding]; other site 105559000474 IHF - DNA interface [nucleotide binding]; other site 105559000475 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 105559000476 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 105559000477 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559000478 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559000479 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559000480 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 105559000481 DNA binding residues [nucleotide binding] 105559000482 Ferredoxin [Energy production and conversion]; Region: COG1146 105559000483 4Fe-4S binding domain; Region: Fer4; cl02805 105559000484 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 105559000485 tetratricopeptide repeat protein; Provisional; Region: PRK11788 105559000486 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 105559000487 TPR motif; other site 105559000488 binding surface 105559000489 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 105559000490 binding surface 105559000491 TPR motif; other site 105559000492 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 105559000493 ArsC family; Region: ArsC; pfam03960 105559000494 catalytic residues [active] 105559000495 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 105559000496 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 105559000497 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 105559000498 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 105559000499 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 105559000500 pantothenate kinase; Reviewed; Region: PRK13328 105559000501 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559000502 Domain of unknown function DUF20; Region: UPF0118; pfam01594 105559000503 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 105559000504 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 105559000505 active site residue [active] 105559000506 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 105559000507 active site residue [active] 105559000508 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 105559000509 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 105559000510 active site 105559000511 metal binding site [ion binding]; metal-binding site 105559000512 hexamer interface [polypeptide binding]; other site 105559000513 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 105559000514 nudix motif; other site 105559000515 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 105559000516 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559000517 Methyltransferase domain; Region: Methyltransf_26; pfam13659 105559000518 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559000519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 105559000520 AAA domain; Region: AAA_33; pfam13671 105559000521 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559000522 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 105559000523 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 105559000524 ATP binding site [chemical binding]; other site 105559000525 putative Mg++ binding site [ion binding]; other site 105559000526 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 105559000527 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 105559000528 urea transporter, Yersinia type; Region: urea_trans_yut; TIGR03441 105559000529 UreD urease accessory protein; Region: UreD; pfam01774 105559000530 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 105559000531 alpha-gamma subunit interface [polypeptide binding]; other site 105559000532 beta-gamma subunit interface [polypeptide binding]; other site 105559000533 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 105559000534 gamma-beta subunit interface [polypeptide binding]; other site 105559000535 alpha-beta subunit interface [polypeptide binding]; other site 105559000536 urease subunit alpha; Reviewed; Region: ureC; PRK13207 105559000537 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 105559000538 subunit interactions [polypeptide binding]; other site 105559000539 active site 105559000540 flap region; other site 105559000541 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 105559000542 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 105559000543 dimer interface [polypeptide binding]; other site 105559000544 catalytic residues [active] 105559000545 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 105559000546 UreF; Region: UreF; pfam01730 105559000547 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 105559000548 G1 box; other site 105559000549 GTP/Mg2+ binding site [chemical binding]; other site 105559000550 G2 box; other site 105559000551 Switch I region; other site 105559000552 G3 box; other site 105559000553 Switch II region; other site 105559000554 G4 box; other site 105559000555 G5 box; other site 105559000556 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 105559000557 Cation efflux family; Region: Cation_efflux; cl00316 105559000558 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 105559000559 cell division protein MraZ; Reviewed; Region: PRK00326 105559000560 MraZ protein; Region: MraZ; pfam02381 105559000561 MraZ protein; Region: MraZ; pfam02381 105559000562 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 105559000563 MraW methylase family; Region: Methyltransf_5; cl17771 105559000564 Cell division protein FtsL; Region: FtsL; pfam04999 105559000565 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 105559000566 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 105559000567 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 105559000568 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 105559000569 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559000570 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000571 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000572 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 105559000573 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559000574 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000575 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000576 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 105559000577 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 105559000578 Mg++ binding site [ion binding]; other site 105559000579 putative catalytic motif [active] 105559000580 putative substrate binding site [chemical binding]; other site 105559000581 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 105559000582 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000583 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000584 cell division protein FtsW; Region: ftsW; TIGR02614 105559000585 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 105559000586 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 105559000587 active site 105559000588 homodimer interface [polypeptide binding]; other site 105559000589 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 105559000590 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559000591 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559000592 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559000593 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 105559000594 FAD binding domain; Region: FAD_binding_4; pfam01565 105559000595 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 105559000596 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 105559000597 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 105559000598 ATP-grasp domain; Region: ATP-grasp_4; cl17255 105559000599 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 105559000600 Cell division protein FtsQ; Region: FtsQ; pfam03799 105559000601 cell division protein FtsA; Region: ftsA; TIGR01174 105559000602 Cell division protein FtsA; Region: FtsA; smart00842 105559000603 Cell division protein FtsA; Region: FtsA; pfam14450 105559000604 cell division protein FtsZ; Validated; Region: PRK09330 105559000605 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 105559000606 nucleotide binding site [chemical binding]; other site 105559000607 SulA interaction site; other site 105559000608 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 105559000609 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 105559000610 Protein of unknown function (DUF721); Region: DUF721; pfam05258 105559000611 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 105559000612 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559000613 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 105559000614 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 105559000615 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 105559000616 nucleotide binding region [chemical binding]; other site 105559000617 ATP-binding site [chemical binding]; other site 105559000618 SEC-C motif; Region: SEC-C; pfam02810 105559000619 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 105559000620 heterotetramer interface [polypeptide binding]; other site 105559000621 active site pocket [active] 105559000622 cleavage site 105559000623 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 105559000624 iron-sulfur cluster [ion binding]; other site 105559000625 [2Fe-2S] cluster binding site [ion binding]; other site 105559000626 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 105559000627 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 105559000628 substrate binding site [chemical binding]; other site 105559000629 ATP binding site [chemical binding]; other site 105559000630 adenylate kinase; Reviewed; Region: adk; PRK00279 105559000631 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 105559000632 AMP-binding site [chemical binding]; other site 105559000633 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 105559000634 6-phosphofructokinase; Provisional; Region: PRK14072 105559000635 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 105559000636 active site 105559000637 ADP/pyrophosphate binding site [chemical binding]; other site 105559000638 dimerization interface [polypeptide binding]; other site 105559000639 allosteric effector site; other site 105559000640 fructose-1,6-bisphosphate binding site; other site 105559000641 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 105559000642 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 105559000643 tandem repeat interface [polypeptide binding]; other site 105559000644 oligomer interface [polypeptide binding]; other site 105559000645 active site residues [active] 105559000646 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 105559000647 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 105559000648 RNA binding surface [nucleotide binding]; other site 105559000649 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 105559000650 active site 105559000651 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 105559000652 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 105559000653 homodimer interface [polypeptide binding]; other site 105559000654 oligonucleotide binding site [chemical binding]; other site 105559000655 Low molecular weight phosphatase family; Region: LMWPc; cd00115 105559000656 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 105559000657 active site 105559000658 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 105559000659 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 105559000660 Ligand binding site; other site 105559000661 oligomer interface; other site 105559000662 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 105559000663 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 105559000664 putative FMN binding site [chemical binding]; other site 105559000665 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 105559000666 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 105559000667 23S rRNA interface [nucleotide binding]; other site 105559000668 L3 interface [polypeptide binding]; other site 105559000669 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 105559000670 inner membrane transport permease; Provisional; Region: PRK15066 105559000671 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559000672 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 105559000673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559000674 Walker A/P-loop; other site 105559000675 ATP binding site [chemical binding]; other site 105559000676 Q-loop/lid; other site 105559000677 ABC transporter signature motif; other site 105559000678 Walker B; other site 105559000679 D-loop; other site 105559000680 H-loop/switch region; other site 105559000681 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 105559000682 putative DNA-binding cleft [nucleotide binding]; other site 105559000683 putative DNA clevage site; other site 105559000684 molecular lever; other site 105559000685 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 105559000686 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 105559000687 putative active site [active] 105559000688 catalytic site [active] 105559000689 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 105559000690 putative active site [active] 105559000691 catalytic site [active] 105559000692 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 105559000693 ThiC-associated domain; Region: ThiC-associated; pfam13667 105559000694 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 105559000695 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 105559000696 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 105559000697 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 105559000698 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 105559000699 phosphoribulokinase; Provisional; Region: PRK15453 105559000700 active site 105559000701 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 105559000702 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 105559000703 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 105559000704 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 105559000705 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 105559000706 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 105559000707 heterodimer interface [polypeptide binding]; other site 105559000708 active site 105559000709 FMN binding site [chemical binding]; other site 105559000710 homodimer interface [polypeptide binding]; other site 105559000711 substrate binding site [chemical binding]; other site 105559000712 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 105559000713 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 105559000714 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 105559000715 COQ9; Region: COQ9; pfam08511 105559000716 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 105559000717 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 105559000718 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 105559000719 S-adenosylmethionine binding site [chemical binding]; other site 105559000720 Phospholipid methyltransferase; Region: PEMT; cl17370 105559000721 Methyltransferase domain; Region: Methyltransf_11; pfam08241 105559000722 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 105559000723 RNA/DNA hybrid binding site [nucleotide binding]; other site 105559000724 active site 105559000725 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 105559000726 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 105559000727 active site 105559000728 catalytic site [active] 105559000729 substrate binding site [chemical binding]; other site 105559000730 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 105559000731 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 105559000732 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 105559000733 GrpE; Region: GrpE; pfam01025 105559000734 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 105559000735 dimer interface [polypeptide binding]; other site 105559000736 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 105559000737 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 105559000738 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 105559000739 nucleotide binding site [chemical binding]; other site 105559000740 chaperone protein DnaJ; Provisional; Region: PRK10767 105559000741 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 105559000742 HSP70 interaction site [polypeptide binding]; other site 105559000743 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 105559000744 substrate binding site [polypeptide binding]; other site 105559000745 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 105559000746 Zn binding sites [ion binding]; other site 105559000747 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 105559000748 dimer interface [polypeptide binding]; other site 105559000749 dihydrodipicolinate reductase; Provisional; Region: PRK00048 105559000750 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 105559000751 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 105559000752 transketolase; Reviewed; Region: PRK12753 105559000753 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 105559000754 TPP-binding site [chemical binding]; other site 105559000755 dimer interface [polypeptide binding]; other site 105559000756 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 105559000757 PYR/PP interface [polypeptide binding]; other site 105559000758 dimer interface [polypeptide binding]; other site 105559000759 TPP binding site [chemical binding]; other site 105559000760 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559000761 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 105559000762 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 105559000763 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 105559000764 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 105559000765 Phosphoglycerate kinase; Region: PGK; pfam00162 105559000766 substrate binding site [chemical binding]; other site 105559000767 hinge regions; other site 105559000768 ADP binding site [chemical binding]; other site 105559000769 catalytic site [active] 105559000770 pyruvate kinase; Provisional; Region: PRK05826 105559000771 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 105559000772 domain interfaces; other site 105559000773 active site 105559000774 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 105559000775 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 105559000776 intersubunit interface [polypeptide binding]; other site 105559000777 active site 105559000778 zinc binding site [ion binding]; other site 105559000779 Na+ binding site [ion binding]; other site 105559000780 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 105559000781 MFS_1 like family; Region: MFS_1_like; pfam12832 105559000782 malate dehydrogenase; Reviewed; Region: PRK06223 105559000783 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 105559000784 NAD(P) binding site [chemical binding]; other site 105559000785 dimer interface [polypeptide binding]; other site 105559000786 tetramer (dimer of dimers) interface [polypeptide binding]; other site 105559000787 substrate binding site [chemical binding]; other site 105559000788 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 105559000789 MgtE intracellular N domain; Region: MgtE_N; smart00924 105559000790 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 105559000791 Divalent cation transporter; Region: MgtE; cl00786 105559000792 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 105559000793 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 105559000794 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 105559000795 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 105559000796 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 105559000797 dimerization domain swap beta strand [polypeptide binding]; other site 105559000798 regulatory protein interface [polypeptide binding]; other site 105559000799 active site 105559000800 regulatory phosphorylation site [posttranslational modification]; other site 105559000801 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 105559000802 active pocket/dimerization site; other site 105559000803 active site 105559000804 phosphorylation site [posttranslational modification] 105559000805 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 105559000806 HPr kinase/phosphorylase; Provisional; Region: PRK05428 105559000807 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 105559000808 Hpr binding site; other site 105559000809 active site 105559000810 homohexamer subunit interaction site [polypeptide binding]; other site 105559000811 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 105559000812 active site 105559000813 phosphorylation site [posttranslational modification] 105559000814 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 105559000815 30S subunit binding site; other site 105559000816 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 105559000817 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 105559000818 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 105559000819 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 105559000820 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 105559000821 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 105559000822 Walker A/P-loop; other site 105559000823 ATP binding site [chemical binding]; other site 105559000824 Q-loop/lid; other site 105559000825 ABC transporter signature motif; other site 105559000826 Walker B; other site 105559000827 D-loop; other site 105559000828 H-loop/switch region; other site 105559000829 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 105559000830 OstA-like protein; Region: OstA; pfam03968 105559000831 Bacterial SH3 domain; Region: SH3_3; pfam08239 105559000832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 105559000833 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 105559000834 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 105559000835 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 105559000836 active site 105559000837 motif I; other site 105559000838 motif II; other site 105559000839 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 105559000840 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 105559000841 putative active site [active] 105559000842 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 105559000843 VacJ like lipoprotein; Region: VacJ; cl01073 105559000844 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 105559000845 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 105559000846 Walker A/P-loop; other site 105559000847 ATP binding site [chemical binding]; other site 105559000848 Q-loop/lid; other site 105559000849 ABC transporter signature motif; other site 105559000850 Walker B; other site 105559000851 D-loop; other site 105559000852 H-loop/switch region; other site 105559000853 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 105559000854 Permease; Region: Permease; cl00510 105559000855 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 105559000856 mce related protein; Region: MCE; pfam02470 105559000857 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 105559000858 anti sigma factor interaction site; other site 105559000859 regulatory phosphorylation site [posttranslational modification]; other site 105559000860 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 105559000861 BolA-like protein; Region: BolA; pfam01722 105559000862 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 105559000863 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 105559000864 hinge; other site 105559000865 active site 105559000866 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 105559000867 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 105559000868 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 105559000869 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 105559000870 NAD binding site [chemical binding]; other site 105559000871 dimerization interface [polypeptide binding]; other site 105559000872 product binding site; other site 105559000873 substrate binding site [chemical binding]; other site 105559000874 zinc binding site [ion binding]; other site 105559000875 catalytic residues [active] 105559000876 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 105559000877 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 105559000878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559000879 homodimer interface [polypeptide binding]; other site 105559000880 catalytic residue [active] 105559000881 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 105559000882 putative NAD(P) binding site [chemical binding]; other site 105559000883 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559000884 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 105559000885 Fatty acid desaturase; Region: FA_desaturase; pfam00487 105559000886 Di-iron ligands [ion binding]; other site 105559000887 Transposase; Region: DDE_Tnp_ISL3; pfam01610 105559000888 Predicted amidohydrolase [General function prediction only]; Region: COG0388 105559000889 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 105559000890 putative active site [active] 105559000891 catalytic triad [active] 105559000892 putative dimer interface [polypeptide binding]; other site 105559000893 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 105559000894 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 105559000895 Walker A/P-loop; other site 105559000896 ATP binding site [chemical binding]; other site 105559000897 Q-loop/lid; other site 105559000898 ABC transporter signature motif; other site 105559000899 Walker B; other site 105559000900 D-loop; other site 105559000901 H-loop/switch region; other site 105559000902 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 105559000903 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 105559000904 Walker A/P-loop; other site 105559000905 ATP binding site [chemical binding]; other site 105559000906 Q-loop/lid; other site 105559000907 ABC transporter signature motif; other site 105559000908 Walker B; other site 105559000909 D-loop; other site 105559000910 H-loop/switch region; other site 105559000911 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 105559000912 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 105559000913 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 105559000914 putative PBP binding loops; other site 105559000915 dimer interface [polypeptide binding]; other site 105559000916 ABC-ATPase subunit interface; other site 105559000917 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 105559000918 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 105559000919 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 105559000920 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 105559000921 ABC-ATPase subunit interface; other site 105559000922 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 105559000923 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 105559000924 peptide binding site [polypeptide binding]; other site 105559000925 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 105559000926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 105559000927 catalytic residue [active] 105559000928 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 105559000929 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 105559000930 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 105559000931 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 105559000932 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 105559000933 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 105559000934 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 105559000935 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 105559000936 Walker A motif; other site 105559000937 ATP binding site [chemical binding]; other site 105559000938 Walker B motif; other site 105559000939 arginine finger; other site 105559000940 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 105559000941 Kelch motif; Region: Kelch_1; pfam01344 105559000942 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 105559000943 Kelch domain; Region: Kelch; smart00612 105559000944 Kelch motif; Region: Kelch_1; pfam01344 105559000945 Kelch domain; Region: Kelch; smart00612 105559000946 Kelch motif; Region: Kelch_1; pfam01344 105559000947 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 105559000948 thymidylate synthase; Reviewed; Region: thyA; PRK01827 105559000949 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 105559000950 dimerization interface [polypeptide binding]; other site 105559000951 active site 105559000952 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 105559000953 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 105559000954 folate binding site [chemical binding]; other site 105559000955 NADP+ binding site [chemical binding]; other site 105559000956 hypothetical protein; Reviewed; Region: PRK00024 105559000957 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 105559000958 MPN+ (JAMM) motif; other site 105559000959 Zinc-binding site [ion binding]; other site 105559000960 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 105559000961 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 105559000962 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 105559000963 FeS/SAM binding site; other site 105559000964 TRAM domain; Region: TRAM; pfam01938 105559000965 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 105559000966 PhoH-like protein; Region: PhoH; pfam02562 105559000967 metal-binding heat shock protein; Provisional; Region: PRK00016 105559000968 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 105559000969 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 105559000970 Transporter associated domain; Region: CorC_HlyC; smart01091 105559000971 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 105559000972 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 105559000973 putative active site [active] 105559000974 catalytic triad [active] 105559000975 putative dimer interface [polypeptide binding]; other site 105559000976 Cation transport protein; Region: TrkH; cl17365 105559000977 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 105559000978 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 105559000979 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 105559000980 Malic enzyme, N-terminal domain; Region: malic; pfam00390 105559000981 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 105559000982 putative NAD(P) binding site [chemical binding]; other site 105559000983 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 105559000984 Transglycosylase; Region: Transgly; pfam00912 105559000985 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 105559000986 Competence protein A; Region: Competence_A; pfam11104 105559000987 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 105559000988 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 105559000989 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 105559000990 Pilus assembly protein, PilO; Region: PilO; pfam04350 105559000991 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 105559000992 Pilus assembly protein, PilP; Region: PilP; pfam04351 105559000993 AMIN domain; Region: AMIN; pfam11741 105559000994 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 105559000995 Secretin and TonB N terminus short domain; Region: STN; smart00965 105559000996 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559000997 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 105559000998 shikimate kinase; Reviewed; Region: aroK; PRK00131 105559000999 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 105559001000 ADP binding site [chemical binding]; other site 105559001001 magnesium binding site [ion binding]; other site 105559001002 putative shikimate binding site; other site 105559001003 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 105559001004 active site 105559001005 dimer interface [polypeptide binding]; other site 105559001006 metal binding site [ion binding]; metal-binding site 105559001007 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 105559001008 putative nucleotide binding site [chemical binding]; other site 105559001009 putative substrate binding site [chemical binding]; other site 105559001010 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 105559001011 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 105559001012 chorismate binding enzyme; Region: Chorismate_bind; cl10555 105559001013 probable H4MPT-linked C1 transfer pathway protein; Region: one_C_unchar_1; TIGR03123 105559001014 ATP-grasp domain; Region: ATP-grasp_4; cl17255 105559001015 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 105559001016 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 105559001017 active site 105559001018 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 105559001019 salt bridge; other site 105559001020 non-specific DNA binding site [nucleotide binding]; other site 105559001021 sequence-specific DNA binding site [nucleotide binding]; other site 105559001022 TIGR04255 family protein; Region: sporadTIGR04255 105559001023 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 105559001024 ATP-grasp domain; Region: ATP-grasp_4; cl17255 105559001025 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 105559001026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001027 ATP-grasp domain; Region: ATP-grasp_4; cl17255 105559001028 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 105559001029 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 105559001030 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 105559001031 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 105559001032 ligand binding site [chemical binding]; other site 105559001033 homodimer interface [polypeptide binding]; other site 105559001034 NAD(P) binding site [chemical binding]; other site 105559001035 trimer interface B [polypeptide binding]; other site 105559001036 trimer interface A [polypeptide binding]; other site 105559001037 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 105559001038 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 105559001039 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 105559001040 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 105559001041 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559001042 HIGH motif; other site 105559001043 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559001044 active site 105559001045 KMSKS motif; other site 105559001046 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 105559001047 Ca2+ binding site [ion binding]; other site 105559001048 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 105559001049 Ca2+ binding site [ion binding]; other site 105559001050 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 105559001051 Ca2+ binding site [ion binding]; other site 105559001052 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 105559001053 putative active site [active] 105559001054 transaldolase; Provisional; Region: PRK03903 105559001055 catalytic residue [active] 105559001056 transketolase; Reviewed; Region: PRK05899 105559001057 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 105559001058 TPP-binding site [chemical binding]; other site 105559001059 dimer interface [polypeptide binding]; other site 105559001060 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 105559001061 PYR/PP interface [polypeptide binding]; other site 105559001062 dimer interface [polypeptide binding]; other site 105559001063 TPP binding site [chemical binding]; other site 105559001064 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559001065 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 105559001066 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 105559001067 active site 105559001068 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 105559001069 catalytic triad [active] 105559001070 metal binding site [ion binding]; metal-binding site 105559001071 conserved cis-peptide bond; other site 105559001072 FtsH Extracellular; Region: FtsH_ext; pfam06480 105559001073 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 105559001074 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 105559001075 Walker A motif; other site 105559001076 ATP binding site [chemical binding]; other site 105559001077 Walker B motif; other site 105559001078 arginine finger; other site 105559001079 Peptidase family M41; Region: Peptidase_M41; pfam01434 105559001080 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 105559001081 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 105559001082 Walker A motif; other site 105559001083 ATP binding site [chemical binding]; other site 105559001084 Walker B motif; other site 105559001085 arginine finger; other site 105559001086 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559001087 CsbD-like; Region: CsbD; cl17424 105559001088 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 105559001089 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559001090 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 105559001091 active site 105559001092 phosphorylation site [posttranslational modification] 105559001093 intermolecular recognition site; other site 105559001094 dimerization interface [polypeptide binding]; other site 105559001095 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 105559001096 DNA binding residues [nucleotide binding] 105559001097 dimerization interface [polypeptide binding]; other site 105559001098 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 105559001099 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 105559001100 BON domain; Region: BON; pfam04972 105559001101 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 105559001102 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 105559001103 Walker A/P-loop; other site 105559001104 ATP binding site [chemical binding]; other site 105559001105 Q-loop/lid; other site 105559001106 ABC transporter signature motif; other site 105559001107 Walker B; other site 105559001108 D-loop; other site 105559001109 H-loop/switch region; other site 105559001110 TOBE domain; Region: TOBE_2; pfam08402 105559001111 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 105559001112 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 105559001113 dimer interface [polypeptide binding]; other site 105559001114 conserved gate region; other site 105559001115 putative PBP binding loops; other site 105559001116 ABC-ATPase subunit interface; other site 105559001117 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 105559001118 dimer interface [polypeptide binding]; other site 105559001119 conserved gate region; other site 105559001120 putative PBP binding loops; other site 105559001121 ABC-ATPase subunit interface; other site 105559001122 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 105559001123 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 105559001124 Bacterial SH3 domain; Region: SH3_3; pfam08239 105559001125 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 105559001126 multifunctional aminopeptidase A; Provisional; Region: PRK00913 105559001127 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 105559001128 interface (dimer of trimers) [polypeptide binding]; other site 105559001129 Substrate-binding/catalytic site; other site 105559001130 Zn-binding sites [ion binding]; other site 105559001131 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 105559001132 stringent starvation protein A; Provisional; Region: sspA; PRK09481 105559001133 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 105559001134 C-terminal domain interface [polypeptide binding]; other site 105559001135 putative GSH binding site (G-site) [chemical binding]; other site 105559001136 dimer interface [polypeptide binding]; other site 105559001137 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 105559001138 dimer interface [polypeptide binding]; other site 105559001139 N-terminal domain interface [polypeptide binding]; other site 105559001140 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 105559001141 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 105559001142 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 105559001143 Qi binding site; other site 105559001144 intrachain domain interface; other site 105559001145 interchain domain interface [polypeptide binding]; other site 105559001146 heme bH binding site [chemical binding]; other site 105559001147 heme bL binding site [chemical binding]; other site 105559001148 Qo binding site; other site 105559001149 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 105559001150 interchain domain interface [polypeptide binding]; other site 105559001151 intrachain domain interface; other site 105559001152 Qi binding site; other site 105559001153 Qo binding site; other site 105559001154 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 105559001155 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 105559001156 [2Fe-2S] cluster binding site [ion binding]; other site 105559001157 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 105559001158 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 105559001159 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 105559001160 dimer interface [polypeptide binding]; other site 105559001161 anticodon binding site; other site 105559001162 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 105559001163 motif 1; other site 105559001164 dimer interface [polypeptide binding]; other site 105559001165 active site 105559001166 motif 2; other site 105559001167 GAD domain; Region: GAD; pfam02938 105559001168 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 105559001169 motif 3; other site 105559001170 quinolinate synthetase; Provisional; Region: PRK09375 105559001171 Zinc-finger domain; Region: zf-CHCC; cl01821 105559001172 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 105559001173 hypothetical protein; Provisional; Region: PRK08999 105559001174 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 105559001175 active site 105559001176 8-oxo-dGMP binding site [chemical binding]; other site 105559001177 nudix motif; other site 105559001178 metal binding site [ion binding]; metal-binding site 105559001179 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 105559001180 thiamine phosphate binding site [chemical binding]; other site 105559001181 active site 105559001182 pyrophosphate binding site [ion binding]; other site 105559001183 Domain of unknown function (DUF329); Region: DUF329; pfam03884 105559001184 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 105559001185 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 105559001186 CoA-binding site [chemical binding]; other site 105559001187 ATP-binding [chemical binding]; other site 105559001188 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 105559001189 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 105559001190 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 105559001191 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 105559001192 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 105559001193 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 105559001194 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 105559001195 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 105559001196 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 105559001197 Walker A motif; other site 105559001198 ATP binding site [chemical binding]; other site 105559001199 Walker B motif; other site 105559001200 diaminopimelate decarboxylase; Region: lysA; TIGR01048 105559001201 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 105559001202 active site 105559001203 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 105559001204 substrate binding site [chemical binding]; other site 105559001205 catalytic residues [active] 105559001206 dimer interface [polypeptide binding]; other site 105559001207 Methyltransferase domain; Region: Methyltransf_31; pfam13847 105559001208 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 105559001209 S-adenosylmethionine binding site [chemical binding]; other site 105559001210 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 105559001211 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 105559001212 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 105559001213 Protein of unknown function, DUF484; Region: DUF484; cl17449 105559001214 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 105559001215 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 105559001216 active site 105559001217 Int/Topo IB signature motif; other site 105559001218 HDOD domain; Region: HDOD; pfam08668 105559001219 Response regulator receiver domain; Region: Response_reg; pfam00072 105559001220 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 105559001221 active site 105559001222 phosphorylation site [posttranslational modification] 105559001223 intermolecular recognition site; other site 105559001224 dimerization interface [polypeptide binding]; other site 105559001225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559001226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559001227 metal binding site [ion binding]; metal-binding site 105559001228 active site 105559001229 I-site; other site 105559001230 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559001231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559001232 Winged helix-turn helix; Region: HTH_29; pfam13551 105559001233 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 105559001234 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559001235 DNA-binding interface [nucleotide binding]; DNA binding site 105559001236 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 105559001237 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 105559001238 active site 105559001239 intersubunit interface [polypeptide binding]; other site 105559001240 catalytic residue [active] 105559001241 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 105559001242 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 105559001243 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 105559001244 motif II; other site 105559001245 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 105559001246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559001247 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 105559001248 NAD(P) binding site [chemical binding]; other site 105559001249 active site 105559001250 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 105559001251 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559001252 active site 105559001253 NTP binding site [chemical binding]; other site 105559001254 metal binding triad [ion binding]; metal-binding site 105559001255 C factor cell-cell signaling protein; Provisional; Region: PRK09009 105559001256 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 105559001257 NADP binding site [chemical binding]; other site 105559001258 homodimer interface [polypeptide binding]; other site 105559001259 active site 105559001260 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 105559001261 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 105559001262 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 105559001263 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559001264 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559001265 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 105559001266 Methyltransferase domain; Region: Methyltransf_26; pfam13659 105559001267 FlgN protein; Region: FlgN; pfam05130 105559001268 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 105559001269 SAF-like; Region: SAF_2; pfam13144 105559001270 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 105559001271 PAS domain; Region: PAS_9; pfam13426 105559001272 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559001273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559001274 metal binding site [ion binding]; metal-binding site 105559001275 active site 105559001276 I-site; other site 105559001277 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 105559001278 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 105559001279 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 105559001280 dimer interface [polypeptide binding]; other site 105559001281 active site 105559001282 metal binding site [ion binding]; metal-binding site 105559001283 glutathione binding site [chemical binding]; other site 105559001284 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 105559001285 FAD binding site [chemical binding]; other site 105559001286 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 105559001287 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 105559001288 homotetramer interface [polypeptide binding]; other site 105559001289 ligand binding site [chemical binding]; other site 105559001290 catalytic site [active] 105559001291 NAD binding site [chemical binding]; other site 105559001292 S-adenosylmethionine synthetase; Validated; Region: PRK05250 105559001293 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 105559001294 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 105559001295 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 105559001296 Uncharacterized conserved protein [Function unknown]; Region: COG2835 105559001297 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 105559001298 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 105559001299 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 105559001300 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 105559001301 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 105559001302 Walker A/P-loop; other site 105559001303 ATP binding site [chemical binding]; other site 105559001304 Q-loop/lid; other site 105559001305 ABC transporter signature motif; other site 105559001306 Walker B; other site 105559001307 D-loop; other site 105559001308 H-loop/switch region; other site 105559001309 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 105559001310 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 105559001311 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 105559001312 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 105559001313 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 105559001314 Competence protein; Region: Competence; pfam03772 105559001315 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 105559001316 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 105559001317 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 105559001318 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 105559001319 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 105559001320 Walker A/P-loop; other site 105559001321 ATP binding site [chemical binding]; other site 105559001322 Q-loop/lid; other site 105559001323 ABC transporter signature motif; other site 105559001324 Walker B; other site 105559001325 D-loop; other site 105559001326 H-loop/switch region; other site 105559001327 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 105559001328 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 105559001329 FtsX-like permease family; Region: FtsX; pfam02687 105559001330 PilZ domain; Region: PilZ; pfam07238 105559001331 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 105559001332 tetramer (dimer of dimers) interface [polypeptide binding]; other site 105559001333 active site 105559001334 dimer interface [polypeptide binding]; other site 105559001335 threonine dehydratase; Reviewed; Region: PRK09224 105559001336 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 105559001337 tetramer interface [polypeptide binding]; other site 105559001338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559001339 catalytic residue [active] 105559001340 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 105559001341 putative Ile/Val binding site [chemical binding]; other site 105559001342 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 105559001343 putative Ile/Val binding site [chemical binding]; other site 105559001344 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 105559001345 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 105559001346 HIGH motif; other site 105559001347 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 105559001348 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559001349 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 105559001350 active site 105559001351 KMSKS motif; other site 105559001352 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 105559001353 tRNA binding surface [nucleotide binding]; other site 105559001354 Lipopolysaccharide-assembly; Region: LptE; cl01125 105559001355 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 105559001356 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 105559001357 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 105559001358 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 105559001359 putative catalytic cysteine [active] 105559001360 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 105559001361 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 105559001362 active site 105559001363 (T/H)XGH motif; other site 105559001364 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 105559001365 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 105559001366 Maf-like protein; Region: Maf; pfam02545 105559001367 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 105559001368 active site 105559001369 dimer interface [polypeptide binding]; other site 105559001370 ribonuclease G; Provisional; Region: PRK11712 105559001371 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 105559001372 homodimer interface [polypeptide binding]; other site 105559001373 oligonucleotide binding site [chemical binding]; other site 105559001374 TIGR02099 family protein; Region: TIGR02099 105559001375 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 105559001376 nitrilase; Region: PLN02798 105559001377 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 105559001378 putative active site [active] 105559001379 catalytic triad [active] 105559001380 dimer interface [polypeptide binding]; other site 105559001381 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 105559001382 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 105559001383 Ligand Binding Site [chemical binding]; other site 105559001384 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 105559001385 CPxP motif; other site 105559001386 glutamine synthetase; Provisional; Region: glnA; PRK09469 105559001387 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 105559001388 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 105559001389 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 105559001390 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 105559001391 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 105559001392 DNA binding site [nucleotide binding] 105559001393 catalytic residue [active] 105559001394 H2TH interface [polypeptide binding]; other site 105559001395 putative catalytic residues [active] 105559001396 turnover-facilitating residue; other site 105559001397 intercalation triad [nucleotide binding]; other site 105559001398 8OG recognition residue [nucleotide binding]; other site 105559001399 putative reading head residues; other site 105559001400 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 105559001401 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 105559001402 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 105559001403 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 105559001404 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 105559001405 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 105559001406 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 105559001407 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 105559001408 Walker A/P-loop; other site 105559001409 ATP binding site [chemical binding]; other site 105559001410 Q-loop/lid; other site 105559001411 ABC transporter signature motif; other site 105559001412 Walker B; other site 105559001413 D-loop; other site 105559001414 H-loop/switch region; other site 105559001415 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 105559001416 nudix motif; other site 105559001417 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 105559001418 Fatty acid desaturase; Region: FA_desaturase; pfam00487 105559001419 Di-iron ligands [ion binding]; other site 105559001420 Transposase; Region: DDE_Tnp_ISL3; pfam01610 105559001421 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 105559001422 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 105559001423 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 105559001424 putative catalytic site [active] 105559001425 putative metal binding site [ion binding]; other site 105559001426 putative phosphate binding site [ion binding]; other site 105559001427 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559001428 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 105559001429 putative NAD(P) binding site [chemical binding]; other site 105559001430 active site 105559001431 putative substrate binding site [chemical binding]; other site 105559001432 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 105559001433 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 105559001434 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 105559001435 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 105559001436 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 105559001437 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 105559001438 Transglycosylase SLT domain; Region: SLT_2; pfam13406 105559001439 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 105559001440 N-acetyl-D-glucosamine binding site [chemical binding]; other site 105559001441 catalytic residue [active] 105559001442 rare lipoprotein A; Region: rlpA; TIGR00413 105559001443 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 105559001444 Sporulation related domain; Region: SPOR; pfam05036 105559001445 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 105559001446 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 105559001447 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 105559001448 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 105559001449 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 105559001450 homodimer interface [polypeptide binding]; other site 105559001451 substrate-cofactor binding pocket; other site 105559001452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559001453 catalytic residue [active] 105559001454 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 105559001455 lipoyl synthase; Provisional; Region: PRK05481 105559001456 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 105559001457 FeS/SAM binding site; other site 105559001458 citrate synthase; Provisional; Region: PRK14036 105559001459 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 105559001460 dimer interface [polypeptide binding]; other site 105559001461 active site 105559001462 citrylCoA binding site [chemical binding]; other site 105559001463 oxalacetate/citrate binding site [chemical binding]; other site 105559001464 coenzyme A binding site [chemical binding]; other site 105559001465 catalytic triad [active] 105559001466 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 105559001467 Radical SAM superfamily; Region: Radical_SAM; pfam04055 105559001468 FeS/SAM binding site; other site 105559001469 elongation factor P; Validated; Region: PRK00529 105559001470 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 105559001471 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 105559001472 RNA binding site [nucleotide binding]; other site 105559001473 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 105559001474 RNA binding site [nucleotide binding]; other site 105559001475 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 105559001476 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 105559001477 motif 1; other site 105559001478 dimer interface [polypeptide binding]; other site 105559001479 active site 105559001480 motif 2; other site 105559001481 motif 3; other site 105559001482 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 105559001483 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 105559001484 FeS/SAM binding site; other site 105559001485 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 105559001486 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 105559001487 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 105559001488 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 105559001489 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 105559001490 PqqA family; Region: PqqA; cl15372 105559001491 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 105559001492 Peptidase family M48; Region: Peptidase_M48; pfam01435 105559001493 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 105559001494 binding surface 105559001495 TPR motif; other site 105559001496 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 105559001497 CPxP motif; other site 105559001498 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 105559001499 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 105559001500 S-adenosylmethionine binding site [chemical binding]; other site 105559001501 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 105559001502 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 105559001503 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 105559001504 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 105559001505 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 105559001506 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 105559001507 NADP binding site [chemical binding]; other site 105559001508 homopentamer interface [polypeptide binding]; other site 105559001509 substrate binding site [chemical binding]; other site 105559001510 active site 105559001511 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 105559001512 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 105559001513 putative ribose interaction site [chemical binding]; other site 105559001514 putative ADP binding site [chemical binding]; other site 105559001515 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 105559001516 active site 105559001517 HIGH motif; other site 105559001518 nucleotide binding site [chemical binding]; other site 105559001519 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 105559001520 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 105559001521 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 105559001522 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 105559001523 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 105559001524 ATP binding site [chemical binding]; other site 105559001525 Mg++ binding site [ion binding]; other site 105559001526 motif III; other site 105559001527 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 105559001528 nucleotide binding region [chemical binding]; other site 105559001529 ATP-binding site [chemical binding]; other site 105559001530 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 105559001531 RNA recognition motif; Region: RRM; smart00360 105559001532 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 105559001533 DNA-binding site [nucleotide binding]; DNA binding site 105559001534 RNA-binding motif; other site 105559001535 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 105559001536 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 105559001537 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 105559001538 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 105559001539 active site 105559001540 acetylornithine deacetylase; Provisional; Region: PRK07522 105559001541 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 105559001542 metal binding site [ion binding]; metal-binding site 105559001543 putative dimer interface [polypeptide binding]; other site 105559001544 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 105559001545 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 105559001546 tetramer interface [polypeptide binding]; other site 105559001547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559001548 catalytic residue [active] 105559001549 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 105559001550 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 105559001551 NAD(P) binding site [chemical binding]; other site 105559001552 catalytic residues [active] 105559001553 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 105559001554 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 105559001555 dimer interface [polypeptide binding]; other site 105559001556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559001557 catalytic residue [active] 105559001558 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 105559001559 nucleoside/Zn binding site; other site 105559001560 dimer interface [polypeptide binding]; other site 105559001561 catalytic motif [active] 105559001562 Gram-negative porin; Region: Porin_4; pfam13609 105559001563 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 105559001564 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 105559001565 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 105559001566 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 105559001567 rRNA binding site [nucleotide binding]; other site 105559001568 predicted 30S ribosome binding site; other site 105559001569 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 105559001570 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 105559001571 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 105559001572 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 105559001573 recombination protein RecR; Reviewed; Region: recR; PRK00076 105559001574 RecR protein; Region: RecR; pfam02132 105559001575 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 105559001576 putative active site [active] 105559001577 putative metal-binding site [ion binding]; other site 105559001578 tetramer interface [polypeptide binding]; other site 105559001579 hypothetical protein; Validated; Region: PRK00153 105559001580 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 105559001581 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 105559001582 Walker A motif; other site 105559001583 ATP binding site [chemical binding]; other site 105559001584 DNA polymerase III subunit delta'; Validated; Region: PRK08485 105559001585 Walker B motif; other site 105559001586 arginine finger; other site 105559001587 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 105559001588 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 105559001589 transcription termination factor Rho; Provisional; Region: rho; PRK09376 105559001590 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 105559001591 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 105559001592 RNA binding site [nucleotide binding]; other site 105559001593 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 105559001594 multimer interface [polypeptide binding]; other site 105559001595 Walker A motif; other site 105559001596 ATP binding site [chemical binding]; other site 105559001597 Walker B motif; other site 105559001598 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 105559001599 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 105559001600 active site 105559001601 bacterial Hfq-like; Region: Hfq; cd01716 105559001602 hexamer interface [polypeptide binding]; other site 105559001603 Sm1 motif; other site 105559001604 RNA binding site [nucleotide binding]; other site 105559001605 Sm2 motif; other site 105559001606 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 105559001607 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 105559001608 HflX GTPase family; Region: HflX; cd01878 105559001609 G1 box; other site 105559001610 GTP/Mg2+ binding site [chemical binding]; other site 105559001611 Switch I region; other site 105559001612 G2 box; other site 105559001613 G3 box; other site 105559001614 Switch II region; other site 105559001615 G4 box; other site 105559001616 G5 box; other site 105559001617 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 105559001618 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 105559001619 HflK protein; Region: hflK; TIGR01933 105559001620 HflC protein; Region: hflC; TIGR01932 105559001621 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 105559001622 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 105559001623 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 105559001624 dimer interface [polypeptide binding]; other site 105559001625 motif 1; other site 105559001626 active site 105559001627 motif 2; other site 105559001628 motif 3; other site 105559001629 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 105559001630 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 105559001631 GDP-binding site [chemical binding]; other site 105559001632 ACT binding site; other site 105559001633 IMP binding site; other site 105559001634 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 105559001635 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 105559001636 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 105559001637 catalytic residues [active] 105559001638 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 105559001639 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 105559001640 ATP binding site [chemical binding]; other site 105559001641 Mg++ binding site [ion binding]; other site 105559001642 motif III; other site 105559001643 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 105559001644 nucleotide binding region [chemical binding]; other site 105559001645 ATP-binding site [chemical binding]; other site 105559001646 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 105559001647 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 105559001648 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 105559001649 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 105559001650 proline aminopeptidase P II; Provisional; Region: PRK10879 105559001651 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 105559001652 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 105559001653 active site 105559001654 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 105559001655 TIGR02449 family protein; Region: TIGR02449 105559001656 Cell division protein ZapA; Region: ZapA; pfam05164 105559001657 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 105559001658 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 105559001659 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 105559001660 shikimate binding site; other site 105559001661 NAD(P) binding site [chemical binding]; other site 105559001662 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 105559001663 dimer interface [polypeptide binding]; other site 105559001664 active site 105559001665 aspartate-rich active site metal binding site; other site 105559001666 allosteric magnesium binding site [ion binding]; other site 105559001667 Schiff base residues; other site 105559001668 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 105559001669 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 105559001670 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 105559001671 catalytic site [active] 105559001672 subunit interface [polypeptide binding]; other site 105559001673 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 105559001674 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 105559001675 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 105559001676 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 105559001677 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 105559001678 ATP-grasp domain; Region: ATP-grasp_4; cl17255 105559001679 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 105559001680 IMP binding site; other site 105559001681 dimer interface [polypeptide binding]; other site 105559001682 interdomain contacts; other site 105559001683 partial ornithine binding site; other site 105559001684 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 105559001685 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 105559001686 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 105559001687 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 105559001688 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 105559001689 S-adenosylmethionine binding site [chemical binding]; other site 105559001690 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 105559001691 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 105559001692 Walker A motif; other site 105559001693 ATP binding site [chemical binding]; other site 105559001694 Walker B motif; other site 105559001695 arginine finger; other site 105559001696 Peptidase family M41; Region: Peptidase_M41; pfam01434 105559001697 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 105559001698 dihydropteroate synthase; Region: DHPS; TIGR01496 105559001699 substrate binding pocket [chemical binding]; other site 105559001700 dimer interface [polypeptide binding]; other site 105559001701 inhibitor binding site; inhibition site 105559001702 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 105559001703 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 105559001704 active site 105559001705 substrate binding site [chemical binding]; other site 105559001706 metal binding site [ion binding]; metal-binding site 105559001707 triosephosphate isomerase; Provisional; Region: PRK14567 105559001708 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 105559001709 substrate binding site [chemical binding]; other site 105559001710 dimer interface [polypeptide binding]; other site 105559001711 catalytic triad [active] 105559001712 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 105559001713 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 105559001714 NADH dehydrogenase subunit B; Validated; Region: PRK06411 105559001715 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 105559001716 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 105559001717 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 105559001718 NADH dehydrogenase subunit D; Validated; Region: PRK06075 105559001719 NADH dehydrogenase subunit E; Validated; Region: PRK07539 105559001720 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 105559001721 putative dimer interface [polypeptide binding]; other site 105559001722 [2Fe-2S] cluster binding site [ion binding]; other site 105559001723 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 105559001724 SLBB domain; Region: SLBB; pfam10531 105559001725 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 105559001726 NADH dehydrogenase subunit G; Validated; Region: PRK09129 105559001727 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 105559001728 catalytic loop [active] 105559001729 iron binding site [ion binding]; other site 105559001730 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 105559001731 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 105559001732 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 105559001733 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 105559001734 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 105559001735 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 105559001736 4Fe-4S binding domain; Region: Fer4; cl02805 105559001737 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 105559001738 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 105559001739 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 105559001740 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 105559001741 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559001742 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559001743 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 105559001744 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559001745 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 105559001746 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559001747 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 105559001748 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 105559001749 putative NAD(P) binding site [chemical binding]; other site 105559001750 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 105559001751 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 105559001752 RNA binding surface [nucleotide binding]; other site 105559001753 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 105559001754 active site 105559001755 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 105559001756 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 105559001757 catalytic residues [active] 105559001758 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 105559001759 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 105559001760 substrate binding site [chemical binding]; other site 105559001761 ATP binding site [chemical binding]; other site 105559001762 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 105559001763 tetramer interface [polypeptide binding]; other site 105559001764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559001765 catalytic residue [active] 105559001766 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 105559001767 Helix-turn-helix domain; Region: HTH_28; pfam13518 105559001768 Winged helix-turn helix; Region: HTH_29; pfam13551 105559001769 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 105559001770 catalytic residues [active] 105559001771 hinge region; other site 105559001772 alpha helical domain; other site 105559001773 Cytochrome c553 [Energy production and conversion]; Region: COG2863 105559001774 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 105559001775 Cytochrome c; Region: Cytochrom_C; cl11414 105559001776 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 105559001777 G1 box; other site 105559001778 GTP/Mg2+ binding site [chemical binding]; other site 105559001779 Switch I region; other site 105559001780 G2 box; other site 105559001781 G3 box; other site 105559001782 Switch II region; other site 105559001783 G4 box; other site 105559001784 G5 box; other site 105559001785 DNA polymerase I; Provisional; Region: PRK05755 105559001786 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 105559001787 active site 105559001788 metal binding site 1 [ion binding]; metal-binding site 105559001789 putative 5' ssDNA interaction site; other site 105559001790 metal binding site 3; metal-binding site 105559001791 metal binding site 2 [ion binding]; metal-binding site 105559001792 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 105559001793 putative DNA binding site [nucleotide binding]; other site 105559001794 putative metal binding site [ion binding]; other site 105559001795 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 105559001796 active site 105559001797 catalytic site [active] 105559001798 substrate binding site [chemical binding]; other site 105559001799 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 105559001800 active site 105559001801 DNA binding site [nucleotide binding] 105559001802 catalytic site [active] 105559001803 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 105559001804 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 105559001805 arginine decarboxylase; Provisional; Region: PRK05354 105559001806 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 105559001807 dimer interface [polypeptide binding]; other site 105559001808 active site 105559001809 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 105559001810 catalytic residues [active] 105559001811 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 105559001812 spermidine synthase; Provisional; Region: PRK00811 105559001813 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 105559001814 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 105559001815 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 105559001816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001817 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 105559001818 putative ADP-binding pocket [chemical binding]; other site 105559001819 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 105559001820 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 105559001821 putative active site [active] 105559001822 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 105559001823 O-Antigen ligase; Region: Wzy_C; pfam04932 105559001824 MSP1 EGF domain 1; Region: EGF_MSP1_1; pfam12946 105559001825 Predicted membrane protein [Function unknown]; Region: COG1238 105559001826 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 105559001827 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 105559001828 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 105559001829 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 105559001830 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559001831 ligand binding site [chemical binding]; other site 105559001832 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 105559001833 N-acetyl-D-glucosamine binding site [chemical binding]; other site 105559001834 catalytic residue [active] 105559001835 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 105559001836 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 105559001837 dimer interface [polypeptide binding]; other site 105559001838 putative radical transfer pathway; other site 105559001839 diiron center [ion binding]; other site 105559001840 tyrosyl radical; other site 105559001841 ATP cone domain; Region: ATP-cone; pfam03477 105559001842 ATP cone domain; Region: ATP-cone; pfam03477 105559001843 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 105559001844 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 105559001845 protein-splicing catalytic site; other site 105559001846 thioester formation/cholesterol transfer; other site 105559001847 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 105559001848 Class I ribonucleotide reductase; Region: RNR_I; cd01679 105559001849 R2 peptide binding site; other site 105559001850 catalytic residues [active] 105559001851 active site 105559001852 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 105559001853 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 105559001854 catalytic triad [active] 105559001855 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 105559001856 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 105559001857 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 105559001858 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 105559001859 dihydrodipicolinate synthase; Region: dapA; TIGR00674 105559001860 dimer interface [polypeptide binding]; other site 105559001861 active site 105559001862 catalytic residue [active] 105559001863 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 105559001864 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 105559001865 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 105559001866 ATP binding site [chemical binding]; other site 105559001867 active site 105559001868 substrate binding site [chemical binding]; other site 105559001869 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 105559001870 active site 105559001871 substrate binding pocket [chemical binding]; other site 105559001872 dimer interface [polypeptide binding]; other site 105559001873 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 105559001874 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 105559001875 PYR/PP interface [polypeptide binding]; other site 105559001876 dimer interface [polypeptide binding]; other site 105559001877 TPP binding site [chemical binding]; other site 105559001878 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 105559001879 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 105559001880 TPP-binding site [chemical binding]; other site 105559001881 dimer interface [polypeptide binding]; other site 105559001882 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 105559001883 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 105559001884 putative valine binding site [chemical binding]; other site 105559001885 dimer interface [polypeptide binding]; other site 105559001886 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 105559001887 ketol-acid reductoisomerase; Provisional; Region: PRK05479 105559001888 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 105559001889 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 105559001890 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 105559001891 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 105559001892 2-isopropylmalate synthase; Validated; Region: PRK00915 105559001893 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 105559001894 active site 105559001895 catalytic residues [active] 105559001896 metal binding site [ion binding]; metal-binding site 105559001897 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 105559001898 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 105559001899 Fe-S cluster binding site [ion binding]; other site 105559001900 active site 105559001901 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 105559001902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559001903 Coenzyme A binding pocket [chemical binding]; other site 105559001904 Predicted membrane protein [Function unknown]; Region: COG3174 105559001905 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 105559001906 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 105559001907 dimer interface [polypeptide binding]; other site 105559001908 ADP-ribose binding site [chemical binding]; other site 105559001909 active site 105559001910 nudix motif; other site 105559001911 metal binding site [ion binding]; metal-binding site 105559001912 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 105559001913 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 105559001914 AAA ATPase domain; Region: AAA_16; pfam13191 105559001915 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 105559001916 Protein of unknown function (DUF444); Region: DUF444; cl17371 105559001917 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 105559001918 metal ion-dependent adhesion site (MIDAS); other site 105559001919 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 105559001920 SpoVR like protein; Region: SpoVR; pfam04293 105559001921 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 105559001922 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 105559001923 Multicopper oxidase; Region: Cu-oxidase; pfam00394 105559001924 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 105559001925 phosphoserine phosphatase SerB; Region: serB; TIGR00338 105559001926 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 105559001927 motif II; other site 105559001928 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 105559001929 Ammonia monooxygenase; Region: AMO; pfam02461 105559001930 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 105559001931 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 105559001932 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 105559001933 active site 105559001934 ribulose/triose binding site [chemical binding]; other site 105559001935 phosphate binding site [ion binding]; other site 105559001936 substrate (anthranilate) binding pocket [chemical binding]; other site 105559001937 product (indole) binding pocket [chemical binding]; other site 105559001938 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 105559001939 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 105559001940 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 105559001941 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 105559001942 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 105559001943 glutamine binding [chemical binding]; other site 105559001944 catalytic triad [active] 105559001945 anthranilate synthase component I; Provisional; Region: PRK13565 105559001946 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 105559001947 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 105559001948 phosphoglycolate phosphatase; Provisional; Region: PRK13222 105559001949 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 105559001950 motif II; other site 105559001951 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 105559001952 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 105559001953 substrate binding site [chemical binding]; other site 105559001954 hexamer interface [polypeptide binding]; other site 105559001955 metal binding site [ion binding]; metal-binding site 105559001956 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 105559001957 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 105559001958 putative Zn2+ binding site [ion binding]; other site 105559001959 putative DNA binding site [nucleotide binding]; other site 105559001960 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 105559001961 putative ABC transporter; Region: ycf24; CHL00085 105559001962 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 105559001963 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 105559001964 Walker A/P-loop; other site 105559001965 ATP binding site [chemical binding]; other site 105559001966 Q-loop/lid; other site 105559001967 ABC transporter signature motif; other site 105559001968 Walker B; other site 105559001969 D-loop; other site 105559001970 H-loop/switch region; other site 105559001971 FeS assembly protein SufD; Region: sufD; TIGR01981 105559001972 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 105559001973 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 105559001974 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 105559001975 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 105559001976 catalytic residue [active] 105559001977 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 105559001978 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 105559001979 trimerization site [polypeptide binding]; other site 105559001980 active site 105559001981 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 105559001982 transcriptional activator RfaH; Region: RfaH; TIGR01955 105559001983 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 105559001984 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 105559001985 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 105559001986 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 105559001987 Substrate binding site; other site 105559001988 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 105559001989 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 105559001990 ligand-binding site [chemical binding]; other site 105559001991 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 105559001992 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 105559001993 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 105559001994 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001995 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 105559001996 putative ADP-binding pocket [chemical binding]; other site 105559001997 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559001998 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 105559001999 putative ADP-binding pocket [chemical binding]; other site 105559002000 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559002001 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 105559002002 active site 105559002003 dimer interface [polypeptide binding]; other site 105559002004 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 105559002005 Ligand Binding Site [chemical binding]; other site 105559002006 Molecular Tunnel; other site 105559002007 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 105559002008 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559002009 putative ADP-binding pocket [chemical binding]; other site 105559002010 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 105559002011 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 105559002012 Mg++ binding site [ion binding]; other site 105559002013 putative catalytic motif [active] 105559002014 putative substrate binding site [chemical binding]; other site 105559002015 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 105559002016 IHF - DNA interface [nucleotide binding]; other site 105559002017 IHF dimer interface [polypeptide binding]; other site 105559002018 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 105559002019 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 105559002020 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 105559002021 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 105559002022 Iron-sulfur protein interface; other site 105559002023 proximal quinone binding site [chemical binding]; other site 105559002024 SdhD (CybS) interface [polypeptide binding]; other site 105559002025 proximal heme binding site [chemical binding]; other site 105559002026 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 105559002027 SdhC subunit interface [polypeptide binding]; other site 105559002028 proximal heme binding site [chemical binding]; other site 105559002029 cardiolipin binding site; other site 105559002030 Iron-sulfur protein interface; other site 105559002031 proximal quinone binding site [chemical binding]; other site 105559002032 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 105559002033 L-aspartate oxidase; Provisional; Region: PRK06175 105559002034 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 105559002035 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 105559002036 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 105559002037 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 105559002038 L-aspartate oxidase; Provisional; Region: PRK09077 105559002039 L-aspartate oxidase; Provisional; Region: PRK06175 105559002040 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 105559002041 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 105559002042 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559002043 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 105559002044 DNA binding residues [nucleotide binding] 105559002045 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 105559002046 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 105559002047 anti-sigma E factor; Provisional; Region: rseB; PRK09455 105559002048 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 105559002049 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 105559002050 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 105559002051 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 105559002052 protein binding site [polypeptide binding]; other site 105559002053 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 105559002054 protein binding site [polypeptide binding]; other site 105559002055 GTP-binding protein LepA; Provisional; Region: PRK05433 105559002056 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 105559002057 G1 box; other site 105559002058 putative GEF interaction site [polypeptide binding]; other site 105559002059 GTP/Mg2+ binding site [chemical binding]; other site 105559002060 Switch I region; other site 105559002061 G2 box; other site 105559002062 G3 box; other site 105559002063 Switch II region; other site 105559002064 G4 box; other site 105559002065 G5 box; other site 105559002066 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 105559002067 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 105559002068 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 105559002069 signal peptidase I; Provisional; Region: PRK10861 105559002070 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 105559002071 Catalytic site [active] 105559002072 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 105559002073 ribonuclease III; Reviewed; Region: rnc; PRK00102 105559002074 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 105559002075 dimerization interface [polypeptide binding]; other site 105559002076 active site 105559002077 metal binding site [ion binding]; metal-binding site 105559002078 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 105559002079 dsRNA binding site [nucleotide binding]; other site 105559002080 GTPase Era; Reviewed; Region: era; PRK00089 105559002081 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 105559002082 G1 box; other site 105559002083 GTP/Mg2+ binding site [chemical binding]; other site 105559002084 Switch I region; other site 105559002085 G2 box; other site 105559002086 Switch II region; other site 105559002087 G3 box; other site 105559002088 G4 box; other site 105559002089 G5 box; other site 105559002090 HDOD domain; Region: HDOD; pfam08668 105559002091 aminotransferase; Validated; Region: PRK08175 105559002092 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 105559002093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002094 homodimer interface [polypeptide binding]; other site 105559002095 catalytic residue [active] 105559002096 homoserine dehydrogenase; Provisional; Region: PRK06349 105559002097 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 105559002098 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 105559002099 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 105559002100 threonine synthase; Reviewed; Region: PRK06721 105559002101 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 105559002102 homodimer interface [polypeptide binding]; other site 105559002103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002104 catalytic residue [active] 105559002105 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 105559002106 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 105559002107 active site 105559002108 phosphorylation site [posttranslational modification] 105559002109 intermolecular recognition site; other site 105559002110 dimerization interface [polypeptide binding]; other site 105559002111 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 105559002112 GAF domain; Region: GAF; pfam01590 105559002113 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 105559002114 dimer interface [polypeptide binding]; other site 105559002115 phosphorylation site [posttranslational modification] 105559002116 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 105559002117 ATP binding site [chemical binding]; other site 105559002118 Mg2+ binding site [ion binding]; other site 105559002119 G-X-G motif; other site 105559002120 Response regulator receiver domain; Region: Response_reg; pfam00072 105559002121 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 105559002122 active site 105559002123 phosphorylation site [posttranslational modification] 105559002124 intermolecular recognition site; other site 105559002125 dimerization interface [polypeptide binding]; other site 105559002126 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 105559002127 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 105559002128 putative active site [active] 105559002129 heme pocket [chemical binding]; other site 105559002130 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559002131 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 105559002132 putative active site [active] 105559002133 heme pocket [chemical binding]; other site 105559002134 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 105559002135 dimer interface [polypeptide binding]; other site 105559002136 phosphorylation site [posttranslational modification] 105559002137 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 105559002138 ATP binding site [chemical binding]; other site 105559002139 Mg2+ binding site [ion binding]; other site 105559002140 G-X-G motif; other site 105559002141 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 105559002142 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 105559002143 putative active site; other site 105559002144 catalytic triad [active] 105559002145 putative dimer interface [polypeptide binding]; other site 105559002146 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 105559002147 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 105559002148 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 105559002149 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 105559002150 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559002151 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 105559002152 active site 105559002153 phosphorylation site [posttranslational modification] 105559002154 intermolecular recognition site; other site 105559002155 dimerization interface [polypeptide binding]; other site 105559002156 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 105559002157 DNA binding residues [nucleotide binding] 105559002158 dimerization interface [polypeptide binding]; other site 105559002159 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 105559002160 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 105559002161 FeS/SAM binding site; other site 105559002162 HemN C-terminal domain; Region: HemN_C; pfam06969 105559002163 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 105559002164 active site 105559002165 dimerization interface [polypeptide binding]; other site 105559002166 ribonuclease PH; Reviewed; Region: rph; PRK00173 105559002167 Ribonuclease PH; Region: RNase_PH_bact; cd11362 105559002168 hexamer interface [polypeptide binding]; other site 105559002169 active site 105559002170 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 105559002171 intersubunit interface [polypeptide binding]; other site 105559002172 active site 105559002173 Zn2+ binding site [ion binding]; other site 105559002174 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 105559002175 Cupin domain; Region: Cupin_2; cl17218 105559002176 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 105559002177 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 105559002178 motif I; other site 105559002179 motif II; other site 105559002180 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 105559002181 30S subunit binding site; other site 105559002182 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 105559002183 DNA-binding site [nucleotide binding]; DNA binding site 105559002184 RNA-binding motif; other site 105559002185 Haemolytic domain; Region: Haemolytic; pfam01809 105559002186 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 105559002187 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559002188 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 105559002189 TPR motif; other site 105559002190 binding surface 105559002191 Phosphotransferase enzyme family; Region: APH; pfam01636 105559002192 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 105559002193 active site 105559002194 ATP binding site [chemical binding]; other site 105559002195 substrate binding site [chemical binding]; other site 105559002196 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 105559002197 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 105559002198 Substrate binding site; other site 105559002199 metal-binding site 105559002200 ornithine carbamoyltransferase; Provisional; Region: PRK00779 105559002201 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 105559002202 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 105559002203 acetylornithine aminotransferase; Provisional; Region: PRK02627 105559002204 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 105559002205 inhibitor-cofactor binding pocket; inhibition site 105559002206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002207 catalytic residue [active] 105559002208 superoxide dismutase; Provisional; Region: PRK10543 105559002209 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 105559002210 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 105559002211 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 105559002212 putative GSH binding site [chemical binding]; other site 105559002213 catalytic residues [active] 105559002214 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 105559002215 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 105559002216 Clp amino terminal domain; Region: Clp_N; pfam02861 105559002217 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 105559002218 Walker A motif; other site 105559002219 ATP binding site [chemical binding]; other site 105559002220 Walker B motif; other site 105559002221 arginine finger; other site 105559002222 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 105559002223 Walker A motif; other site 105559002224 ATP binding site [chemical binding]; other site 105559002225 Walker B motif; other site 105559002226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 105559002227 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 105559002228 metal binding site 2 [ion binding]; metal-binding site 105559002229 putative DNA binding helix; other site 105559002230 metal binding site 1 [ion binding]; metal-binding site 105559002231 dimer interface [polypeptide binding]; other site 105559002232 structural Zn2+ binding site [ion binding]; other site 105559002233 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 105559002234 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 105559002235 putative metal binding residues [ion binding]; other site 105559002236 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 105559002237 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 105559002238 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 105559002239 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 105559002240 ABC-ATPase subunit interface; other site 105559002241 dimer interface [polypeptide binding]; other site 105559002242 putative PBP binding regions; other site 105559002243 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 105559002244 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 105559002245 dimer interface [polypeptide binding]; other site 105559002246 ADP-ribose binding site [chemical binding]; other site 105559002247 active site 105559002248 nudix motif; other site 105559002249 metal binding site [ion binding]; metal-binding site 105559002250 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 105559002251 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 105559002252 active site 105559002253 Short C-terminal domain; Region: SHOCT; pfam09851 105559002254 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 105559002255 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 105559002256 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 105559002257 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 105559002258 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 105559002259 active site 105559002260 phosphorylation site [posttranslational modification] 105559002261 intermolecular recognition site; other site 105559002262 dimerization interface [polypeptide binding]; other site 105559002263 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 105559002264 DNA binding site [nucleotide binding] 105559002265 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 105559002266 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559002267 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 105559002268 dimer interface [polypeptide binding]; other site 105559002269 phosphorylation site [posttranslational modification] 105559002270 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 105559002271 ATP binding site [chemical binding]; other site 105559002272 Mg2+ binding site [ion binding]; other site 105559002273 G-X-G motif; other site 105559002274 PBP superfamily domain; Region: PBP_like_2; cl17296 105559002275 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 105559002276 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 105559002277 conserved gate region; other site 105559002278 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 105559002279 ABC-ATPase subunit interface; other site 105559002280 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 105559002281 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 105559002282 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 105559002283 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 105559002284 dimer interface [polypeptide binding]; other site 105559002285 conserved gate region; other site 105559002286 putative PBP binding loops; other site 105559002287 ABC-ATPase subunit interface; other site 105559002288 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 105559002289 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 105559002290 Walker A/P-loop; other site 105559002291 ATP binding site [chemical binding]; other site 105559002292 Q-loop/lid; other site 105559002293 ABC transporter signature motif; other site 105559002294 Walker B; other site 105559002295 D-loop; other site 105559002296 H-loop/switch region; other site 105559002297 transcriptional regulator PhoU; Provisional; Region: PRK11115 105559002298 PhoU domain; Region: PhoU; pfam01895 105559002299 PhoU domain; Region: PhoU; pfam01895 105559002300 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 105559002301 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 105559002302 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 105559002303 putative active site [active] 105559002304 putative metal binding residues [ion binding]; other site 105559002305 signature motif; other site 105559002306 putative triphosphate binding site [ion binding]; other site 105559002307 DsrE/DsrF-like family; Region: DrsE; pfam02635 105559002308 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 105559002309 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 105559002310 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 105559002311 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 105559002312 Cytochrome c553 [Energy production and conversion]; Region: COG2863 105559002313 Cytochrome c; Region: Cytochrom_C; cl11414 105559002314 Cytochrome c [Energy production and conversion]; Region: COG3258 105559002315 Cytochrome c; Region: Cytochrom_C; pfam00034 105559002316 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 105559002317 RNA binding surface [nucleotide binding]; other site 105559002318 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 105559002319 putative hydrolase; Provisional; Region: PRK10985 105559002320 acetyl-CoA synthetase; Provisional; Region: PRK00174 105559002321 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 105559002322 active site 105559002323 CoA binding site [chemical binding]; other site 105559002324 acyl-activating enzyme (AAE) consensus motif; other site 105559002325 AMP binding site [chemical binding]; other site 105559002326 acetate binding site [chemical binding]; other site 105559002327 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; cl00083 105559002328 active site 105559002329 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 105559002330 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559002331 ligand binding site [chemical binding]; other site 105559002332 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 105559002333 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 105559002334 dimer interface [polypeptide binding]; other site 105559002335 decamer (pentamer of dimers) interface [polypeptide binding]; other site 105559002336 catalytic triad [active] 105559002337 peroxidatic and resolving cysteines [active] 105559002338 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 105559002339 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 105559002340 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 105559002341 motif II; other site 105559002342 hypothetical protein; Provisional; Region: PRK08960 105559002343 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 105559002344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002345 homodimer interface [polypeptide binding]; other site 105559002346 catalytic residue [active] 105559002347 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 105559002348 poly(A) polymerase; Region: pcnB; TIGR01942 105559002349 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 105559002350 active site 105559002351 NTP binding site [chemical binding]; other site 105559002352 metal binding triad [ion binding]; metal-binding site 105559002353 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 105559002354 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 105559002355 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 105559002356 catalytic center binding site [active] 105559002357 ATP binding site [chemical binding]; other site 105559002358 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 105559002359 oligomerization interface [polypeptide binding]; other site 105559002360 active site 105559002361 metal binding site [ion binding]; metal-binding site 105559002362 Pantoate-beta-alanine ligase; Region: PanC; cd00560 105559002363 pantoate--beta-alanine ligase; Region: panC; TIGR00018 105559002364 active site 105559002365 ATP-binding site [chemical binding]; other site 105559002366 pantoate-binding site; other site 105559002367 HXXH motif; other site 105559002368 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 105559002369 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 105559002370 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 105559002371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 105559002372 DNA-binding site [nucleotide binding]; DNA binding site 105559002373 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 105559002374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002375 homodimer interface [polypeptide binding]; other site 105559002376 catalytic residue [active] 105559002377 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 105559002378 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 105559002379 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 105559002380 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 105559002381 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 105559002382 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 105559002383 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 105559002384 N-acetyl-D-glucosamine binding site [chemical binding]; other site 105559002385 catalytic residue [active] 105559002386 prolyl-tRNA synthetase; Provisional; Region: PRK09194 105559002387 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 105559002388 dimer interface [polypeptide binding]; other site 105559002389 motif 1; other site 105559002390 active site 105559002391 motif 2; other site 105559002392 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 105559002393 putative deacylase active site [active] 105559002394 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 105559002395 active site 105559002396 motif 3; other site 105559002397 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 105559002398 anticodon binding site; other site 105559002399 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 105559002400 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 105559002401 active site 105559002402 multimer interface [polypeptide binding]; other site 105559002403 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 105559002404 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 105559002405 FeS/SAM binding site; other site 105559002406 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 105559002407 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 105559002408 binding surface 105559002409 TPR motif; other site 105559002410 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 105559002411 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 105559002412 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 105559002413 dimer interface [polypeptide binding]; other site 105559002414 motif 1; other site 105559002415 active site 105559002416 motif 2; other site 105559002417 motif 3; other site 105559002418 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 105559002419 anticodon binding site; other site 105559002420 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 105559002421 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 105559002422 active site 105559002423 dimer interface [polypeptide binding]; other site 105559002424 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 105559002425 dimer interface [polypeptide binding]; other site 105559002426 active site 105559002427 glycogen branching enzyme; Provisional; Region: PRK05402 105559002428 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 105559002429 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 105559002430 active site 105559002431 catalytic site [active] 105559002432 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 105559002433 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 105559002434 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 105559002435 ligand binding site; other site 105559002436 oligomer interface; other site 105559002437 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 105559002438 dimer interface [polypeptide binding]; other site 105559002439 N-terminal domain interface [polypeptide binding]; other site 105559002440 sulfate 1 binding site; other site 105559002441 4-alpha-glucanotransferase; Provisional; Region: PRK14508 105559002442 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 105559002443 lipoyl attachment site [posttranslational modification]; other site 105559002444 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 105559002445 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 105559002446 tetramer interface [polypeptide binding]; other site 105559002447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002448 catalytic residue [active] 105559002449 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 105559002450 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559002451 putative peptidase; Provisional; Region: PRK11649 105559002452 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559002453 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 105559002454 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 105559002455 active site 105559002456 HIGH motif; other site 105559002457 dimer interface [polypeptide binding]; other site 105559002458 KMSKS motif; other site 105559002459 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 105559002460 RNA binding surface [nucleotide binding]; other site 105559002461 Methyltransferase domain; Region: Methyltransf_31; pfam13847 105559002462 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 105559002463 S-adenosylmethionine binding site [chemical binding]; other site 105559002464 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 105559002465 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 105559002466 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 105559002467 Glycoprotease family; Region: Peptidase_M22; pfam00814 105559002468 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 105559002469 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 105559002470 FeS/SAM binding site; other site 105559002471 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 105559002472 Methyltransferase domain; Region: Methyltransf_31; pfam13847 105559002473 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 105559002474 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 105559002475 MutS domain I; Region: MutS_I; pfam01624 105559002476 MutS domain II; Region: MutS_II; pfam05188 105559002477 MutS domain III; Region: MutS_III; pfam05192 105559002478 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 105559002479 Walker A/P-loop; other site 105559002480 ATP binding site [chemical binding]; other site 105559002481 Q-loop/lid; other site 105559002482 ABC transporter signature motif; other site 105559002483 Walker B; other site 105559002484 D-loop; other site 105559002485 H-loop/switch region; other site 105559002486 Competence-damaged protein; Region: CinA; cl00666 105559002487 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 105559002488 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 105559002489 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 105559002490 recombinase A; Provisional; Region: recA; PRK09354 105559002491 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 105559002492 hexamer interface [polypeptide binding]; other site 105559002493 Walker A motif; other site 105559002494 ATP binding site [chemical binding]; other site 105559002495 Walker B motif; other site 105559002496 recombination regulator RecX; Reviewed; Region: recX; PRK00117 105559002497 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 105559002498 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 105559002499 motif 1; other site 105559002500 active site 105559002501 motif 2; other site 105559002502 motif 3; other site 105559002503 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 105559002504 DHHA1 domain; Region: DHHA1; pfam02272 105559002505 aspartate kinase; Reviewed; Region: PRK06635 105559002506 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 105559002507 putative nucleotide binding site [chemical binding]; other site 105559002508 putative catalytic residues [active] 105559002509 putative Mg ion binding site [ion binding]; other site 105559002510 putative aspartate binding site [chemical binding]; other site 105559002511 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 105559002512 putative allosteric regulatory site; other site 105559002513 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 105559002514 putative allosteric regulatory residue; other site 105559002515 carbon storage regulator; Provisional; Region: PRK01712 105559002516 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 105559002517 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 105559002518 active site 105559002519 catalytic site [active] 105559002520 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 105559002521 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 105559002522 putative ligand binding site [chemical binding]; other site 105559002523 putative NAD binding site [chemical binding]; other site 105559002524 catalytic site [active] 105559002525 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 105559002526 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 105559002527 dimer interface [polypeptide binding]; other site 105559002528 conserved gate region; other site 105559002529 putative PBP binding loops; other site 105559002530 ABC-ATPase subunit interface; other site 105559002531 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 105559002532 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 105559002533 dimer interface [polypeptide binding]; other site 105559002534 conserved gate region; other site 105559002535 putative PBP binding loops; other site 105559002536 ABC-ATPase subunit interface; other site 105559002537 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 105559002538 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 105559002539 Walker A/P-loop; other site 105559002540 ATP binding site [chemical binding]; other site 105559002541 Q-loop/lid; other site 105559002542 ABC transporter signature motif; other site 105559002543 Walker B; other site 105559002544 D-loop; other site 105559002545 H-loop/switch region; other site 105559002546 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 105559002547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 105559002548 Walker A/P-loop; other site 105559002549 ATP binding site [chemical binding]; other site 105559002550 Q-loop/lid; other site 105559002551 ABC transporter signature motif; other site 105559002552 Walker B; other site 105559002553 D-loop; other site 105559002554 H-loop/switch region; other site 105559002555 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 105559002556 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 105559002557 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 105559002558 Cysteine-rich domain; Region: CCG; pfam02754 105559002559 Cysteine-rich domain; Region: CCG; pfam02754 105559002560 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 105559002561 diiron binding motif [ion binding]; other site 105559002562 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559002563 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 105559002564 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 105559002565 TPR repeat; Region: TPR_11; pfam13414 105559002566 binding surface 105559002567 TPR motif; other site 105559002568 Tetratricopeptide repeat; Region: TPR_16; pfam13432 105559002569 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 105559002570 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 105559002571 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 105559002572 catalytic residues [active] 105559002573 central insert; other site 105559002574 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 105559002575 CcmE; Region: CcmE; pfam03100 105559002576 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 105559002577 heme exporter protein CcmC; Region: ccmC; TIGR01191 105559002578 CcmB protein; Region: CcmB; pfam03379 105559002579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559002580 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 105559002581 Walker A/P-loop; other site 105559002582 ATP binding site [chemical binding]; other site 105559002583 Q-loop/lid; other site 105559002584 ABC transporter signature motif; other site 105559002585 Walker B; other site 105559002586 D-loop; other site 105559002587 H-loop/switch region; other site 105559002588 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 105559002589 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 105559002590 G1 box; other site 105559002591 GTP/Mg2+ binding site [chemical binding]; other site 105559002592 G2 box; other site 105559002593 Switch I region; other site 105559002594 G3 box; other site 105559002595 Switch II region; other site 105559002596 G4 box; other site 105559002597 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 105559002598 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 105559002599 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 105559002600 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 105559002601 active site 105559002602 metal binding site [ion binding]; metal-binding site 105559002603 OsmC-like protein; Region: OsmC; cl00767 105559002604 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 105559002605 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 105559002606 ligand binding site [chemical binding]; other site 105559002607 flexible hinge region; other site 105559002608 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 105559002609 putative switch regulator; other site 105559002610 non-specific DNA interactions [nucleotide binding]; other site 105559002611 DNA binding site [nucleotide binding] 105559002612 sequence specific DNA binding site [nucleotide binding]; other site 105559002613 putative cAMP binding site [chemical binding]; other site 105559002614 Winged helix-turn helix; Region: HTH_29; pfam13551 105559002615 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 105559002616 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559002617 DNA-binding interface [nucleotide binding]; DNA binding site 105559002618 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559002619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559002620 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002621 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 105559002622 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002623 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559002624 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559002625 Sulfatase; Region: Sulfatase; pfam00884 105559002626 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 105559002627 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559002628 Sulfatase; Region: Sulfatase; pfam00884 105559002629 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 105559002630 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 105559002631 putative amphipathic alpha helix; other site 105559002632 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 105559002633 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 105559002634 Neurotransmitter-gated ion-channel transmembrane region; Region: Neur_chan_memb; pfam02932 105559002635 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559002636 Sulfatase; Region: Sulfatase; pfam00884 105559002637 Protein of unknown function (DUF502); Region: DUF502; pfam04367 105559002638 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 105559002639 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 105559002640 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 105559002641 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 105559002642 catalytic triad [active] 105559002643 BCCT family transporter; Region: BCCT; pfam02028 105559002644 multidrug efflux system protein; Provisional; Region: PRK11431 105559002645 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 105559002646 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 105559002647 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 105559002648 S-adenosylmethionine binding site [chemical binding]; other site 105559002649 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 105559002650 substrate binding pocket [chemical binding]; other site 105559002651 substrate-Mg2+ binding site; other site 105559002652 aspartate-rich region 1; other site 105559002653 aspartate-rich region 2; other site 105559002654 PilZ domain; Region: PilZ; pfam07238 105559002655 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 105559002656 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559002657 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559002658 metal binding site [ion binding]; metal-binding site 105559002659 active site 105559002660 I-site; other site 105559002661 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 105559002662 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 105559002663 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 105559002664 aromatic arch; other site 105559002665 DCoH dimer interaction site [polypeptide binding]; other site 105559002666 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 105559002667 DCoH tetramer interaction site [polypeptide binding]; other site 105559002668 substrate binding site [chemical binding]; other site 105559002669 Oxygen tolerance; Region: BatD; pfam13584 105559002670 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 105559002671 metal ion-dependent adhesion site (MIDAS); other site 105559002672 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 105559002673 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 105559002674 Protein of unknown function DUF58; Region: DUF58; pfam01882 105559002675 MoxR-like ATPases [General function prediction only]; Region: COG0714 105559002676 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 105559002677 Walker A motif; other site 105559002678 ATP binding site [chemical binding]; other site 105559002679 Walker B motif; other site 105559002680 arginine finger; other site 105559002681 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 105559002682 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 105559002683 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 105559002684 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 105559002685 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 105559002686 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 105559002687 ATP-grasp domain; Region: ATP-grasp_4; cl17255 105559002688 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 105559002689 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 105559002690 FtsX-like permease family; Region: FtsX; pfam02687 105559002691 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 105559002692 FtsX-like permease family; Region: FtsX; pfam02687 105559002693 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 105559002694 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 105559002695 Walker A/P-loop; other site 105559002696 ATP binding site [chemical binding]; other site 105559002697 Q-loop/lid; other site 105559002698 ABC transporter signature motif; other site 105559002699 Walker B; other site 105559002700 D-loop; other site 105559002701 H-loop/switch region; other site 105559002702 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559002703 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559002704 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559002705 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 105559002706 Ligand Binding Site [chemical binding]; other site 105559002707 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 105559002708 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 105559002709 tetramer interface [polypeptide binding]; other site 105559002710 active site 105559002711 Mg2+/Mn2+ binding site [ion binding]; other site 105559002712 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 105559002713 dimer interface [polypeptide binding]; other site 105559002714 Citrate synthase; Region: Citrate_synt; pfam00285 105559002715 active site 105559002716 citrylCoA binding site [chemical binding]; other site 105559002717 oxalacetate/citrate binding site [chemical binding]; other site 105559002718 coenzyme A binding site [chemical binding]; other site 105559002719 catalytic triad [active] 105559002720 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 105559002721 2-methylcitrate dehydratase; Region: prpD; TIGR02330 105559002722 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 105559002723 binding surface 105559002724 TPR motif; other site 105559002725 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 105559002726 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 105559002727 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 105559002728 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 105559002729 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 105559002730 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 105559002731 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 105559002732 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 105559002733 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559002734 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 105559002735 putative cation:proton antiport protein; Provisional; Region: PRK10669 105559002736 TrkA-N domain; Region: TrkA_N; pfam02254 105559002737 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559002738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559002739 Transposase; Region: HTH_Tnp_IS630; pfam01710 105559002740 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 105559002741 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559002742 DNA-binding interface [nucleotide binding]; DNA binding site 105559002743 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 105559002744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 105559002745 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 105559002746 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 105559002747 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 105559002748 dimer interface [polypeptide binding]; other site 105559002749 conserved gate region; other site 105559002750 putative PBP binding loops; other site 105559002751 ABC-ATPase subunit interface; other site 105559002752 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 105559002753 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 105559002754 dimer interface [polypeptide binding]; other site 105559002755 conserved gate region; other site 105559002756 putative PBP binding loops; other site 105559002757 ABC-ATPase subunit interface; other site 105559002758 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 105559002759 beta-hexosaminidase; Provisional; Region: PRK05337 105559002760 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 105559002761 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 105559002762 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 105559002763 Walker A/P-loop; other site 105559002764 ATP binding site [chemical binding]; other site 105559002765 Q-loop/lid; other site 105559002766 ABC transporter signature motif; other site 105559002767 Walker B; other site 105559002768 D-loop; other site 105559002769 H-loop/switch region; other site 105559002770 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 105559002771 putative carbohydrate binding site [chemical binding]; other site 105559002772 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 105559002773 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 105559002774 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 105559002775 trimer interface [polypeptide binding]; other site 105559002776 active site 105559002777 substrate binding site [chemical binding]; other site 105559002778 CoA binding site [chemical binding]; other site 105559002779 Methyltransferase domain; Region: Methyltransf_23; pfam13489 105559002780 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 105559002781 S-adenosylmethionine binding site [chemical binding]; other site 105559002782 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 105559002783 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 105559002784 Probable Catalytic site; other site 105559002785 metal-binding site 105559002786 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559002787 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 105559002788 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 105559002789 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 105559002790 Ligand binding site; other site 105559002791 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 105559002792 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 105559002793 active site 105559002794 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 105559002795 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 105559002796 S-adenosylmethionine binding site [chemical binding]; other site 105559002797 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559002798 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 105559002799 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 105559002800 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 105559002801 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 105559002802 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559002803 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 105559002804 putative active site [active] 105559002805 putative catalytic triad [active] 105559002806 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 105559002807 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 105559002808 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 105559002809 Probable Catalytic site; other site 105559002810 metal-binding site 105559002811 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 105559002812 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 105559002813 putative NAD(P) binding site [chemical binding]; other site 105559002814 active site 105559002815 putative substrate binding site [chemical binding]; other site 105559002816 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 105559002817 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 105559002818 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 105559002819 flagellar motor switch protein; Validated; Region: fliN; PRK05698 105559002820 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 105559002821 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 105559002822 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 105559002823 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 105559002824 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 105559002825 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 105559002826 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 105559002827 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 105559002828 FHIPEP family; Region: FHIPEP; pfam00771 105559002829 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 105559002830 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 105559002831 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 105559002832 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 105559002833 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 105559002834 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559002835 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559002836 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 105559002837 DNA binding residues [nucleotide binding] 105559002838 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 105559002839 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002840 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 105559002841 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559002842 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 105559002843 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 105559002844 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 105559002845 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 105559002846 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 105559002847 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559002848 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 105559002849 S-adenosylmethionine binding site [chemical binding]; other site 105559002850 von Willebrand factor type A domain; Region: VWA_2; pfam13519 105559002851 metal ion-dependent adhesion site (MIDAS); other site 105559002852 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 105559002853 HSP70 interaction site [polypeptide binding]; other site 105559002854 Domain of unknown function (DUF336); Region: DUF336; pfam03928 105559002855 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 105559002856 putative hydrophobic ligand binding site [chemical binding]; other site 105559002857 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 105559002858 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 105559002859 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 105559002860 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 105559002861 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 105559002862 Walker A/P-loop; other site 105559002863 ATP binding site [chemical binding]; other site 105559002864 Q-loop/lid; other site 105559002865 ABC transporter signature motif; other site 105559002866 Walker B; other site 105559002867 D-loop; other site 105559002868 H-loop/switch region; other site 105559002869 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 105559002870 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 105559002871 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 105559002872 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 105559002873 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 105559002874 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 105559002875 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 105559002876 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 105559002877 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 105559002878 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 105559002879 protein binding site [polypeptide binding]; other site 105559002880 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 105559002881 protein binding site [polypeptide binding]; other site 105559002882 Domain of unknown function DUF77; Region: DUF77; pfam01910 105559002883 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 105559002884 Horizontally Transferred TransMembrane Domain; Region: HTTM; smart00752 105559002885 Protein of unknown function, DUF393; Region: DUF393; pfam04134 105559002886 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 105559002887 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 105559002888 putative catalytic site [active] 105559002889 putative metal binding site [ion binding]; other site 105559002890 putative phosphate binding site [ion binding]; other site 105559002891 RibD C-terminal domain; Region: RibD_C; cl17279 105559002892 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 105559002893 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 105559002894 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559002895 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 105559002896 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 105559002897 Soluble P-type ATPase [General function prediction only]; Region: COG4087 105559002898 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 105559002899 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 105559002900 homodimer interface [polypeptide binding]; other site 105559002901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002902 catalytic residue [active] 105559002903 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 105559002904 homotrimer interaction site [polypeptide binding]; other site 105559002905 putative active site [active] 105559002906 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 105559002907 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 105559002908 metal binding site [ion binding]; metal-binding site 105559002909 dimer interface [polypeptide binding]; other site 105559002910 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 105559002911 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 105559002912 trimer interface [polypeptide binding]; other site 105559002913 active site 105559002914 substrate binding site [chemical binding]; other site 105559002915 CoA binding site [chemical binding]; other site 105559002916 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 105559002917 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 105559002918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559002919 homodimer interface [polypeptide binding]; other site 105559002920 catalytic residue [active] 105559002921 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 105559002922 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 105559002923 Walker A motif; other site 105559002924 ATP binding site [chemical binding]; other site 105559002925 Walker B motif; other site 105559002926 ribosome maturation protein RimP; Reviewed; Region: PRK00092 105559002927 Sm and related proteins; Region: Sm_like; cl00259 105559002928 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 105559002929 putative oligomer interface [polypeptide binding]; other site 105559002930 putative RNA binding site [nucleotide binding]; other site 105559002931 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 105559002932 NusA N-terminal domain; Region: NusA_N; pfam08529 105559002933 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 105559002934 RNA binding site [nucleotide binding]; other site 105559002935 homodimer interface [polypeptide binding]; other site 105559002936 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 105559002937 G-X-X-G motif; other site 105559002938 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 105559002939 G-X-X-G motif; other site 105559002940 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 105559002941 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 105559002942 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 105559002943 translation initiation factor IF-2; Region: IF-2; TIGR00487 105559002944 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 105559002945 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 105559002946 G1 box; other site 105559002947 putative GEF interaction site [polypeptide binding]; other site 105559002948 GTP/Mg2+ binding site [chemical binding]; other site 105559002949 Switch I region; other site 105559002950 G2 box; other site 105559002951 G3 box; other site 105559002952 Switch II region; other site 105559002953 G4 box; other site 105559002954 G5 box; other site 105559002955 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 105559002956 Translation-initiation factor 2; Region: IF-2; pfam11987 105559002957 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 105559002958 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 105559002959 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 105559002960 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 105559002961 RNA binding site [nucleotide binding]; other site 105559002962 active site 105559002963 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 105559002964 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 105559002965 16S/18S rRNA binding site [nucleotide binding]; other site 105559002966 S13e-L30e interaction site [polypeptide binding]; other site 105559002967 25S rRNA binding site [nucleotide binding]; other site 105559002968 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 105559002969 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 105559002970 RNase E interface [polypeptide binding]; other site 105559002971 trimer interface [polypeptide binding]; other site 105559002972 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 105559002973 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 105559002974 RNase E interface [polypeptide binding]; other site 105559002975 trimer interface [polypeptide binding]; other site 105559002976 active site 105559002977 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 105559002978 putative nucleic acid binding region [nucleotide binding]; other site 105559002979 G-X-X-G motif; other site 105559002980 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 105559002981 RNA binding site [nucleotide binding]; other site 105559002982 domain interface; other site 105559002983 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 105559002984 homodimer interface [polypeptide binding]; other site 105559002985 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 105559002986 active site pocket [active] 105559002987 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 105559002988 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 105559002989 active site 1 [active] 105559002990 dimer interface [polypeptide binding]; other site 105559002991 active site 2 [active] 105559002992 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 105559002993 dinuclear metal binding motif [ion binding]; other site 105559002994 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 105559002995 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 105559002996 tetramer interface [polypeptide binding]; other site 105559002997 TPP-binding site [chemical binding]; other site 105559002998 heterodimer interface [polypeptide binding]; other site 105559002999 phosphorylation loop region [posttranslational modification] 105559003000 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 105559003001 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 105559003002 alpha subunit interface [polypeptide binding]; other site 105559003003 TPP binding site [chemical binding]; other site 105559003004 heterodimer interface [polypeptide binding]; other site 105559003005 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559003006 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 105559003007 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 105559003008 E3 interaction surface; other site 105559003009 lipoyl attachment site [posttranslational modification]; other site 105559003010 e3 binding domain; Region: E3_binding; pfam02817 105559003011 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 105559003012 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 105559003013 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 105559003014 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559003015 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 105559003016 argininosuccinate synthase; Provisional; Region: PRK13820 105559003017 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 105559003018 ANP binding site [chemical binding]; other site 105559003019 Substrate Binding Site II [chemical binding]; other site 105559003020 Substrate Binding Site I [chemical binding]; other site 105559003021 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559003022 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 105559003023 adenylosuccinate lyase; Provisional; Region: PRK09285 105559003024 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 105559003025 tetramer interface [polypeptide binding]; other site 105559003026 active site 105559003027 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 105559003028 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559003029 active site 105559003030 biotin synthase; Provisional; Region: PRK15108 105559003031 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 105559003032 FeS/SAM binding site; other site 105559003033 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 105559003034 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 105559003035 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 105559003036 substrate-cofactor binding pocket; other site 105559003037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559003038 catalytic residue [active] 105559003039 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 105559003040 TAP-like protein; Region: Abhydrolase_4; pfam08386 105559003041 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 105559003042 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 105559003043 AAA domain; Region: AAA_26; pfam13500 105559003044 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 105559003045 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 105559003046 NAD synthetase; Reviewed; Region: nadE; PRK02628 105559003047 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 105559003048 multimer interface [polypeptide binding]; other site 105559003049 active site 105559003050 catalytic triad [active] 105559003051 protein interface 1 [polypeptide binding]; other site 105559003052 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 105559003053 homodimer interface [polypeptide binding]; other site 105559003054 NAD binding pocket [chemical binding]; other site 105559003055 ATP binding pocket [chemical binding]; other site 105559003056 Mg binding site [ion binding]; other site 105559003057 active-site loop [active] 105559003058 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003059 FG-GAP repeat; Region: FG-GAP; cl15299 105559003060 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003061 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003062 Family description; Region: VCBS; pfam13517 105559003063 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003064 FG-GAP repeat; Region: FG-GAP; cl15299 105559003065 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003066 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003067 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003068 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003069 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003070 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003071 TIGR03032 family protein; Region: TIGR03032 105559003072 Uncharacterized conserved protein [Function unknown]; Region: COG3189 105559003073 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 105559003074 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 105559003075 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 105559003076 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 105559003077 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 105559003078 V-type ATP synthase subunit A; Provisional; Region: PRK04192 105559003079 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 105559003080 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 105559003081 Walker A motif/ATP binding site; other site 105559003082 Walker B motif; other site 105559003083 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559003084 V-type ATP synthase subunit B; Provisional; Region: PRK04196 105559003085 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 105559003086 Walker A motif homologous position; other site 105559003087 Walker B motif; other site 105559003088 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559003089 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 105559003090 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 105559003091 RDD family; Region: RDD; pfam06271 105559003092 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 105559003093 active site 105559003094 catalytic triad [active] 105559003095 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 105559003096 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 105559003097 active site 105559003098 phosphorylation site [posttranslational modification] 105559003099 intermolecular recognition site; other site 105559003100 dimerization interface [polypeptide binding]; other site 105559003101 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 105559003102 dimerization interface [polypeptide binding]; other site 105559003103 DNA binding residues [nucleotide binding] 105559003104 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 105559003105 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 105559003106 active site 105559003107 phosphorylation site [posttranslational modification] 105559003108 intermolecular recognition site; other site 105559003109 dimerization interface [polypeptide binding]; other site 105559003110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 105559003111 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 105559003112 Histidine kinase; Region: HisKA_3; pfam07730 105559003113 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 105559003114 ATP binding site [chemical binding]; other site 105559003115 Mg2+ binding site [ion binding]; other site 105559003116 G-X-G motif; other site 105559003117 carbon starvation protein A; Provisional; Region: PRK15015 105559003118 Carbon starvation protein CstA; Region: CstA; pfam02554 105559003119 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 105559003120 Protein of unknown function (DUF466); Region: DUF466; pfam04328 105559003121 methionine sulfoxide reductase A; Provisional; Region: PRK00058 105559003122 Protein of unknown function (DUF423); Region: DUF423; pfam04241 105559003123 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 105559003124 active site 105559003125 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 105559003126 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 105559003127 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 105559003128 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 105559003129 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 105559003130 Peptidase M16C associated; Region: M16C_assoc; pfam08367 105559003131 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 105559003132 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 105559003133 motif II; other site 105559003134 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 105559003135 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 105559003136 dimerization interface [polypeptide binding]; other site 105559003137 domain crossover interface; other site 105559003138 redox-dependent activation switch; other site 105559003139 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 105559003140 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559003141 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559003142 Winged helix-turn helix; Region: HTH_29; pfam13551 105559003143 Helix-turn-helix domain; Region: HTH_28; pfam13518 105559003144 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559003145 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 105559003146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 105559003147 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 105559003148 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 105559003149 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559003150 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 105559003151 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559003152 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 105559003153 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 105559003154 DNA binding residues [nucleotide binding] 105559003155 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 105559003156 active site 105559003157 catalytic triad [active] 105559003158 oxyanion hole [active] 105559003159 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 105559003160 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 105559003161 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 105559003162 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 105559003163 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 105559003164 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 105559003165 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 105559003166 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 105559003167 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 105559003168 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 105559003169 putative active site [active] 105559003170 transaldolase; Provisional; Region: PRK03903 105559003171 catalytic residue [active] 105559003172 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 105559003173 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 105559003174 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559003175 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 105559003176 K+ potassium transporter; Region: K_trans; cl15781 105559003177 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 105559003178 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 105559003179 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 105559003180 NAD(P) binding site [chemical binding]; other site 105559003181 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 105559003182 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 105559003183 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 105559003184 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 105559003185 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559003186 ligand binding site [chemical binding]; other site 105559003187 putative lysogenization regulator; Reviewed; Region: PRK00218 105559003188 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 105559003189 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 105559003190 putative GTP cyclohydrolase; Provisional; Region: PRK13674 105559003191 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 105559003192 active site 105559003193 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 105559003194 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 105559003195 substrate binding pocket [chemical binding]; other site 105559003196 chain length determination region; other site 105559003197 substrate-Mg2+ binding site; other site 105559003198 catalytic residues [active] 105559003199 aspartate-rich region 1; other site 105559003200 active site lid residues [active] 105559003201 aspartate-rich region 2; other site 105559003202 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 105559003203 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 105559003204 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 105559003205 active site 105559003206 Riboflavin kinase; Region: Flavokinase; smart00904 105559003207 Beta-propeller repeat; Region: SBBP; pfam06739 105559003208 Beta-propeller repeat; Region: SBBP; pfam06739 105559003209 Beta-propeller repeat; Region: SBBP; pfam06739 105559003210 Beta-propeller repeat; Region: SBBP; pfam06739 105559003211 Beta-propeller repeat; Region: SBBP; pfam06739 105559003212 glycerate dehydrogenase; Provisional; Region: PRK06487 105559003213 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 105559003214 putative ligand binding site [chemical binding]; other site 105559003215 putative NAD binding site [chemical binding]; other site 105559003216 catalytic site [active] 105559003217 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 105559003218 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 105559003219 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 105559003220 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 105559003221 Methyltransferase domain; Region: Methyltransf_25; pfam13649 105559003222 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 105559003223 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 105559003224 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 105559003225 dimer interface [polypeptide binding]; other site 105559003226 active site 105559003227 glycine-pyridoxal phosphate binding site [chemical binding]; other site 105559003228 folate binding site [chemical binding]; other site 105559003229 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 105559003230 ATP cone domain; Region: ATP-cone; pfam03477 105559003231 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 105559003232 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 105559003233 catalytic motif [active] 105559003234 Zn binding site [ion binding]; other site 105559003235 RibD C-terminal domain; Region: RibD_C; cl17279 105559003236 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 105559003237 Lumazine binding domain; Region: Lum_binding; pfam00677 105559003238 Lumazine binding domain; Region: Lum_binding; pfam00677 105559003239 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 105559003240 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 105559003241 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 105559003242 dimerization interface [polypeptide binding]; other site 105559003243 active site 105559003244 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 105559003245 RNA/DNA hybrid binding site [nucleotide binding]; other site 105559003246 active site 105559003247 Predicted permeases [General function prediction only]; Region: COG0730 105559003248 PAS domain S-box; Region: sensory_box; TIGR00229 105559003249 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 105559003250 putative active site [active] 105559003251 heme pocket [chemical binding]; other site 105559003252 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559003253 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559003254 metal binding site [ion binding]; metal-binding site 105559003255 active site 105559003256 I-site; other site 105559003257 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 105559003258 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 105559003259 putative active site [active] 105559003260 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 105559003261 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 105559003262 G1 box; other site 105559003263 putative GEF interaction site [polypeptide binding]; other site 105559003264 GTP/Mg2+ binding site [chemical binding]; other site 105559003265 Switch I region; other site 105559003266 G2 box; other site 105559003267 G3 box; other site 105559003268 Switch II region; other site 105559003269 G4 box; other site 105559003270 G5 box; other site 105559003271 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 105559003272 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 105559003273 putative active site [active] 105559003274 Ap4A binding site [chemical binding]; other site 105559003275 nudix motif; other site 105559003276 putative metal binding site [ion binding]; other site 105559003277 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 105559003278 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 105559003279 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 105559003280 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 105559003281 Walker A motif; other site 105559003282 ATP binding site [chemical binding]; other site 105559003283 Walker B motif; other site 105559003284 arginine finger; other site 105559003285 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 105559003286 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 105559003287 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 105559003288 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 105559003289 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 105559003290 GatB domain; Region: GatB_Yqey; smart00845 105559003291 N-acetylglutamate synthase; Validated; Region: PRK05279 105559003292 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 105559003293 putative feedback inhibition sensing region; other site 105559003294 putative nucleotide binding site [chemical binding]; other site 105559003295 putative substrate binding site [chemical binding]; other site 105559003296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559003297 Coenzyme A binding pocket [chemical binding]; other site 105559003298 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 105559003299 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 105559003300 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 105559003301 substrate binding pocket [chemical binding]; other site 105559003302 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 105559003303 B12 binding site [chemical binding]; other site 105559003304 cobalt ligand [ion binding]; other site 105559003305 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 105559003306 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 105559003307 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 105559003308 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 105559003309 putative active site [active] 105559003310 PhoH-like protein; Region: PhoH; pfam02562 105559003311 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 105559003312 nucleoside/Zn binding site; other site 105559003313 dimer interface [polypeptide binding]; other site 105559003314 catalytic motif [active] 105559003315 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 105559003316 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 105559003317 catalytic site [active] 105559003318 G-X2-G-X-G-K; other site 105559003319 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 105559003320 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 105559003321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 105559003322 Zn2+ binding site [ion binding]; other site 105559003323 Mg2+ binding site [ion binding]; other site 105559003324 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 105559003325 synthetase active site [active] 105559003326 NTP binding site [chemical binding]; other site 105559003327 metal binding site [ion binding]; metal-binding site 105559003328 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 105559003329 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 105559003330 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 105559003331 homotrimer interaction site [polypeptide binding]; other site 105559003332 putative active site [active] 105559003333 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 105559003334 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 105559003335 ssDNA binding site; other site 105559003336 generic binding surface II; other site 105559003337 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 105559003338 ATP binding site [chemical binding]; other site 105559003339 putative Mg++ binding site [ion binding]; other site 105559003340 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 105559003341 nucleotide binding region [chemical binding]; other site 105559003342 ATP-binding site [chemical binding]; other site 105559003343 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 105559003344 UbiA prenyltransferase family; Region: UbiA; pfam01040 105559003345 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 105559003346 Staphylococcal nuclease homologues; Region: SNc; smart00318 105559003347 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 105559003348 Catalytic site; other site 105559003349 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 105559003350 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 105559003351 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 105559003352 HEAT repeats; Region: HEAT_2; pfam13646 105559003353 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 105559003354 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 105559003355 catalytic residues [active] 105559003356 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 105559003357 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 105559003358 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 105559003359 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 105559003360 ApbE family; Region: ApbE; pfam02424 105559003361 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 105559003362 S-adenosylmethionine binding site [chemical binding]; other site 105559003363 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 105559003364 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 105559003365 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 105559003366 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 105559003367 Walker A/P-loop; other site 105559003368 ATP binding site [chemical binding]; other site 105559003369 Q-loop/lid; other site 105559003370 ABC transporter signature motif; other site 105559003371 Walker B; other site 105559003372 D-loop; other site 105559003373 H-loop/switch region; other site 105559003374 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 105559003375 putative carbohydrate binding site [chemical binding]; other site 105559003376 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 105559003377 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 105559003378 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559003379 K-box region; Region: K-box; pfam01486 105559003380 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 105559003381 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 105559003382 metal-binding site 105559003383 Methyltransferase domain; Region: Methyltransf_23; pfam13489 105559003384 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 105559003385 S-adenosylmethionine binding site [chemical binding]; other site 105559003386 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 105559003387 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 105559003388 metal-binding site 105559003389 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 105559003390 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 105559003391 NADP binding site [chemical binding]; other site 105559003392 active site 105559003393 putative substrate binding site [chemical binding]; other site 105559003394 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 105559003395 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 105559003396 metal-binding site 105559003397 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559003398 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 105559003399 putative ADP-binding pocket [chemical binding]; other site 105559003400 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 105559003401 heme-binding residues [chemical binding]; other site 105559003402 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 105559003403 molybdopterin cofactor binding site; other site 105559003404 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 105559003405 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 105559003406 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 105559003407 4Fe-4S binding domain; Region: Fer4; cl02805 105559003408 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 105559003409 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 105559003410 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 105559003411 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 105559003412 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 105559003413 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 105559003414 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 105559003415 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 105559003416 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 105559003417 Subunit I/III interface [polypeptide binding]; other site 105559003418 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 105559003419 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 105559003420 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 105559003421 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 105559003422 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003423 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 105559003424 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003425 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559003426 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003427 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 105559003428 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 105559003429 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 105559003430 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 105559003431 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003432 Protein of unknown function (DUF938); Region: DUF938; pfam06080 105559003433 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 105559003434 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 105559003435 dimer interface [polypeptide binding]; other site 105559003436 TPP-binding site [chemical binding]; other site 105559003437 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 105559003438 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 105559003439 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 105559003440 E3 interaction surface; other site 105559003441 lipoyl attachment site [posttranslational modification]; other site 105559003442 e3 binding domain; Region: E3_binding; pfam02817 105559003443 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 105559003444 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 105559003445 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559003446 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 105559003447 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 105559003448 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 105559003449 active site 105559003450 universal stress protein UspE; Provisional; Region: PRK11175 105559003451 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 105559003452 Ligand Binding Site [chemical binding]; other site 105559003453 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 105559003454 Ligand Binding Site [chemical binding]; other site 105559003455 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559003456 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559003457 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559003458 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 105559003459 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 105559003460 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 105559003461 active site 105559003462 metal binding site [ion binding]; metal-binding site 105559003463 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 105559003464 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 105559003465 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559003466 ABC transporter; Region: ABC_tran_2; pfam12848 105559003467 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559003468 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 105559003469 cytochrome c-550; Provisional; Region: psbV; cl17239 105559003470 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 105559003471 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 105559003472 S-adenosylmethionine binding site [chemical binding]; other site 105559003473 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 105559003474 dimer interface [polypeptide binding]; other site 105559003475 substrate binding site [chemical binding]; other site 105559003476 ATP binding site [chemical binding]; other site 105559003477 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 105559003478 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 105559003479 PYR/PP interface [polypeptide binding]; other site 105559003480 dimer interface [polypeptide binding]; other site 105559003481 TPP binding site [chemical binding]; other site 105559003482 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 105559003483 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 105559003484 TPP-binding site [chemical binding]; other site 105559003485 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 105559003486 active site 105559003487 citrylCoA binding site [chemical binding]; other site 105559003488 oxalacetate binding site [chemical binding]; other site 105559003489 coenzyme A binding site [chemical binding]; other site 105559003490 catalytic triad [active] 105559003491 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 105559003492 citrylCoA binding site [chemical binding]; other site 105559003493 oxalacetate binding site [chemical binding]; other site 105559003494 coenzyme A binding site [chemical binding]; other site 105559003495 catalytic triad [active] 105559003496 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 105559003497 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 105559003498 N-terminal plug; other site 105559003499 ligand-binding site [chemical binding]; other site 105559003500 Transcriptional regulators [Transcription]; Region: PurR; COG1609 105559003501 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 105559003502 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 105559003503 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 105559003504 dimer interface [polypeptide binding]; other site 105559003505 phosphorylation site [posttranslational modification] 105559003506 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 105559003507 ATP binding site [chemical binding]; other site 105559003508 Mg2+ binding site [ion binding]; other site 105559003509 G-X-G motif; other site 105559003510 Response regulator receiver domain; Region: Response_reg; pfam00072 105559003511 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 105559003512 active site 105559003513 phosphorylation site [posttranslational modification] 105559003514 intermolecular recognition site; other site 105559003515 dimerization interface [polypeptide binding]; other site 105559003516 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 105559003517 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 105559003518 active site 105559003519 phosphorylation site [posttranslational modification] 105559003520 intermolecular recognition site; other site 105559003521 dimerization interface [polypeptide binding]; other site 105559003522 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 105559003523 putative binding surface; other site 105559003524 active site 105559003525 Response regulator receiver domain; Region: Response_reg; pfam00072 105559003526 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 105559003527 active site 105559003528 phosphorylation site [posttranslational modification] 105559003529 intermolecular recognition site; other site 105559003530 dimerization interface [polypeptide binding]; other site 105559003531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559003532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559003533 metal binding site [ion binding]; metal-binding site 105559003534 active site 105559003535 I-site; other site 105559003536 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 105559003537 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 105559003538 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 105559003539 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 105559003540 FtsX-like permease family; Region: FtsX; pfam02687 105559003541 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 105559003542 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 105559003543 Walker A/P-loop; other site 105559003544 ATP binding site [chemical binding]; other site 105559003545 Q-loop/lid; other site 105559003546 ABC transporter signature motif; other site 105559003547 Walker B; other site 105559003548 D-loop; other site 105559003549 H-loop/switch region; other site 105559003550 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 105559003551 nucleoside/Zn binding site; other site 105559003552 dimer interface [polypeptide binding]; other site 105559003553 catalytic motif [active] 105559003554 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 105559003555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559003556 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559003557 YtkA-like; Region: YtkA; pfam13115 105559003558 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 105559003559 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 105559003560 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003561 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 105559003562 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003563 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 105559003564 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559003565 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 105559003566 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 105559003567 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 105559003568 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 105559003569 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 105559003570 universal stress protein UspE; Provisional; Region: PRK11175 105559003571 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 105559003572 Ligand Binding Site [chemical binding]; other site 105559003573 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 105559003574 Ligand Binding Site [chemical binding]; other site 105559003575 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559003576 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 105559003577 active site 105559003578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 105559003579 SEC-C motif; Region: SEC-C; pfam02810 105559003580 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 105559003581 HD domain; Region: HD_4; pfam13328 105559003582 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 105559003583 synthetase active site [active] 105559003584 NTP binding site [chemical binding]; other site 105559003585 metal binding site [ion binding]; metal-binding site 105559003586 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 105559003587 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 105559003588 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 105559003589 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 105559003590 ATP binding site [chemical binding]; other site 105559003591 putative Mg++ binding site [ion binding]; other site 105559003592 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 105559003593 nucleotide binding region [chemical binding]; other site 105559003594 ATP-binding site [chemical binding]; other site 105559003595 Helicase associated domain (HA2); Region: HA2; pfam04408 105559003596 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 105559003597 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 105559003598 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 105559003599 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 105559003600 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 105559003601 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 105559003602 RNA binding site [nucleotide binding]; other site 105559003603 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 105559003604 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 105559003605 Flavodoxin; Region: Flavodoxin_1; pfam00258 105559003606 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 105559003607 FAD binding pocket [chemical binding]; other site 105559003608 FAD binding motif [chemical binding]; other site 105559003609 catalytic residues [active] 105559003610 NAD binding pocket [chemical binding]; other site 105559003611 phosphate binding motif [ion binding]; other site 105559003612 beta-alpha-beta structure motif; other site 105559003613 sulfite reductase subunit beta; Provisional; Region: PRK13504 105559003614 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 105559003615 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 105559003616 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 105559003617 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 105559003618 dimer interface [polypeptide binding]; other site 105559003619 decamer (pentamer of dimers) interface [polypeptide binding]; other site 105559003620 catalytic triad [active] 105559003621 Peptidase family M48; Region: Peptidase_M48; pfam01435 105559003622 AAA ATPase domain; Region: AAA_16; pfam13191 105559003623 aminopeptidase N; Provisional; Region: pepN; PRK14015 105559003624 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 105559003625 active site 105559003626 Zn binding site [ion binding]; other site 105559003627 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 105559003628 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 105559003629 catalytic residue [active] 105559003630 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 105559003631 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 105559003632 PYR/PP interface [polypeptide binding]; other site 105559003633 dimer interface [polypeptide binding]; other site 105559003634 TPP binding site [chemical binding]; other site 105559003635 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 105559003636 TPP-binding site [chemical binding]; other site 105559003637 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 105559003638 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 105559003639 tetramer interface [polypeptide binding]; other site 105559003640 active site 105559003641 Mg2+/Mn2+ binding site [ion binding]; other site 105559003642 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 105559003643 active site 105559003644 metal-binding site 105559003645 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 105559003646 active site 105559003647 metal-binding site 105559003648 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 105559003649 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 105559003650 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 105559003651 Active site cavity [active] 105559003652 catalytic acid [active] 105559003653 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 105559003654 active site lid residues [active] 105559003655 substrate binding pocket [chemical binding]; other site 105559003656 catalytic residues [active] 105559003657 substrate-Mg2+ binding site; other site 105559003658 aspartate-rich region 1; other site 105559003659 aspartate-rich region 2; other site 105559003660 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 105559003661 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 105559003662 catalytic triad [active] 105559003663 dimer interface [polypeptide binding]; other site 105559003664 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 105559003665 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 105559003666 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 105559003667 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 105559003668 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 105559003669 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559003670 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 105559003671 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 105559003672 active site clefts [active] 105559003673 zinc binding site [ion binding]; other site 105559003674 dimer interface [polypeptide binding]; other site 105559003675 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 105559003676 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 105559003677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559003678 Predicted membrane protein [Function unknown]; Region: COG2119 105559003679 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 105559003680 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 105559003681 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 105559003682 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 105559003683 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 105559003684 active site 105559003685 metal binding site [ion binding]; metal-binding site 105559003686 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 105559003687 Glucokinase; Region: Glucokinase; pfam02685 105559003688 glucokinase, proteobacterial type; Region: glk; TIGR00749 105559003689 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 105559003690 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 105559003691 putative active site [active] 105559003692 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 105559003693 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 105559003694 Predicted membrane protein [Function unknown]; Region: COG3212 105559003695 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 105559003696 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 105559003697 Predicted membrane protein [Function unknown]; Region: COG3212 105559003698 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 105559003699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 105559003700 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 105559003701 active site 105559003702 phosphorylation site [posttranslational modification] 105559003703 intermolecular recognition site; other site 105559003704 dimerization interface [polypeptide binding]; other site 105559003705 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 105559003706 DNA binding site [nucleotide binding] 105559003707 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 105559003708 ATP binding site [chemical binding]; other site 105559003709 Mg2+ binding site [ion binding]; other site 105559003710 G-X-G motif; other site 105559003711 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 105559003712 Protein of unknown function, DUF399; Region: DUF399; pfam04187 105559003713 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 105559003714 hypothetical protein; Provisional; Region: PRK05170 105559003715 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 105559003716 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 105559003717 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 105559003718 Walker A motif; other site 105559003719 ATP binding site [chemical binding]; other site 105559003720 Walker B motif; other site 105559003721 Predicted permeases [General function prediction only]; Region: COG0679 105559003722 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 105559003723 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 105559003724 putative MPT binding site; other site 105559003725 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 105559003726 DEAD/DEAH box helicase; Region: DEAD; pfam00270 105559003727 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 105559003728 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 105559003729 Sodium Bile acid symporter family; Region: SBF; pfam01758 105559003730 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 105559003731 Protein of unknown function (DUF989); Region: DUF989; pfam06181 105559003732 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 105559003733 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 105559003734 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 105559003735 Ycf46; Provisional; Region: ycf46; CHL00195 105559003736 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 105559003737 Walker A motif; other site 105559003738 ATP binding site [chemical binding]; other site 105559003739 Walker B motif; other site 105559003740 arginine finger; other site 105559003741 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 105559003742 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 105559003743 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 105559003744 catalytic residues [active] 105559003745 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 105559003746 isocitrate dehydrogenase; Validated; Region: PRK07362 105559003747 isocitrate dehydrogenase; Reviewed; Region: PRK07006 105559003748 Methyltransferase domain; Region: Methyltransf_23; pfam13489 105559003749 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 105559003750 S-adenosylmethionine binding site [chemical binding]; other site 105559003751 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 105559003752 putative catalytic site [active] 105559003753 putative metal binding site [ion binding]; other site 105559003754 putative phosphate binding site [ion binding]; other site 105559003755 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559003756 Domain of unknown function DUF20; Region: UPF0118; pfam01594 105559003757 chaperone protein DnaJ; Provisional; Region: PRK14299 105559003758 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 105559003759 HSP70 interaction site [polypeptide binding]; other site 105559003760 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 105559003761 substrate binding site [polypeptide binding]; other site 105559003762 dimer interface [polypeptide binding]; other site 105559003763 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 105559003764 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 105559003765 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 105559003766 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559003767 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 105559003768 NAD(P) binding site [chemical binding]; other site 105559003769 catalytic residues [active] 105559003770 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 105559003771 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559003772 TPR repeat; Region: TPR_11; pfam13414 105559003773 Cytochrome c; Region: Cytochrom_C; pfam00034 105559003774 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 105559003775 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 105559003776 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 105559003777 Putative water exit pathway; other site 105559003778 Putative proton exit pathway; other site 105559003779 MoxR-like ATPases [General function prediction only]; Region: COG0714 105559003780 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 105559003781 Walker A motif; other site 105559003782 ATP binding site [chemical binding]; other site 105559003783 Walker B motif; other site 105559003784 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 105559003785 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 105559003786 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 105559003787 metal ion-dependent adhesion site (MIDAS); other site 105559003788 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 105559003789 Uncharacterized conserved protein [Function unknown]; Region: COG0398 105559003790 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 105559003791 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 105559003792 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 105559003793 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 105559003794 Trp docking motif [polypeptide binding]; other site 105559003795 putative active site [active] 105559003796 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 105559003797 MgtE intracellular N domain; Region: MgtE_N; smart00924 105559003798 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 105559003799 Divalent cation transporter; Region: MgtE; cl00786 105559003800 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 105559003801 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 105559003802 active site 105559003803 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 105559003804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 105559003805 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 105559003806 putative dimerization interface [polypeptide binding]; other site 105559003807 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 105559003808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559003809 Walker A/P-loop; other site 105559003810 ATP binding site [chemical binding]; other site 105559003811 Q-loop/lid; other site 105559003812 ABC transporter signature motif; other site 105559003813 Walker B; other site 105559003814 D-loop; other site 105559003815 H-loop/switch region; other site 105559003816 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 105559003817 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 105559003818 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 105559003819 active site 105559003820 substrate binding site [chemical binding]; other site 105559003821 Mg2+ binding site [ion binding]; other site 105559003822 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 105559003823 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 105559003824 Peptidase family M48; Region: Peptidase_M48; cl12018 105559003825 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 105559003826 putative ADP-ribose binding site [chemical binding]; other site 105559003827 putative active site [active] 105559003828 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559003829 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559003830 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559003831 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 105559003832 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 105559003833 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 105559003834 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 105559003835 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 105559003836 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 105559003837 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 105559003838 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 105559003839 N-terminal plug; other site 105559003840 ligand-binding site [chemical binding]; other site 105559003841 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 105559003842 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 105559003843 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 105559003844 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 105559003845 Walker A/P-loop; other site 105559003846 ATP binding site [chemical binding]; other site 105559003847 Q-loop/lid; other site 105559003848 ABC transporter signature motif; other site 105559003849 Walker B; other site 105559003850 D-loop; other site 105559003851 H-loop/switch region; other site 105559003852 HlyD family secretion protein; Region: HlyD; pfam00529 105559003853 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559003854 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559003855 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 105559003856 IucA / IucC family; Region: IucA_IucC; pfam04183 105559003857 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 105559003858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 105559003859 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 105559003860 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 105559003861 IucA / IucC family; Region: IucA_IucC; pfam04183 105559003862 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 105559003863 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 105559003864 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 105559003865 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 105559003866 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559003867 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 105559003868 Methyltransferase domain; Region: Methyltransf_26; pfam13659 105559003869 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559003870 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559003871 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559003872 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 105559003873 Fic/DOC family; Region: Fic; pfam02661 105559003874 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559003875 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 105559003876 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 105559003877 ATP binding site [chemical binding]; other site 105559003878 putative Mg++ binding site [ion binding]; other site 105559003879 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 105559003880 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 105559003881 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 105559003882 active site 105559003883 FMN binding site [chemical binding]; other site 105559003884 substrate binding site [chemical binding]; other site 105559003885 putative catalytic residue [active] 105559003886 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 105559003887 Cytochrome c; Region: Cytochrom_C; pfam00034 105559003888 Lipoxygenase; Region: Lipoxygenase; pfam00305 105559003889 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 105559003890 active site 105559003891 nucleophile elbow; other site 105559003892 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 105559003893 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 105559003894 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 105559003895 putative active site [active] 105559003896 putative substrate binding site [chemical binding]; other site 105559003897 putative cosubstrate binding site; other site 105559003898 catalytic site [active] 105559003899 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 105559003900 transmembrane helices; other site 105559003901 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 105559003902 aconitate hydratase; Validated; Region: PRK09277 105559003903 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 105559003904 substrate binding site [chemical binding]; other site 105559003905 ligand binding site [chemical binding]; other site 105559003906 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 105559003907 substrate binding site [chemical binding]; other site 105559003908 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 105559003909 MgtE intracellular N domain; Region: MgtE_N; pfam03448 105559003910 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 105559003911 Divalent cation transporter; Region: MgtE; pfam01769 105559003912 glucose-1-dehydrogenase; Provisional; Region: PRK08936 105559003913 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 105559003914 NAD binding site [chemical binding]; other site 105559003915 homodimer interface [polypeptide binding]; other site 105559003916 active site 105559003917 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 105559003918 Cation efflux family; Region: Cation_efflux; pfam01545 105559003919 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 105559003920 TPR motif; other site 105559003921 binding surface 105559003922 CHAT domain; Region: CHAT; pfam12770 105559003923 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 105559003924 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 105559003925 homodimer interface [polypeptide binding]; other site 105559003926 active site 105559003927 TDP-binding site; other site 105559003928 acceptor substrate-binding pocket; other site 105559003929 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559003930 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 105559003931 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559003932 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 105559003933 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 105559003934 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 105559003935 Walker A/P-loop; other site 105559003936 ATP binding site [chemical binding]; other site 105559003937 Q-loop/lid; other site 105559003938 ABC transporter signature motif; other site 105559003939 Walker B; other site 105559003940 D-loop; other site 105559003941 H-loop/switch region; other site 105559003942 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 105559003943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559003944 Walker A/P-loop; other site 105559003945 ATP binding site [chemical binding]; other site 105559003946 Q-loop/lid; other site 105559003947 ABC transporter signature motif; other site 105559003948 Walker B; other site 105559003949 D-loop; other site 105559003950 H-loop/switch region; other site 105559003951 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 105559003952 hypothetical protein; Validated; Region: PRK06748; cl17661 105559003953 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559003954 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 105559003955 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 105559003956 dimer interface [polypeptide binding]; other site 105559003957 active site 105559003958 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 105559003959 BON domain; Region: BON; pfam04972 105559003960 BON domain; Region: BON; pfam04972 105559003961 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 105559003962 IHF dimer interface [polypeptide binding]; other site 105559003963 IHF - DNA interface [nucleotide binding]; other site 105559003964 periplasmic folding chaperone; Provisional; Region: PRK10788 105559003965 SurA N-terminal domain; Region: SurA_N_3; cl07813 105559003966 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 105559003967 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 105559003968 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 105559003969 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 105559003970 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 105559003971 NAD binding site [chemical binding]; other site 105559003972 homotetramer interface [polypeptide binding]; other site 105559003973 homodimer interface [polypeptide binding]; other site 105559003974 substrate binding site [chemical binding]; other site 105559003975 active site 105559003976 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 105559003977 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 105559003978 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 105559003979 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 105559003980 Cytochrome c; Region: Cytochrom_C; pfam00034 105559003981 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 105559003982 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 105559003983 D-pathway; other site 105559003984 Putative ubiquinol binding site [chemical binding]; other site 105559003985 Low-spin heme (heme b) binding site [chemical binding]; other site 105559003986 Putative water exit pathway; other site 105559003987 Binuclear center (heme o3/CuB) [ion binding]; other site 105559003988 K-pathway; other site 105559003989 Putative proton exit pathway; other site 105559003990 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 105559003991 Cytochrome c553 [Energy production and conversion]; Region: COG2863 105559003992 Cytochrome c; Region: Cytochrom_C; cl11414 105559003993 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003994 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 105559003995 acyl-CoA esterase; Provisional; Region: PRK10673 105559003996 PGAP1-like protein; Region: PGAP1; pfam07819 105559003997 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 105559003998 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 105559003999 active site 105559004000 phosphorylation site [posttranslational modification] 105559004001 intermolecular recognition site; other site 105559004002 dimerization interface [polypeptide binding]; other site 105559004003 PAS domain S-box; Region: sensory_box; TIGR00229 105559004004 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 105559004005 putative active site [active] 105559004006 heme pocket [chemical binding]; other site 105559004007 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559004008 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559004009 metal binding site [ion binding]; metal-binding site 105559004010 active site 105559004011 I-site; other site 105559004012 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 105559004013 Response regulator receiver domain; Region: Response_reg; pfam00072 105559004014 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 105559004015 active site 105559004016 phosphorylation site [posttranslational modification] 105559004017 intermolecular recognition site; other site 105559004018 dimerization interface [polypeptide binding]; other site 105559004019 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559004020 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 105559004021 putative active site [active] 105559004022 heme pocket [chemical binding]; other site 105559004023 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 105559004024 dimer interface [polypeptide binding]; other site 105559004025 phosphorylation site [posttranslational modification] 105559004026 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 105559004027 ATP binding site [chemical binding]; other site 105559004028 Mg2+ binding site [ion binding]; other site 105559004029 G-X-G motif; other site 105559004030 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 105559004031 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 105559004032 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 105559004033 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 105559004034 inhibitor-cofactor binding pocket; inhibition site 105559004035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559004036 catalytic residue [active] 105559004037 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 105559004038 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 105559004039 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 105559004040 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 105559004041 active site 105559004042 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559004043 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 105559004044 GcpE protein; Region: GcpE; pfam04551 105559004045 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 105559004046 putative membrane protein; Region: HpnL; TIGR03476 105559004047 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 105559004048 hopanoid biosynthesis associated membrane protein HpnM; Region: HpnM; TIGR03481 105559004049 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 105559004050 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 105559004051 FeS/SAM binding site; other site 105559004052 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 105559004053 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 105559004054 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 105559004055 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 105559004056 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 105559004057 TPP-binding site; other site 105559004058 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 105559004059 PYR/PP interface [polypeptide binding]; other site 105559004060 dimer interface [polypeptide binding]; other site 105559004061 TPP binding site [chemical binding]; other site 105559004062 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 105559004063 CopC domain; Region: CopC; pfam04234 105559004064 Copper resistance protein D; Region: CopD; cl00563 105559004065 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 105559004066 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 105559004067 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 105559004068 active site 105559004069 catalytic site [active] 105559004070 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 105559004071 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 105559004072 THF binding site; other site 105559004073 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 105559004074 substrate binding site [chemical binding]; other site 105559004075 THF binding site; other site 105559004076 zinc-binding site [ion binding]; other site 105559004077 hopanoid C-3 methylase HpnR; Region: HpnR_B12_rSAM; TIGR04367 105559004078 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 105559004079 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 105559004080 FeS/SAM binding site; other site 105559004081 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 105559004082 Uncharacterized conserved protein [Function unknown]; Region: COG2135 105559004083 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 105559004084 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 105559004085 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 105559004086 active site 105559004087 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 105559004088 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 105559004089 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 105559004090 dimer interface [polypeptide binding]; other site 105559004091 active site 105559004092 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 105559004093 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 105559004094 substrate binding site [chemical binding]; other site 105559004095 oxyanion hole (OAH) forming residues; other site 105559004096 trimer interface [polypeptide binding]; other site 105559004097 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 105559004098 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 105559004099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 105559004100 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 105559004101 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 105559004102 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 105559004103 phosphoglucomutase; Region: PLN02307 105559004104 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 105559004105 substrate binding site [chemical binding]; other site 105559004106 dimer interface [polypeptide binding]; other site 105559004107 active site 105559004108 metal binding site [ion binding]; metal-binding site 105559004109 Maf-like protein; Region: Maf; pfam02545 105559004110 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 105559004111 active site 105559004112 dimer interface [polypeptide binding]; other site 105559004113 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 105559004114 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 105559004115 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 105559004116 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 105559004117 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 105559004118 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 105559004119 SurA N-terminal domain; Region: SurA_N; pfam09312 105559004120 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 105559004121 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 105559004122 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 105559004123 OstA-like protein; Region: OstA; cl00844 105559004124 Organic solvent tolerance protein; Region: OstA_C; pfam04453 105559004125 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 105559004126 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 105559004127 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 105559004128 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 105559004129 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 105559004130 CT1975-like protein; Region: Cas_CT1975; pfam09344 105559004131 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 105559004132 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 105559004133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 105559004134 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 105559004135 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 105559004136 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559004137 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 105559004138 active site 105559004139 phosphorylation site [posttranslational modification] 105559004140 intermolecular recognition site; other site 105559004141 dimerization interface [polypeptide binding]; other site 105559004142 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 105559004143 DNA binding residues [nucleotide binding] 105559004144 dimerization interface [polypeptide binding]; other site 105559004145 Transcriptional regulator; Region: Rrf2; cl17282 105559004146 Rrf2 family protein; Region: rrf2_super; TIGR00738 105559004147 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 105559004148 Protein of unknown function, DUF482; Region: DUF482; pfam04339 105559004149 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 105559004150 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 105559004151 Arginase family; Region: Arginase; cd09989 105559004152 active site 105559004153 Mn binding site [ion binding]; other site 105559004154 oligomer interface [polypeptide binding]; other site 105559004155 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 105559004156 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 105559004157 inhibitor-cofactor binding pocket; inhibition site 105559004158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559004159 catalytic residue [active] 105559004160 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 105559004161 Dodecin; Region: Dodecin; pfam07311 105559004162 Ferritin-like domain; Region: Ferritin; pfam00210 105559004163 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 105559004164 dinuclear metal binding motif [ion binding]; other site 105559004165 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 105559004166 Proline dehydrogenase; Region: Pro_dh; pfam01619 105559004167 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 105559004168 Glutamate binding site [chemical binding]; other site 105559004169 NAD binding site [chemical binding]; other site 105559004170 catalytic residues [active] 105559004171 Response regulator receiver domain; Region: Response_reg; pfam00072 105559004172 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 105559004173 active site 105559004174 phosphorylation site [posttranslational modification] 105559004175 intermolecular recognition site; other site 105559004176 dimerization interface [polypeptide binding]; other site 105559004177 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 105559004178 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 105559004179 putative active site [active] 105559004180 heme pocket [chemical binding]; other site 105559004181 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 105559004182 dimer interface [polypeptide binding]; other site 105559004183 phosphorylation site [posttranslational modification] 105559004184 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 105559004185 ATP binding site [chemical binding]; other site 105559004186 Mg2+ binding site [ion binding]; other site 105559004187 G-X-G motif; other site 105559004188 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 105559004189 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 105559004190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559004191 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 105559004192 DNA binding residues [nucleotide binding] 105559004193 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559004194 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 105559004195 active site 105559004196 phosphorylation site [posttranslational modification] 105559004197 intermolecular recognition site; other site 105559004198 dimerization interface [polypeptide binding]; other site 105559004199 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 105559004200 DNA binding residues [nucleotide binding] 105559004201 dimerization interface [polypeptide binding]; other site 105559004202 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 105559004203 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 105559004204 active site 105559004205 phosphorylation site [posttranslational modification] 105559004206 intermolecular recognition site; other site 105559004207 dimerization interface [polypeptide binding]; other site 105559004208 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 105559004209 PAS domain; Region: PAS_9; pfam13426 105559004210 putative active site [active] 105559004211 heme pocket [chemical binding]; other site 105559004212 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 105559004213 dimer interface [polypeptide binding]; other site 105559004214 phosphorylation site [posttranslational modification] 105559004215 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 105559004216 ATP binding site [chemical binding]; other site 105559004217 Mg2+ binding site [ion binding]; other site 105559004218 G-X-G motif; other site 105559004219 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 105559004220 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 105559004221 DNA binding site [nucleotide binding] 105559004222 dimer interface [polypeptide binding]; other site 105559004223 active site 105559004224 Int/Topo IB signature motif; other site 105559004225 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 105559004226 D-xylulose kinase; Region: XylB; TIGR01312 105559004227 nucleotide binding site [chemical binding]; other site 105559004228 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 105559004229 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 105559004230 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 105559004231 Walker A/P-loop; other site 105559004232 ATP binding site [chemical binding]; other site 105559004233 Q-loop/lid; other site 105559004234 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 105559004235 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 105559004236 ABC transporter signature motif; other site 105559004237 Walker B; other site 105559004238 D-loop; other site 105559004239 H-loop/switch region; other site 105559004240 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 105559004241 FtsZ protein binding site [polypeptide binding]; other site 105559004242 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 105559004243 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 105559004244 nucleotide binding pocket [chemical binding]; other site 105559004245 K-X-D-G motif; other site 105559004246 catalytic site [active] 105559004247 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 105559004248 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 105559004249 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 105559004250 Dimer interface [polypeptide binding]; other site 105559004251 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 105559004252 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 105559004253 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 105559004254 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 105559004255 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 105559004256 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559004257 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559004258 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559004259 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 105559004260 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_1; cd08581 105559004261 putative active site [active] 105559004262 catalytic site [active] 105559004263 putative metal binding site [ion binding]; other site 105559004264 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 105559004265 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 105559004266 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 105559004267 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 105559004268 putative active site [active] 105559004269 catalytic site [active] 105559004270 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 105559004271 putative active site [active] 105559004272 catalytic site [active] 105559004273 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 105559004274 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559004275 NAD(P) binding site [chemical binding]; other site 105559004276 catalytic residues [active] 105559004277 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 105559004278 YccA-like proteins; Region: YccA_like; cd10433 105559004279 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 105559004280 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 105559004281 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 105559004282 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 105559004283 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 105559004284 catalytic residue [active] 105559004285 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 105559004286 active site 105559004287 PilZ domain; Region: PilZ; cl01260 105559004288 DNA polymerase III subunit delta'; Validated; Region: PRK05707 105559004289 DNA polymerase III subunit delta'; Validated; Region: PRK08485 105559004290 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 105559004291 thymidylate kinase; Validated; Region: tmk; PRK00698 105559004292 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 105559004293 TMP-binding site; other site 105559004294 ATP-binding site [chemical binding]; other site 105559004295 YceG-like family; Region: YceG; pfam02618 105559004296 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 105559004297 dimerization interface [polypeptide binding]; other site 105559004298 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 105559004299 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 105559004300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559004301 catalytic residue [active] 105559004302 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 105559004303 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 105559004304 dimer interface [polypeptide binding]; other site 105559004305 active site 105559004306 acyl carrier protein; Provisional; Region: acpP; PRK00982 105559004307 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 105559004308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 105559004309 NAD(P) binding site [chemical binding]; other site 105559004310 active site 105559004311 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 105559004312 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 105559004313 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 105559004314 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 105559004315 dimer interface [polypeptide binding]; other site 105559004316 active site 105559004317 CoA binding pocket [chemical binding]; other site 105559004318 putative phosphate acyltransferase; Provisional; Region: PRK05331 105559004319 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 105559004320 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 105559004321 amidophosphoribosyltransferase; Provisional; Region: PRK09246 105559004322 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 105559004323 active site 105559004324 tetramer interface [polypeptide binding]; other site 105559004325 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559004326 active site 105559004327 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 105559004328 Colicin V production protein; Region: Colicin_V; cl00567 105559004329 Sporulation related domain; Region: SPOR; pfam05036 105559004330 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 105559004331 Found in ATP-dependent protease La (LON); Region: LON; smart00464 105559004332 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 105559004333 Walker A motif; other site 105559004334 ATP binding site [chemical binding]; other site 105559004335 Walker B motif; other site 105559004336 arginine finger; other site 105559004337 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 105559004338 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 105559004339 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 105559004340 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 105559004341 Walker A motif; other site 105559004342 ATP binding site [chemical binding]; other site 105559004343 Walker B motif; other site 105559004344 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 105559004345 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 105559004346 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 105559004347 oligomer interface [polypeptide binding]; other site 105559004348 active site residues [active] 105559004349 trigger factor; Provisional; Region: tig; PRK01490 105559004350 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 105559004351 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 105559004352 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 105559004353 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 105559004354 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 105559004355 active site 105559004356 catalytic site [active] 105559004357 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 105559004358 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 105559004359 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 105559004360 catalytic site [active] 105559004361 active site 105559004362 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 105559004363 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 105559004364 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 105559004365 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 105559004366 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 105559004367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 105559004368 catalytic residue [active] 105559004369 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 105559004370 Rrf2 family protein; Region: rrf2_super; TIGR00738 105559004371 serine O-acetyltransferase; Region: cysE; TIGR01172 105559004372 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 105559004373 trimer interface [polypeptide binding]; other site 105559004374 active site 105559004375 substrate binding site [chemical binding]; other site 105559004376 CoA binding site [chemical binding]; other site 105559004377 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 105559004378 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 105559004379 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 105559004380 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 105559004381 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 105559004382 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 105559004383 GIY-YIG motif/motif A; other site 105559004384 active site 105559004385 catalytic site [active] 105559004386 putative DNA binding site [nucleotide binding]; other site 105559004387 metal binding site [ion binding]; metal-binding site 105559004388 UvrB/uvrC motif; Region: UVR; pfam02151 105559004389 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 105559004390 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 105559004391 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 105559004392 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 105559004393 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 105559004394 ATP binding site [chemical binding]; other site 105559004395 putative Mg++ binding site [ion binding]; other site 105559004396 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 105559004397 nucleotide binding region [chemical binding]; other site 105559004398 ATP-binding site [chemical binding]; other site 105559004399 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 105559004400 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 105559004401 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 105559004402 Predicted transcriptional regulator [Transcription]; Region: COG1959 105559004403 Transcriptional regulator; Region: Rrf2; cl17282 105559004404 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 105559004405 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 105559004406 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 105559004407 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 105559004408 dimer interface [polypeptide binding]; other site 105559004409 active site residues [active] 105559004410 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 105559004411 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 105559004412 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 105559004413 thiS-thiF/thiG interaction site; other site 105559004414 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 105559004415 ThiS interaction site; other site 105559004416 putative active site [active] 105559004417 tetramer interface [polypeptide binding]; other site 105559004418 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 105559004419 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 105559004420 active site 105559004421 phosphorylation site [posttranslational modification] 105559004422 intermolecular recognition site; other site 105559004423 dimerization interface [polypeptide binding]; other site 105559004424 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 105559004425 DNA binding residues [nucleotide binding] 105559004426 dimerization interface [polypeptide binding]; other site 105559004427 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 105559004428 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 105559004429 ligand binding site [chemical binding]; other site 105559004430 flexible hinge region; other site 105559004431 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 105559004432 fumarate hydratase; Reviewed; Region: fumC; PRK00485 105559004433 Class II fumarases; Region: Fumarase_classII; cd01362 105559004434 active site 105559004435 tetramer interface [polypeptide binding]; other site 105559004436 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 105559004437 Sulfate transporter family; Region: Sulfate_transp; pfam00916 105559004438 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 105559004439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 105559004440 HAMP domain; Region: HAMP; pfam00672 105559004441 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 105559004442 dimer interface [polypeptide binding]; other site 105559004443 phosphorylation site [posttranslational modification] 105559004444 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 105559004445 ATP binding site [chemical binding]; other site 105559004446 G-X-G motif; other site 105559004447 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559004448 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 105559004449 active site 105559004450 phosphorylation site [posttranslational modification] 105559004451 intermolecular recognition site; other site 105559004452 dimerization interface [polypeptide binding]; other site 105559004453 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 105559004454 Walker A motif; other site 105559004455 ATP binding site [chemical binding]; other site 105559004456 Walker B motif; other site 105559004457 arginine finger; other site 105559004458 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559004459 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 105559004460 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 105559004461 Walker A motif; other site 105559004462 ATP binding site [chemical binding]; other site 105559004463 Walker B motif; other site 105559004464 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 105559004465 TPR motif; other site 105559004466 binding surface 105559004467 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 105559004468 Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]; Region: LysS; COG1384 105559004469 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559004470 active site 105559004471 nucleotide binding site [chemical binding]; other site 105559004472 HIGH motif; other site 105559004473 KMSKS motif; other site 105559004474 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 105559004475 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 105559004476 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 105559004477 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 105559004478 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 105559004479 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 105559004480 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 105559004481 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 105559004482 GAF domain; Region: GAF; pfam01590 105559004483 GAF domain; Region: GAF_2; pfam13185 105559004484 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 105559004485 PAS domain; Region: PAS_9; pfam13426 105559004486 putative active site [active] 105559004487 heme pocket [chemical binding]; other site 105559004488 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559004489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559004490 metal binding site [ion binding]; metal-binding site 105559004491 active site 105559004492 I-site; other site 105559004493 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 105559004494 glutathione reductase; Validated; Region: PRK06116 105559004495 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 105559004496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559004497 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 105559004498 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 105559004499 anti sigma factor interaction site; other site 105559004500 regulatory phosphorylation site [posttranslational modification]; other site 105559004501 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 105559004502 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 105559004503 substrate binding site [chemical binding]; other site 105559004504 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 105559004505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559004506 Probable transposase; Region: OrfB_IS605; pfam01385 105559004507 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 105559004508 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 105559004509 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 105559004510 active site 105559004511 dimer interface [polypeptide binding]; other site 105559004512 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 105559004513 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 105559004514 active site 105559004515 FMN binding site [chemical binding]; other site 105559004516 substrate binding site [chemical binding]; other site 105559004517 3Fe-4S cluster binding site [ion binding]; other site 105559004518 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 105559004519 domain interface; other site 105559004520 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 105559004521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 105559004522 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 105559004523 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 105559004524 CheB methylesterase; Region: CheB_methylest; pfam01339 105559004525 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 105559004526 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 105559004527 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 105559004528 PAS domain; Region: PAS_10; pfam13596 105559004529 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 105559004530 putative active site [active] 105559004531 heme pocket [chemical binding]; other site 105559004532 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 105559004533 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 105559004534 dimer interface [polypeptide binding]; other site 105559004535 phosphorylation site [posttranslational modification] 105559004536 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 105559004537 ATP binding site [chemical binding]; other site 105559004538 Mg2+ binding site [ion binding]; other site 105559004539 G-X-G motif; other site 105559004540 Response regulator receiver domain; Region: Response_reg; pfam00072 105559004541 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 105559004542 active site 105559004543 phosphorylation site [posttranslational modification] 105559004544 intermolecular recognition site; other site 105559004545 dimerization interface [polypeptide binding]; other site 105559004546 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 105559004547 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 105559004548 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 105559004549 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 105559004550 Ligand Binding Site [chemical binding]; other site 105559004551 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 105559004552 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 105559004553 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 105559004554 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 105559004555 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 105559004556 Protein of unknown function (DUF969); Region: DUF969; cl01573 105559004557 Predicted membrane protein [Function unknown]; Region: COG2323 105559004558 Predicted membrane protein [Function unknown]; Region: COG1808 105559004559 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 105559004560 FAD binding pocket [chemical binding]; other site 105559004561 FAD binding motif [chemical binding]; other site 105559004562 phosphate binding motif [ion binding]; other site 105559004563 beta-alpha-beta structure motif; other site 105559004564 NAD binding pocket [chemical binding]; other site 105559004565 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 105559004566 Walker A/P-loop; other site 105559004567 ATP binding site [chemical binding]; other site 105559004568 Q-loop/lid; other site 105559004569 ABC transporter signature motif; other site 105559004570 Walker B; other site 105559004571 D-loop; other site 105559004572 H-loop/switch region; other site 105559004573 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 105559004574 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 105559004575 FAD binding pocket [chemical binding]; other site 105559004576 FAD binding motif [chemical binding]; other site 105559004577 phosphate binding motif [ion binding]; other site 105559004578 beta-alpha-beta structure motif; other site 105559004579 NAD binding pocket [chemical binding]; other site 105559004580 Iron coordination center [ion binding]; other site 105559004581 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 105559004582 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 105559004583 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 105559004584 Malic enzyme, N-terminal domain; Region: malic; pfam00390 105559004585 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 105559004586 putative NAD(P) binding site [chemical binding]; other site 105559004587 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 105559004588 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 105559004589 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 105559004590 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 105559004591 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 105559004592 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559004593 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559004594 L-lactate permease; Region: Lactate_perm; cl00701 105559004595 Protein of unknown function, DUF488; Region: DUF488; pfam04343 105559004596 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 105559004597 Na binding site [ion binding]; other site 105559004598 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 105559004599 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 105559004600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 105559004601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559004602 Coenzyme A binding pocket [chemical binding]; other site 105559004603 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 105559004604 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 105559004605 inhibitor-cofactor binding pocket; inhibition site 105559004606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559004607 catalytic residue [active] 105559004608 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 105559004609 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 105559004610 metabolite-proton symporter; Region: 2A0106; TIGR00883 105559004611 putative substrate translocation pore; other site 105559004612 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 105559004613 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 105559004614 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559004615 putative ADP-binding pocket [chemical binding]; other site 105559004616 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 105559004617 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 105559004618 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 105559004619 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 105559004620 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 105559004621 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 105559004622 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 105559004623 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 105559004624 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 105559004625 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 105559004626 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 105559004627 RimK-like ATP-grasp domain; Region: RimK; pfam08443 105559004628 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 105559004629 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 105559004630 putative active site [active] 105559004631 Zn binding site [ion binding]; other site 105559004632 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 105559004633 putative substrate translocation pore; other site 105559004634 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 105559004635 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 105559004636 S-adenosylmethionine binding site [chemical binding]; other site 105559004637 ferrochelatase; Reviewed; Region: hemH; PRK00035 105559004638 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 105559004639 C-terminal domain interface [polypeptide binding]; other site 105559004640 active site 105559004641 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 105559004642 active site 105559004643 N-terminal domain interface [polypeptide binding]; other site 105559004644 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 105559004645 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 105559004646 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 105559004647 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 105559004648 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 105559004649 Outer membrane efflux protein; Region: OEP; pfam02321 105559004650 Outer membrane efflux protein; Region: OEP; pfam02321 105559004651 Outer membrane efflux protein; Region: OEP; pfam02321 105559004652 Outer membrane efflux protein; Region: OEP; pfam02321 105559004653 YtkA-like; Region: YtkA; pfam13115 105559004654 YtkA-like; Region: YtkA; pfam13115 105559004655 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 105559004656 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559004657 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 105559004658 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 105559004659 Protein of unknown function (DUF330); Region: DUF330; cl01135 105559004660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 105559004661 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 105559004662 mce related protein; Region: MCE; pfam02470 105559004663 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 105559004664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559004665 Walker A/P-loop; other site 105559004666 ATP binding site [chemical binding]; other site 105559004667 Q-loop/lid; other site 105559004668 ABC transporter signature motif; other site 105559004669 Walker B; other site 105559004670 D-loop; other site 105559004671 H-loop/switch region; other site 105559004672 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 105559004673 Permease; Region: Permease; pfam02405 105559004674 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 105559004675 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 105559004676 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559004677 Soluble P-type ATPase [General function prediction only]; Region: COG4087 105559004678 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559004679 Putative phosphatase (DUF442); Region: DUF442; cl17385 105559004680 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 105559004681 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 105559004682 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559004683 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 105559004684 putative glycosyl transferase; Provisional; Region: PRK10307 105559004685 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 105559004686 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 105559004687 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 105559004688 NADP-binding site; other site 105559004689 homotetramer interface [polypeptide binding]; other site 105559004690 substrate binding site [chemical binding]; other site 105559004691 homodimer interface [polypeptide binding]; other site 105559004692 active site 105559004693 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 105559004694 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 105559004695 PDZ domain; Region: PDZ_2; pfam13180 105559004696 protein binding site [polypeptide binding]; other site 105559004697 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 105559004698 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 105559004699 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 105559004700 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 105559004701 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 105559004702 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 105559004703 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 105559004704 NnrS protein; Region: NnrS; pfam05940 105559004705 Domain of unknown function DUF59; Region: DUF59; cl00941 105559004706 Predicted integral membrane protein [Function unknown]; Region: COG5615 105559004707 Uncharacterized conserved protein [Function unknown]; Region: COG3391 105559004708 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 105559004709 putative active site [active] 105559004710 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 105559004711 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 105559004712 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 105559004713 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 105559004714 putative dimer interface [polypeptide binding]; other site 105559004715 N-terminal domain interface [polypeptide binding]; other site 105559004716 putative substrate binding pocket (H-site) [chemical binding]; other site 105559004717 Pirin-related protein [General function prediction only]; Region: COG1741 105559004718 Pirin; Region: Pirin; pfam02678 105559004719 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 105559004720 LysR family transcriptional regulator; Provisional; Region: PRK14997 105559004721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 105559004722 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 105559004723 putative effector binding pocket; other site 105559004724 putative dimerization interface [polypeptide binding]; other site 105559004725 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 105559004726 DNA methylase; Region: N6_N4_Mtase; pfam01555 105559004727 DNA methylase; Region: N6_N4_Mtase; pfam01555 105559004728 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 105559004729 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 105559004730 Zn binding site [ion binding]; other site 105559004731 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 105559004732 Peptidase family M28; Region: Peptidase_M28; pfam04389 105559004733 metal binding site [ion binding]; metal-binding site 105559004734 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 105559004735 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 105559004736 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004737 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004738 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004739 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 105559004740 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 105559004741 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 105559004742 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 105559004743 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 105559004744 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 105559004745 putative lipid kinase; Reviewed; Region: PRK00861 105559004746 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 105559004747 phosphoenolpyruvate synthase; Validated; Region: PRK06464 105559004748 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 105559004749 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 105559004750 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 105559004751 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 105559004752 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 105559004753 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 105559004754 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559004755 Domain of unknown function DUF20; Region: UPF0118; pfam01594 105559004756 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 105559004757 putative hydrophobic ligand binding site [chemical binding]; other site 105559004758 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 105559004759 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 105559004760 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 105559004761 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 105559004762 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559004763 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 105559004764 Protein of unknown function, DUF599; Region: DUF599; cl01575 105559004765 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 105559004766 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 105559004767 oligomer interface [polypeptide binding]; other site 105559004768 metal binding site [ion binding]; metal-binding site 105559004769 metal binding site [ion binding]; metal-binding site 105559004770 Cl binding site [ion binding]; other site 105559004771 aspartate ring; other site 105559004772 basic sphincter; other site 105559004773 putative hydrophobic gate; other site 105559004774 periplasmic entrance; other site 105559004775 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 105559004776 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 105559004777 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 105559004778 heme binding site [chemical binding]; other site 105559004779 ferroxidase pore; other site 105559004780 ferroxidase diiron center [ion binding]; other site 105559004781 NnrS protein; Region: NnrS; pfam05940 105559004782 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 105559004783 Ligand Binding Site [chemical binding]; other site 105559004784 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 105559004785 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 105559004786 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559004787 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 105559004788 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 105559004789 motif II; other site 105559004790 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 105559004791 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 105559004792 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 105559004793 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 105559004794 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 105559004795 protein binding site [polypeptide binding]; other site 105559004796 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 105559004797 catalytic core [active] 105559004798 Y-family of DNA polymerases; Region: PolY; cl12025 105559004799 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 105559004800 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 105559004801 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 105559004802 substrate binding site [chemical binding]; other site 105559004803 catalytic Zn binding site [ion binding]; other site 105559004804 NAD binding site [chemical binding]; other site 105559004805 structural Zn binding site [ion binding]; other site 105559004806 dimer interface [polypeptide binding]; other site 105559004807 S-formylglutathione hydrolase; Region: PLN02442 105559004808 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 105559004809 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 105559004810 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 105559004811 active site 105559004812 nucleophile elbow; other site 105559004813 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 105559004814 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 105559004815 homodecamer interface [polypeptide binding]; other site 105559004816 GTP cyclohydrolase I; Provisional; Region: PLN03044 105559004817 active site 105559004818 putative catalytic site residues [active] 105559004819 zinc binding site [ion binding]; other site 105559004820 GTP-CH-I/GFRP interaction surface; other site 105559004821 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 105559004822 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 105559004823 putative active site [active] 105559004824 putative dimer interface [polypeptide binding]; other site 105559004825 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 105559004826 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 105559004827 putative dimer interface [polypeptide binding]; other site 105559004828 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 105559004829 Found in ATP-dependent protease La (LON); Region: LON; smart00464 105559004830 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 105559004831 Walker A motif; other site 105559004832 ATP binding site [chemical binding]; other site 105559004833 Walker B motif; other site 105559004834 arginine finger; other site 105559004835 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 105559004836 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 105559004837 Protein of unknown function (DUF511); Region: DUF511; pfam04373 105559004838 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 105559004839 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 105559004840 FtsH Extracellular; Region: FtsH_ext; pfam06480 105559004841 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 105559004842 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 105559004843 Walker A motif; other site 105559004844 ATP binding site [chemical binding]; other site 105559004845 Walker B motif; other site 105559004846 arginine finger; other site 105559004847 Peptidase family M41; Region: Peptidase_M41; pfam01434 105559004848 hypothetical protein; Provisional; Region: PRK10316 105559004849 YfdX protein; Region: YfdX; pfam10938 105559004850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 105559004851 Smr domain; Region: Smr; pfam01713 105559004852 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 105559004853 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 105559004854 dimerization interface [polypeptide binding]; other site 105559004855 ATP binding site [chemical binding]; other site 105559004856 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 105559004857 dimerization interface [polypeptide binding]; other site 105559004858 ATP binding site [chemical binding]; other site 105559004859 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 105559004860 putative active site [active] 105559004861 catalytic triad [active] 105559004862 RDD family; Region: RDD; pfam06271 105559004863 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 105559004864 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 105559004865 Predicted permeases [General function prediction only]; Region: COG0795 105559004866 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 105559004867 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559004868 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 105559004869 Walker A motif; other site 105559004870 ATP binding site [chemical binding]; other site 105559004871 Walker B motif; other site 105559004872 arginine finger; other site 105559004873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559004874 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 105559004875 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 105559004876 putative active site [active] 105559004877 putative active site [active] 105559004878 catalytic site [active] 105559004879 catalytic site [active] 105559004880 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 105559004881 PLD-like domain; Region: PLDc_2; pfam13091 105559004882 putative active site [active] 105559004883 catalytic site [active] 105559004884 Uncharacterized conserved protein [Function unknown]; Region: COG0398 105559004885 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 105559004886 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 105559004887 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559004888 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 105559004889 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 105559004890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 105559004891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 105559004892 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 105559004893 putative effector binding pocket; other site 105559004894 dimerization interface [polypeptide binding]; other site 105559004895 Uncharacterized conserved protein [Function unknown]; Region: COG3339 105559004896 Protein of unknown function, DUF393; Region: DUF393; pfam04134 105559004897 CAAX protease self-immunity; Region: Abi; pfam02517 105559004898 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 105559004899 FAD binding domain; Region: FAD_binding_4; pfam01565 105559004900 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 105559004901 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 105559004902 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 105559004903 N-terminal plug; other site 105559004904 ligand-binding site [chemical binding]; other site 105559004905 Ras GTPase Activating Domain; Region: RasGAP; cl02569 105559004906 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 105559004907 catalytic core [active] 105559004908 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 105559004909 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 105559004910 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 105559004911 active site 105559004912 (T/H)XGH motif; other site 105559004913 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 105559004914 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 105559004915 S-adenosylmethionine binding site [chemical binding]; other site 105559004916 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 105559004917 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 105559004918 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 105559004919 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 105559004920 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 105559004921 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 105559004922 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 105559004923 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 105559004924 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 105559004925 P loop; other site 105559004926 GTP binding site [chemical binding]; other site 105559004927 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 105559004928 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 105559004929 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 105559004930 DNA binding residues [nucleotide binding] 105559004931 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 105559004932 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 105559004933 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 105559004934 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 105559004935 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 105559004936 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 105559004937 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 105559004938 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 105559004939 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 105559004940 Ligand Binding Site [chemical binding]; other site 105559004941 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 105559004942 probable O-glycosylation ligase, exosortase A-associated; Region: PEP_O_lig_1; TIGR03097 105559004943 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 105559004944 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 105559004945 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 105559004946 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 105559004947 acyl-activating enzyme (AAE) consensus motif; other site 105559004948 acyl-activating enzyme (AAE) consensus motif; other site 105559004949 putative AMP binding site [chemical binding]; other site 105559004950 putative active site [active] 105559004951 putative CoA binding site [chemical binding]; other site 105559004952 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 105559004953 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 105559004954 dimer interface [polypeptide binding]; other site 105559004955 active site 105559004956 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 105559004957 catalytic residues [active] 105559004958 substrate binding site [chemical binding]; other site 105559004959 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 105559004960 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 105559004961 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 105559004962 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 105559004963 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 105559004964 acyl carrier protein; Provisional; Region: PRK07639 105559004965 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 105559004966 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 105559004967 Ligand Binding Site [chemical binding]; other site 105559004968 Molecular Tunnel; other site 105559004969 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 105559004970 TPR motif; other site 105559004971 binding surface 105559004972 TPR repeat; Region: TPR_11; pfam13414 105559004973 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 105559004974 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 105559004975 putative active site [active] 105559004976 putative metal binding site [ion binding]; other site 105559004977 Trm112p-like protein; Region: Trm112p; cl01066 105559004978 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 105559004979 S-adenosylmethionine binding site [chemical binding]; other site 105559004980 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 105559004981 Phosphotransferase enzyme family; Region: APH; pfam01636 105559004982 active site 105559004983 ATP binding site [chemical binding]; other site 105559004984 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 105559004985 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 105559004986 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 105559004987 acyl-activating enzyme (AAE) consensus motif; other site 105559004988 AMP binding site [chemical binding]; other site 105559004989 active site 105559004990 CoA binding site [chemical binding]; other site 105559004991 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 105559004992 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559004993 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 105559004994 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 105559004995 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 105559004996 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559004997 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 105559004998 active site 105559004999 dimer interface [polypeptide binding]; other site 105559005000 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 105559005001 Ligand Binding Site [chemical binding]; other site 105559005002 Molecular Tunnel; other site 105559005003 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 105559005004 active site 105559005005 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 105559005006 homodimer interface [polypeptide binding]; other site 105559005007 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 105559005008 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 105559005009 putative ADP-binding pocket [chemical binding]; other site 105559005010 exosortase A; Region: exosortase_1; TIGR03109 105559005011 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 105559005012 EpsI family protein; Region: EpsI_fam; TIGR02914 105559005013 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 105559005014 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 105559005015 FemAB-related protein, PEP-CTERM system-associated; Region: pepcterm_femAB; TIGR03019 105559005016 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 105559005017 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 105559005018 putative active site [active] 105559005019 putative catalytic site [active] 105559005020 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 105559005021 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 105559005022 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 105559005023 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 105559005024 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 105559005025 Chain length determinant protein; Region: Wzz; pfam02706 105559005026 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 105559005027 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 105559005028 SLBB domain; Region: SLBB; pfam10531 105559005029 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 105559005030 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 105559005031 binding surface 105559005032 TPR motif; other site 105559005033 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 105559005034 binding surface 105559005035 TPR motif; other site 105559005036 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 105559005037 binding surface 105559005038 TPR motif; other site 105559005039 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 105559005040 binding surface 105559005041 TPR motif; other site 105559005042 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 105559005043 binding surface 105559005044 TPR motif; other site 105559005045 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 105559005046 binding surface 105559005047 TPR motif; other site 105559005048 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 105559005049 TPR motif; other site 105559005050 binding surface 105559005051 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 105559005052 TPR motif; other site 105559005053 binding surface 105559005054 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 105559005055 TPR motif; other site 105559005056 binding surface 105559005057 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 105559005058 FAD binding domain; Region: FAD_binding_4; pfam01565 105559005059 PEP-CTERM motif; Region: VPEP; pfam07589 105559005060 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 105559005061 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 105559005062 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 105559005063 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 105559005064 active site 105559005065 phosphorylation site [posttranslational modification] 105559005066 intermolecular recognition site; other site 105559005067 dimerization interface [polypeptide binding]; other site 105559005068 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 105559005069 Walker A motif; other site 105559005070 ATP binding site [chemical binding]; other site 105559005071 Walker B motif; other site 105559005072 arginine finger; other site 105559005073 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559005074 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 105559005075 GAF domain; Region: GAF; cl17456 105559005076 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 105559005077 dimer interface [polypeptide binding]; other site 105559005078 phosphorylation site [posttranslational modification] 105559005079 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 105559005080 ATP binding site [chemical binding]; other site 105559005081 Mg2+ binding site [ion binding]; other site 105559005082 G-X-G motif; other site 105559005083 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 105559005084 Bacterial sugar transferase; Region: Bac_transf; pfam02397 105559005085 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 105559005086 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 105559005087 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 105559005088 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 105559005089 Part of AAA domain; Region: AAA_19; pfam13245 105559005090 Family description; Region: UvrD_C_2; pfam13538 105559005091 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 105559005092 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 105559005093 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 105559005094 Walker A motif; other site 105559005095 ATP binding site [chemical binding]; other site 105559005096 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 105559005097 Membrane fusogenic activity; Region: BMFP; pfam04380 105559005098 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 105559005099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 105559005100 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 105559005101 active site 105559005102 metal binding site [ion binding]; metal-binding site 105559005103 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 105559005104 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 105559005105 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 105559005106 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 105559005107 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 105559005108 active site residue [active] 105559005109 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 105559005110 hypothetical protein; Reviewed; Region: PRK09588 105559005111 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 105559005112 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 105559005113 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 105559005114 ATP binding site [chemical binding]; other site 105559005115 putative Mg++ binding site [ion binding]; other site 105559005116 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 105559005117 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559005118 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559005119 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559005120 active site 105559005121 NTP binding site [chemical binding]; other site 105559005122 metal binding triad [ion binding]; metal-binding site 105559005123 antibiotic binding site [chemical binding]; other site 105559005124 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 105559005125 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559005126 Methyltransferase domain; Region: Methyltransf_26; pfam13659 105559005127 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 105559005128 SmpB-tmRNA interface; other site 105559005129 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 105559005130 putative coenzyme Q binding site [chemical binding]; other site 105559005131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 105559005132 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 105559005133 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 105559005134 ferric uptake regulator; Provisional; Region: fur; PRK09462 105559005135 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 105559005136 metal binding site 2 [ion binding]; metal-binding site 105559005137 putative DNA binding helix; other site 105559005138 metal binding site 1 [ion binding]; metal-binding site 105559005139 dimer interface [polypeptide binding]; other site 105559005140 structural Zn2+ binding site [ion binding]; other site 105559005141 CAAX protease self-immunity; Region: Abi; pfam02517 105559005142 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 105559005143 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 105559005144 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 105559005145 Walker A/P-loop; other site 105559005146 ATP binding site [chemical binding]; other site 105559005147 Q-loop/lid; other site 105559005148 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 105559005149 ABC transporter signature motif; other site 105559005150 Walker B; other site 105559005151 D-loop; other site 105559005152 H-loop/switch region; other site 105559005153 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 105559005154 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 105559005155 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 105559005156 DHH family; Region: DHH; pfam01368 105559005157 DHHA1 domain; Region: DHHA1; pfam02272 105559005158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 105559005159 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 105559005160 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 105559005161 Walker A motif; other site 105559005162 ATP binding site [chemical binding]; other site 105559005163 Walker B motif; other site 105559005164 arginine finger; other site 105559005165 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 105559005166 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 105559005167 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 105559005168 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 105559005169 dimerization interface [polypeptide binding]; other site 105559005170 putative ATP binding site [chemical binding]; other site 105559005171 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 105559005172 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 105559005173 active site 105559005174 substrate binding site [chemical binding]; other site 105559005175 cosubstrate binding site; other site 105559005176 catalytic site [active] 105559005177 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 105559005178 trimer interface [polypeptide binding]; other site 105559005179 active site 105559005180 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 105559005181 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 105559005182 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 105559005183 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 105559005184 Probable Catalytic site; other site 105559005185 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 105559005186 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 105559005187 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 105559005188 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 105559005189 TrkA-C domain; Region: TrkA_C; pfam02080 105559005190 TrkA-C domain; Region: TrkA_C; pfam02080 105559005191 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 105559005192 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 105559005193 ferredoxin; Provisional; Region: PRK08764 105559005194 Putative Fe-S cluster; Region: FeS; pfam04060 105559005195 4Fe-4S binding domain; Region: Fer4; pfam00037 105559005196 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 105559005197 SLBB domain; Region: SLBB; pfam10531 105559005198 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 105559005199 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 105559005200 FMN-binding domain; Region: FMN_bind; cl01081 105559005201 electron transport complex RsxE subunit; Provisional; Region: PRK12405 105559005202 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 105559005203 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 105559005204 minor groove reading motif; other site 105559005205 helix-hairpin-helix signature motif; other site 105559005206 substrate binding pocket [chemical binding]; other site 105559005207 active site 105559005208 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 105559005209 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 105559005210 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 105559005211 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 105559005212 ATP binding site [chemical binding]; other site 105559005213 Mg2+ binding site [ion binding]; other site 105559005214 G-X-G motif; other site 105559005215 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 105559005216 nucleoside/Zn binding site; other site 105559005217 dimer interface [polypeptide binding]; other site 105559005218 catalytic motif [active] 105559005219 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 105559005220 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 105559005221 heme binding pocket [chemical binding]; other site 105559005222 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 105559005223 domain interactions; other site 105559005224 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 105559005225 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 105559005226 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 105559005227 catalytic motif [active] 105559005228 Catalytic residue [active] 105559005229 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 105559005230 active site 105559005231 catalytic triad [active] 105559005232 oxyanion hole [active] 105559005233 switch loop; other site 105559005234 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 105559005235 Uncharacterized conserved protein [Function unknown]; Region: COG0432 105559005236 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 105559005237 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 105559005238 homodimer interface [polypeptide binding]; other site 105559005239 substrate-cofactor binding pocket; other site 105559005240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559005241 catalytic residue [active] 105559005242 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 105559005243 PBP superfamily domain; Region: PBP_like_2; pfam12849 105559005244 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 105559005245 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 105559005246 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 105559005247 DNA binding residues [nucleotide binding] 105559005248 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 105559005249 IHF dimer interface [polypeptide binding]; other site 105559005250 IHF - DNA interface [nucleotide binding]; other site 105559005251 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 105559005252 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 105559005253 putative tRNA-binding site [nucleotide binding]; other site 105559005254 B3/4 domain; Region: B3_4; pfam03483 105559005255 tRNA synthetase B5 domain; Region: B5; smart00874 105559005256 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 105559005257 dimer interface [polypeptide binding]; other site 105559005258 motif 1; other site 105559005259 motif 3; other site 105559005260 motif 2; other site 105559005261 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 105559005262 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 105559005263 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 105559005264 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 105559005265 dimer interface [polypeptide binding]; other site 105559005266 motif 1; other site 105559005267 active site 105559005268 motif 2; other site 105559005269 motif 3; other site 105559005270 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 105559005271 23S rRNA binding site [nucleotide binding]; other site 105559005272 L21 binding site [polypeptide binding]; other site 105559005273 L13 binding site [polypeptide binding]; other site 105559005274 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 105559005275 translation initiation factor IF-3; Region: infC; TIGR00168 105559005276 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 105559005277 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 105559005278 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 105559005279 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 105559005280 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 105559005281 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 105559005282 active site 105559005283 dimer interface [polypeptide binding]; other site 105559005284 motif 1; other site 105559005285 motif 2; other site 105559005286 motif 3; other site 105559005287 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 105559005288 anticodon binding site; other site 105559005289 excinuclease ABC subunit B; Provisional; Region: PRK05298 105559005290 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 105559005291 ATP binding site [chemical binding]; other site 105559005292 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 105559005293 nucleotide binding region [chemical binding]; other site 105559005294 ATP-binding site [chemical binding]; other site 105559005295 Ultra-violet resistance protein B; Region: UvrB; pfam12344 105559005296 UvrB/uvrC motif; Region: UVR; pfam02151 105559005297 aspartate aminotransferase; Provisional; Region: PRK05764 105559005298 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 105559005299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559005300 homodimer interface [polypeptide binding]; other site 105559005301 catalytic residue [active] 105559005302 RRXRR protein; Region: RRXRR; pfam14239 105559005303 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 105559005304 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 105559005305 active site 105559005306 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 105559005307 Domain of unknown function DUF29; Region: DUF29; pfam01724 105559005308 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 105559005309 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 105559005310 putative Mg++ binding site [ion binding]; other site 105559005311 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 105559005312 nucleotide binding region [chemical binding]; other site 105559005313 ATP-binding site [chemical binding]; other site 105559005314 Restriction endonuclease; Region: Mrr_cat; pfam04471 105559005315 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 105559005316 OmpA family; Region: OmpA; pfam00691 105559005317 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 105559005318 inorganic pyrophosphatase; Provisional; Region: PRK00642 105559005319 dimer interface [polypeptide binding]; other site 105559005320 substrate binding site [chemical binding]; other site 105559005321 metal binding sites [ion binding]; metal-binding site 105559005322 PRC-barrel domain; Region: PRC; pfam05239 105559005323 PRC-barrel domain; Region: PRC; pfam05239 105559005324 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 105559005325 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559005326 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559005327 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559005328 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 105559005329 NADH dehydrogenase subunit B; Validated; Region: PRK06411 105559005330 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 105559005331 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 105559005332 NADH dehydrogenase subunit D; Validated; Region: PRK06075 105559005333 NADH dehydrogenase subunit E; Validated; Region: PRK07539 105559005334 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 105559005335 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 105559005336 putative dimer interface [polypeptide binding]; other site 105559005337 [2Fe-2S] cluster binding site [ion binding]; other site 105559005338 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 105559005339 SLBB domain; Region: SLBB; pfam10531 105559005340 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 105559005341 NADH dehydrogenase subunit G; Validated; Region: PRK08166 105559005342 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 105559005343 catalytic loop [active] 105559005344 iron binding site [ion binding]; other site 105559005345 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 105559005346 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 105559005347 [4Fe-4S] binding site [ion binding]; other site 105559005348 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 105559005349 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 105559005350 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 105559005351 4Fe-4S binding domain; Region: Fer4; pfam00037 105559005352 4Fe-4S binding domain; Region: Fer4; pfam00037 105559005353 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 105559005354 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 105559005355 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 105559005356 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 105559005357 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559005358 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559005359 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 105559005360 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559005361 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 105559005362 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559005363 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 105559005364 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 105559005365 putative active site [active] 105559005366 catalytic site [active] 105559005367 putative metal binding site [ion binding]; other site 105559005368 Protein of unknown function (DUF454); Region: DUF454; pfam04304 105559005369 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 105559005370 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 105559005371 YcfA-like protein; Region: YcfA; pfam07927 105559005372 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 105559005373 Protein of unknown function (DUF497); Region: DUF497; pfam04365 105559005374 hypothetical protein; Provisional; Region: PRK11019 105559005375 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 105559005376 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 105559005377 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 105559005378 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 105559005379 Rdx family; Region: Rdx; cl01407 105559005380 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 105559005381 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 105559005382 HIGH motif; other site 105559005383 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 105559005384 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 105559005385 active site 105559005386 KMSKS motif; other site 105559005387 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 105559005388 tRNA binding surface [nucleotide binding]; other site 105559005389 anticodon binding site; other site 105559005390 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 105559005391 nitrosocyanin; Region: nitroso_cyanin; TIGR03096 105559005392 Protoglobin; Region: Protoglobin; pfam11563 105559005393 Transcriptional regulators [Transcription]; Region: MarR; COG1846 105559005394 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 105559005395 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 105559005396 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 105559005397 M42 glutamyl aminopeptidase; Region: Peptidase_M42; pfam05343 105559005398 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 105559005399 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 105559005400 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 105559005401 active site 105559005402 Fe-S cluster binding site [ion binding]; other site 105559005403 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 105559005404 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 105559005405 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 105559005406 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 105559005407 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 105559005408 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 105559005409 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 105559005410 RibD C-terminal domain; Region: RibD_C; cl17279 105559005411 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 105559005412 putative NAD(P) binding site [chemical binding]; other site 105559005413 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 105559005414 active site 105559005415 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559005416 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 105559005417 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 105559005418 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 105559005419 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 105559005420 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 105559005421 ATP binding site [chemical binding]; other site 105559005422 putative Mg++ binding site [ion binding]; other site 105559005423 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 105559005424 ATP-binding site [chemical binding]; other site 105559005425 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 105559005426 FecR protein; Region: FecR; pfam04773 105559005427 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 105559005428 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 105559005429 TPR motif; other site 105559005430 binding surface 105559005431 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 105559005432 binding surface 105559005433 TPR motif; other site 105559005434 TPR repeat; Region: TPR_11; pfam13414 105559005435 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 105559005436 binding surface 105559005437 Tetratricopeptide repeat; Region: TPR_16; pfam13432 105559005438 TPR motif; other site 105559005439 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 105559005440 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 105559005441 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 105559005442 cyclase homology domain; Region: CHD; cd07302 105559005443 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 105559005444 nucleotidyl binding site; other site 105559005445 metal binding site [ion binding]; metal-binding site 105559005446 dimer interface [polypeptide binding]; other site 105559005447 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 105559005448 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 105559005449 ligand binding site [chemical binding]; other site 105559005450 flexible hinge region; other site 105559005451 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 105559005452 putative switch regulator; other site 105559005453 non-specific DNA interactions [nucleotide binding]; other site 105559005454 DNA binding site [nucleotide binding] 105559005455 sequence specific DNA binding site [nucleotide binding]; other site 105559005456 putative cAMP binding site [chemical binding]; other site 105559005457 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 105559005458 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559005459 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559005460 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 105559005461 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559005462 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 105559005463 dimer interface [polypeptide binding]; other site 105559005464 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 105559005465 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 105559005466 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 105559005467 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 105559005468 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 105559005469 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 105559005470 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 105559005471 DsbD alpha interface [polypeptide binding]; other site 105559005472 catalytic residues [active] 105559005473 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 105559005474 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 105559005475 catalytic residues [active] 105559005476 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 105559005477 Dehydroquinase class II; Region: DHquinase_II; pfam01220 105559005478 trimer interface [polypeptide binding]; other site 105559005479 active site 105559005480 dimer interface [polypeptide binding]; other site 105559005481 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 105559005482 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 105559005483 carboxyltransferase (CT) interaction site; other site 105559005484 biotinylation site [posttranslational modification]; other site 105559005485 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 105559005486 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 105559005487 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 105559005488 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 105559005489 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 105559005490 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 105559005491 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 105559005492 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 105559005493 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 105559005494 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 105559005495 purine monophosphate binding site [chemical binding]; other site 105559005496 dimer interface [polypeptide binding]; other site 105559005497 putative catalytic residues [active] 105559005498 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 105559005499 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 105559005500 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 105559005501 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 105559005502 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 105559005503 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 105559005504 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 105559005505 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 105559005506 dimer interface [polypeptide binding]; other site 105559005507 [2Fe-2S] cluster binding site [ion binding]; other site 105559005508 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 105559005509 active site lid residues [active] 105559005510 substrate binding pocket [chemical binding]; other site 105559005511 catalytic residues [active] 105559005512 substrate-Mg2+ binding site; other site 105559005513 aspartate-rich region 1; other site 105559005514 aspartate-rich region 2; other site 105559005515 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 105559005516 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 105559005517 RNA binding surface [nucleotide binding]; other site 105559005518 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 105559005519 probable active site [active] 105559005520 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 105559005521 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 105559005522 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 105559005523 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 105559005524 active site 105559005525 HIGH motif; other site 105559005526 dimer interface [polypeptide binding]; other site 105559005527 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559005528 active site 105559005529 KMSKS motif; other site 105559005530 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 105559005531 Peptidase family M50; Region: Peptidase_M50; pfam02163 105559005532 active site 105559005533 putative substrate binding region [chemical binding]; other site 105559005534 seryl-tRNA synthetase; Provisional; Region: PRK05431 105559005535 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 105559005536 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 105559005537 dimer interface [polypeptide binding]; other site 105559005538 active site 105559005539 motif 1; other site 105559005540 motif 2; other site 105559005541 motif 3; other site 105559005542 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 105559005543 AAA domain; Region: AAA_22; pfam13401 105559005544 Tetratricopeptide repeat; Region: TPR_12; pfam13424 105559005545 Tetratricopeptide repeat; Region: TPR_10; cl17452 105559005546 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 105559005547 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559005548 aspartate kinase; Validated; Region: PRK09181 105559005549 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 105559005550 nucleotide binding site [chemical binding]; other site 105559005551 substrate binding site [chemical binding]; other site 105559005552 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 105559005553 allosteric regulatory residue; other site 105559005554 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 105559005555 Ectoine synthase; Region: Ectoine_synth; pfam06339 105559005556 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 105559005557 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 105559005558 putative Zn2+ binding site [ion binding]; other site 105559005559 putative DNA binding site [nucleotide binding]; other site 105559005560 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 105559005561 S-adenosylmethionine binding site [chemical binding]; other site 105559005562 Patatin-like phospholipase; Region: Patatin; pfam01734 105559005563 active site 105559005564 nucleophile elbow; other site 105559005565 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 105559005566 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 105559005567 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559005568 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559005569 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 105559005570 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 105559005571 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 105559005572 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 105559005573 substrate binding site [chemical binding]; other site 105559005574 active site 105559005575 catalytic residues [active] 105559005576 heterodimer interface [polypeptide binding]; other site 105559005577 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 105559005578 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 105559005579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559005580 catalytic residue [active] 105559005581 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 105559005582 active site 105559005583 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 105559005584 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 105559005585 dimerization interface 3.5A [polypeptide binding]; other site 105559005586 active site 105559005587 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 105559005588 dockerin binding interface; other site 105559005589 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 105559005590 FimV N-terminal domain; Region: FimV_core; TIGR03505 105559005591 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 105559005592 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 105559005593 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 105559005594 Sulfatase; Region: Sulfatase; cl17466 105559005595 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 105559005596 tartrate dehydrogenase; Region: TTC; TIGR02089 105559005597 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 105559005598 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 105559005599 substrate binding site [chemical binding]; other site 105559005600 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 105559005601 dimerization interface [polypeptide binding]; other site 105559005602 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 105559005603 Peptidase family M50; Region: Peptidase_M50; pfam02163 105559005604 active site 105559005605 putative substrate binding region [chemical binding]; other site 105559005606 FOG: CBS domain [General function prediction only]; Region: COG0517 105559005607 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 105559005608 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 105559005609 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 105559005610 putative substrate translocation pore; other site 105559005611 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 105559005612 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 105559005613 active site 105559005614 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 105559005615 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 105559005616 putative metal binding site [ion binding]; other site 105559005617 hypothetical protein; Provisional; Region: PRK14013 105559005618 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 105559005619 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 105559005620 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 105559005621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559005622 active site 105559005623 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 105559005624 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 105559005625 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 105559005626 putative metal binding site [ion binding]; other site 105559005627 tellurite resistance protein terB; Region: terB; cd07176 105559005628 putative metal binding site [ion binding]; other site 105559005629 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 105559005630 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 105559005631 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 105559005632 putative NADP binding site [chemical binding]; other site 105559005633 putative substrate binding site [chemical binding]; other site 105559005634 active site 105559005635 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 105559005636 putative catalytic site [active] 105559005637 putative metal binding site [ion binding]; other site 105559005638 putative phosphate binding site [ion binding]; other site 105559005639 Cation transport protein; Region: TrkH; cl17365 105559005640 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 105559005641 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 105559005642 AAA domain; Region: AAA_30; pfam13604 105559005643 Family description; Region: UvrD_C_2; pfam13538 105559005644 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 105559005645 S-adenosylmethionine binding site [chemical binding]; other site 105559005646 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 105559005647 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 105559005648 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 105559005649 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 105559005650 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 105559005651 domain interfaces; other site 105559005652 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 105559005653 active site 105559005654 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 105559005655 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 105559005656 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 105559005657 putative catalytic residue [active] 105559005658 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 105559005659 Part of AAA domain; Region: AAA_19; pfam13245 105559005660 Family description; Region: UvrD_C_2; pfam13538 105559005661 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 105559005662 probable DNA repair protein; Region: TIGR03623 105559005663 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 105559005664 methionine sulfoxide reductase B; Provisional; Region: PRK00222 105559005665 SelR domain; Region: SelR; pfam01641 105559005666 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 105559005667 N-acetyl-D-glucosamine binding site [chemical binding]; other site 105559005668 catalytic residue [active] 105559005669 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 105559005670 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 105559005671 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559005672 active site 105559005673 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 105559005674 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 105559005675 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 105559005676 Ca2+ binding site [ion binding]; other site 105559005677 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 105559005678 VacJ like lipoprotein; Region: VacJ; cl01073 105559005679 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 105559005680 Winged helix-turn helix; Region: HTH_29; pfam13551 105559005681 Helix-turn-helix domain; Region: HTH_28; pfam13518 105559005682 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559005683 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559005684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559005685 antiporter inner membrane protein; Provisional; Region: PRK11670 105559005686 Domain of unknown function DUF59; Region: DUF59; pfam01883 105559005687 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 105559005688 Walker A motif; other site 105559005689 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 105559005690 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 105559005691 active site 105559005692 HIGH motif; other site 105559005693 KMSKS motif; other site 105559005694 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 105559005695 anticodon binding site; other site 105559005696 tRNA binding surface [nucleotide binding]; other site 105559005697 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 105559005698 dimer interface [polypeptide binding]; other site 105559005699 putative tRNA-binding site [nucleotide binding]; other site 105559005700 electron transport complex protein RsxA; Provisional; Region: PRK05151 105559005701 Uncharacterized conserved protein [Function unknown]; Region: COG0398 105559005702 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 105559005703 mercuric reductase; Validated; Region: PRK06370 105559005704 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 105559005705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559005706 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 105559005707 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 105559005708 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559005709 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 105559005710 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 105559005711 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 105559005712 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 105559005713 active site 105559005714 Zn binding site [ion binding]; other site 105559005715 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 105559005716 Uncharacterized conserved protein [Function unknown]; Region: COG1615 105559005717 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 105559005718 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 105559005719 hypothetical protein; Provisional; Region: PRK11820 105559005720 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 105559005721 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 105559005722 integrase; Provisional; Region: int; PHA02601 105559005723 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 105559005724 active site 105559005725 DNA binding site [nucleotide binding] 105559005726 Int/Topo IB signature motif; other site 105559005727 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 105559005728 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 105559005729 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 105559005730 homodimer interface [polypeptide binding]; other site 105559005731 NADP binding site [chemical binding]; other site 105559005732 substrate binding site [chemical binding]; other site 105559005733 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 105559005734 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 105559005735 active site 105559005736 HIGH motif; other site 105559005737 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 105559005738 KMSKS motif; other site 105559005739 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 105559005740 tRNA binding surface [nucleotide binding]; other site 105559005741 anticodon binding site; other site 105559005742 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559005743 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 105559005744 HIGH motif; other site 105559005745 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 105559005746 active site 105559005747 KMSKS motif; other site 105559005748 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 105559005749 substrate binding site [chemical binding]; other site 105559005750 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 105559005751 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 105559005752 putative active site [active] 105559005753 putative metal binding site [ion binding]; other site 105559005754 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 105559005755 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 105559005756 dimerization domain [polypeptide binding]; other site 105559005757 dimer interface [polypeptide binding]; other site 105559005758 catalytic residues [active] 105559005759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 105559005760 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 105559005761 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 105559005762 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 105559005763 active site 105559005764 Int/Topo IB signature motif; other site 105559005765 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 105559005766 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 105559005767 DNA binding site [nucleotide binding] 105559005768 active site 105559005769 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 105559005770 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 105559005771 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 105559005772 RimM N-terminal domain; Region: RimM; pfam01782 105559005773 PRC-barrel domain; Region: PRC; pfam05239 105559005774 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 105559005775 signal recognition particle protein; Provisional; Region: PRK10867 105559005776 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 105559005777 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 105559005778 P loop; other site 105559005779 GTP binding site [chemical binding]; other site 105559005780 Signal peptide binding domain; Region: SRP_SPB; pfam02978 105559005781 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 105559005782 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 105559005783 Domain of unknown function DUF21; Region: DUF21; pfam01595 105559005784 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 105559005785 Transporter associated domain; Region: CorC_HlyC; smart01091 105559005786 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 105559005787 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 105559005788 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 105559005789 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 105559005790 hydrophobic ligand binding site; other site 105559005791 adenine DNA glycosylase; Provisional; Region: PRK10880 105559005792 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 105559005793 minor groove reading motif; other site 105559005794 helix-hairpin-helix signature motif; other site 105559005795 substrate binding pocket [chemical binding]; other site 105559005796 active site 105559005797 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 105559005798 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 105559005799 DNA binding and oxoG recognition site [nucleotide binding] 105559005800 oxidative damage protection protein; Provisional; Region: PRK05408 105559005801 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 105559005802 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 105559005803 Type II transport protein GspH; Region: GspH; pfam12019 105559005804 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 105559005805 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 105559005806 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 105559005807 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 105559005808 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 105559005809 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 105559005810 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 105559005811 lipoprotein signal peptidase; Provisional; Region: PRK14787 105559005812 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 105559005813 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 105559005814 active site 105559005815 HIGH motif; other site 105559005816 nucleotide binding site [chemical binding]; other site 105559005817 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 105559005818 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 105559005819 active site 105559005820 KMSKS motif; other site 105559005821 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 105559005822 tRNA binding surface [nucleotide binding]; other site 105559005823 anticodon binding site; other site 105559005824 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 105559005825 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 105559005826 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 105559005827 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 105559005828 active site 105559005829 tetramer interface; other site 105559005830 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 105559005831 CoA binding domain; Region: CoA_binding; cl17356 105559005832 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 105559005833 NAD(P) binding site [chemical binding]; other site 105559005834 homodimer interface [polypeptide binding]; other site 105559005835 substrate binding site [chemical binding]; other site 105559005836 active site 105559005837 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 105559005838 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 105559005839 CAP-like domain; other site 105559005840 active site 105559005841 primary dimer interface [polypeptide binding]; other site 105559005842 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 105559005843 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 105559005844 ATP binding site [chemical binding]; other site 105559005845 Mg2+ binding site [ion binding]; other site 105559005846 G-X-G motif; other site 105559005847 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 105559005848 anchoring element; other site 105559005849 dimer interface [polypeptide binding]; other site 105559005850 ATP binding site [chemical binding]; other site 105559005851 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 105559005852 active site 105559005853 metal binding site [ion binding]; metal-binding site 105559005854 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 105559005855 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 105559005856 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 105559005857 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 105559005858 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_6; cd06256 105559005859 putative active site [active] 105559005860 Zn binding site [ion binding]; other site 105559005861 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 105559005862 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 105559005863 CysD dimerization site [polypeptide binding]; other site 105559005864 G1 box; other site 105559005865 putative GEF interaction site [polypeptide binding]; other site 105559005866 GTP/Mg2+ binding site [chemical binding]; other site 105559005867 Switch I region; other site 105559005868 G2 box; other site 105559005869 G3 box; other site 105559005870 Switch II region; other site 105559005871 G4 box; other site 105559005872 G5 box; other site 105559005873 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 105559005874 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 105559005875 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 105559005876 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 105559005877 Active Sites [active] 105559005878 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 105559005879 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 105559005880 Active Sites [active] 105559005881 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 105559005882 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 105559005883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 105559005884 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 105559005885 substrate binding site [chemical binding]; other site 105559005886 dimerization interface [polypeptide binding]; other site 105559005887 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 105559005888 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 105559005889 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 105559005890 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 105559005891 active site 105559005892 putative substrate binding pocket [chemical binding]; other site 105559005893 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 105559005894 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 105559005895 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 105559005896 S-adenosylmethionine binding site [chemical binding]; other site 105559005897 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 105559005898 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 105559005899 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 105559005900 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 105559005901 alphaNTD homodimer interface [polypeptide binding]; other site 105559005902 alphaNTD - beta interaction site [polypeptide binding]; other site 105559005903 alphaNTD - beta' interaction site [polypeptide binding]; other site 105559005904 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 105559005905 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 105559005906 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 105559005907 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 105559005908 RNA binding surface [nucleotide binding]; other site 105559005909 30S ribosomal protein S11; Validated; Region: PRK05309 105559005910 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 105559005911 30S ribosomal protein S13; Region: bact_S13; TIGR03631 105559005912 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 105559005913 SecY translocase; Region: SecY; pfam00344 105559005914 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 105559005915 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 105559005916 23S rRNA binding site [nucleotide binding]; other site 105559005917 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 105559005918 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 105559005919 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 105559005920 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 105559005921 5S rRNA interface [nucleotide binding]; other site 105559005922 23S rRNA interface [nucleotide binding]; other site 105559005923 L5 interface [polypeptide binding]; other site 105559005924 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 105559005925 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 105559005926 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 105559005927 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 105559005928 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 105559005929 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 105559005930 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 105559005931 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 105559005932 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 105559005933 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 105559005934 RNA binding site [nucleotide binding]; other site 105559005935 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 105559005936 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 105559005937 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 105559005938 23S rRNA interface [nucleotide binding]; other site 105559005939 putative translocon interaction site; other site 105559005940 signal recognition particle (SRP54) interaction site; other site 105559005941 L23 interface [polypeptide binding]; other site 105559005942 trigger factor interaction site; other site 105559005943 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 105559005944 23S rRNA interface [nucleotide binding]; other site 105559005945 5S rRNA interface [nucleotide binding]; other site 105559005946 putative antibiotic binding site [chemical binding]; other site 105559005947 L25 interface [polypeptide binding]; other site 105559005948 L27 interface [polypeptide binding]; other site 105559005949 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 105559005950 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 105559005951 G-X-X-G motif; other site 105559005952 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 105559005953 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 105559005954 putative translocon binding site; other site 105559005955 protein-rRNA interface [nucleotide binding]; other site 105559005956 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 105559005957 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 105559005958 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 105559005959 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 105559005960 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 105559005961 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 105559005962 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 105559005963 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 105559005964 elongation factor Tu; Reviewed; Region: PRK00049 105559005965 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 105559005966 G1 box; other site 105559005967 GEF interaction site [polypeptide binding]; other site 105559005968 GTP/Mg2+ binding site [chemical binding]; other site 105559005969 Switch I region; other site 105559005970 G2 box; other site 105559005971 G3 box; other site 105559005972 Switch II region; other site 105559005973 G4 box; other site 105559005974 G5 box; other site 105559005975 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 105559005976 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 105559005977 Antibiotic Binding Site [chemical binding]; other site 105559005978 elongation factor G; Reviewed; Region: PRK00007 105559005979 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 105559005980 G1 box; other site 105559005981 putative GEF interaction site [polypeptide binding]; other site 105559005982 GTP/Mg2+ binding site [chemical binding]; other site 105559005983 Switch I region; other site 105559005984 G2 box; other site 105559005985 G3 box; other site 105559005986 Switch II region; other site 105559005987 G4 box; other site 105559005988 G5 box; other site 105559005989 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 105559005990 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 105559005991 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 105559005992 30S ribosomal protein S7; Validated; Region: PRK05302 105559005993 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 105559005994 S17 interaction site [polypeptide binding]; other site 105559005995 S8 interaction site; other site 105559005996 16S rRNA interaction site [nucleotide binding]; other site 105559005997 streptomycin interaction site [chemical binding]; other site 105559005998 23S rRNA interaction site [nucleotide binding]; other site 105559005999 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 105559006000 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 105559006001 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 105559006002 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 105559006003 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 105559006004 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 105559006005 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559006006 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 105559006007 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559006008 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 105559006009 DNA binding site [nucleotide binding] 105559006010 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 105559006011 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 105559006012 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 105559006013 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 105559006014 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 105559006015 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 105559006016 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 105559006017 RPB3 interaction site [polypeptide binding]; other site 105559006018 RPB1 interaction site [polypeptide binding]; other site 105559006019 RPB11 interaction site [polypeptide binding]; other site 105559006020 RPB10 interaction site [polypeptide binding]; other site 105559006021 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 105559006022 peripheral dimer interface [polypeptide binding]; other site 105559006023 core dimer interface [polypeptide binding]; other site 105559006024 L10 interface [polypeptide binding]; other site 105559006025 L11 interface [polypeptide binding]; other site 105559006026 putative EF-Tu interaction site [polypeptide binding]; other site 105559006027 putative EF-G interaction site [polypeptide binding]; other site 105559006028 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 105559006029 23S rRNA interface [nucleotide binding]; other site 105559006030 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 105559006031 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 105559006032 mRNA/rRNA interface [nucleotide binding]; other site 105559006033 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 105559006034 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 105559006035 23S rRNA interface [nucleotide binding]; other site 105559006036 L7/L12 interface [polypeptide binding]; other site 105559006037 putative thiostrepton binding site; other site 105559006038 L25 interface [polypeptide binding]; other site 105559006039 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 105559006040 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 105559006041 putative homodimer interface [polypeptide binding]; other site 105559006042 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 105559006043 heterodimer interface [polypeptide binding]; other site 105559006044 homodimer interface [polypeptide binding]; other site 105559006045 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 105559006046 elongation factor Tu; Reviewed; Region: PRK00049 105559006047 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 105559006048 G1 box; other site 105559006049 GEF interaction site [polypeptide binding]; other site 105559006050 GTP/Mg2+ binding site [chemical binding]; other site 105559006051 Switch I region; other site 105559006052 G2 box; other site 105559006053 G3 box; other site 105559006054 Switch II region; other site 105559006055 G4 box; other site 105559006056 G5 box; other site 105559006057 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 105559006058 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 105559006059 Antibiotic Binding Site [chemical binding]; other site 105559006060 elongation factor G; Reviewed; Region: PRK00007 105559006061 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 105559006062 G1 box; other site 105559006063 putative GEF interaction site [polypeptide binding]; other site 105559006064 GTP/Mg2+ binding site [chemical binding]; other site 105559006065 Switch I region; other site 105559006066 G2 box; other site 105559006067 G3 box; other site 105559006068 Switch II region; other site 105559006069 G4 box; other site 105559006070 G5 box; other site 105559006071 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 105559006072 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 105559006073 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 105559006074 30S ribosomal protein S7; Validated; Region: PRK05302 105559006075 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 105559006076 S17 interaction site [polypeptide binding]; other site 105559006077 S8 interaction site; other site 105559006078 16S rRNA interaction site [nucleotide binding]; other site 105559006079 streptomycin interaction site [chemical binding]; other site 105559006080 23S rRNA interaction site [nucleotide binding]; other site 105559006081 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 105559006082 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 105559006083 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 105559006084 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 105559006085 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 105559006086 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 105559006087 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559006088 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 105559006089 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 105559006090 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 105559006091 DNA binding site [nucleotide binding] 105559006092 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 105559006093 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 105559006094 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 105559006095 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 105559006096 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 105559006097 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 105559006098 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 105559006099 RPB3 interaction site [polypeptide binding]; other site 105559006100 RPB1 interaction site [polypeptide binding]; other site 105559006101 RPB11 interaction site [polypeptide binding]; other site 105559006102 RPB10 interaction site [polypeptide binding]; other site 105559006103 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 105559006104 peripheral dimer interface [polypeptide binding]; other site 105559006105 core dimer interface [polypeptide binding]; other site 105559006106 L10 interface [polypeptide binding]; other site 105559006107 L11 interface [polypeptide binding]; other site 105559006108 putative EF-Tu interaction site [polypeptide binding]; other site 105559006109 putative EF-G interaction site [polypeptide binding]; other site 105559006110 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 105559006111 23S rRNA interface [nucleotide binding]; other site 105559006112 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 105559006113 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 105559006114 mRNA/rRNA interface [nucleotide binding]; other site 105559006115 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 105559006116 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 105559006117 23S rRNA interface [nucleotide binding]; other site 105559006118 L7/L12 interface [polypeptide binding]; other site 105559006119 putative thiostrepton binding site; other site 105559006120 L25 interface [polypeptide binding]; other site 105559006121 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 105559006122 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 105559006123 putative homodimer interface [polypeptide binding]; other site 105559006124 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 105559006125 heterodimer interface [polypeptide binding]; other site 105559006126 homodimer interface [polypeptide binding]; other site 105559006127 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 105559006128 elongation factor Tu; Reviewed; Region: PRK00049 105559006129 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 105559006130 G1 box; other site 105559006131 GEF interaction site [polypeptide binding]; other site 105559006132 GTP/Mg2+ binding site [chemical binding]; other site 105559006133 Switch I region; other site 105559006134 G2 box; other site 105559006135 G3 box; other site 105559006136 Switch II region; other site 105559006137 G4 box; other site 105559006138 G5 box; other site 105559006139 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 105559006140 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 105559006141 Antibiotic Binding Site [chemical binding]; other site 105559006142 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 105559006143 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 105559006144 NAD binding site [chemical binding]; other site 105559006145 homodimer interface [polypeptide binding]; other site 105559006146 active site 105559006147 substrate binding site [chemical binding]; other site 105559006148 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 105559006149 active site 105559006150 HslU subunit interaction site [polypeptide binding]; other site 105559006151 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 105559006152 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 105559006153 Walker A motif; other site 105559006154 ATP binding site [chemical binding]; other site 105559006155 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 105559006156 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 105559006157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 105559006158 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 105559006159 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 105559006160 S-adenosylmethionine binding site [chemical binding]; other site 105559006161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 105559006162 SCP-2 sterol transfer family; Region: SCP2; pfam02036 105559006163 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 105559006164 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 105559006165 aromatic acid decarboxylase; Validated; Region: PRK05920 105559006166 Flavoprotein; Region: Flavoprotein; pfam02441 105559006167 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 105559006168 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 105559006169 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 105559006170 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 105559006171 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 105559006172 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 105559006173 Protein export membrane protein; Region: SecD_SecF; pfam02355 105559006174 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 105559006175 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 105559006176 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 105559006177 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 105559006178 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 105559006179 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 105559006180 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 105559006181 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 105559006182 active site 105559006183 dimer interface [polypeptide binding]; other site 105559006184 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 105559006185 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 105559006186 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 105559006187 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 105559006188 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 105559006189 Walker A motif/ATP binding site; other site 105559006190 Walker B motif; other site 105559006191 flagellar assembly protein H; Validated; Region: fliH; PRK05687 105559006192 Flagellar assembly protein FliH; Region: FliH; pfam02108 105559006193 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 105559006194 FliG C-terminal domain; Region: FliG_C; pfam01706 105559006195 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 105559006196 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 105559006197 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 105559006198 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 105559006199 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559006200 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 105559006201 active site 105559006202 phosphorylation site [posttranslational modification] 105559006203 intermolecular recognition site; other site 105559006204 dimerization interface [polypeptide binding]; other site 105559006205 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 105559006206 Walker A motif; other site 105559006207 ATP binding site [chemical binding]; other site 105559006208 Walker B motif; other site 105559006209 arginine finger; other site 105559006210 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559006211 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559006212 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 105559006213 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 105559006214 Walker A motif; other site 105559006215 ATP binding site [chemical binding]; other site 105559006216 Walker B motif; other site 105559006217 arginine finger; other site 105559006218 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559006219 Flagellar protein FliT; Region: FliT; pfam05400 105559006220 flagellar protein FliS; Validated; Region: fliS; PRK05685 105559006221 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 105559006222 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 105559006223 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 105559006224 FlaG protein; Region: FlaG; pfam03646 105559006225 flagellin; Provisional; Region: PRK12806 105559006226 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 105559006227 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 105559006228 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 105559006229 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 105559006230 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 105559006231 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 105559006232 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 105559006233 Rod binding protein; Region: Rod-binding; cl01626 105559006234 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 105559006235 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 105559006236 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 105559006237 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 105559006238 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 105559006239 Flagellar L-ring protein; Region: FlgH; pfam02107 105559006240 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 105559006241 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 105559006242 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 105559006243 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 105559006244 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 105559006245 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 105559006246 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 105559006247 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 105559006248 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 105559006249 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 105559006250 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 105559006251 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 105559006252 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 105559006253 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 105559006254 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 105559006255 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 105559006256 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 105559006257 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 105559006258 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 105559006259 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 105559006260 putative acyl-acceptor binding pocket; other site 105559006261 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 105559006262 acyl-activating enzyme (AAE) consensus motif; other site 105559006263 putative AMP binding site [chemical binding]; other site 105559006264 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 105559006265 Clp amino terminal domain; Region: Clp_N; pfam02861 105559006266 Clp amino terminal domain; Region: Clp_N; pfam02861 105559006267 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 105559006268 Walker A motif; other site 105559006269 ATP binding site [chemical binding]; other site 105559006270 Walker B motif; other site 105559006271 arginine finger; other site 105559006272 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 105559006273 Walker A motif; other site 105559006274 ATP binding site [chemical binding]; other site 105559006275 Walker B motif; other site 105559006276 arginine finger; other site 105559006277 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 105559006278 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 105559006279 putative acyl-acceptor binding pocket; other site 105559006280 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 105559006281 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 105559006282 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 105559006283 active site 105559006284 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 105559006285 intracellular septation protein A; Reviewed; Region: PRK00259 105559006286 YciI-like protein; Reviewed; Region: PRK11370 105559006287 BolA-like protein; Region: BolA; pfam01722 105559006288 polyphosphate kinase; Provisional; Region: PRK05443 105559006289 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 105559006290 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 105559006291 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 105559006292 putative active site [active] 105559006293 catalytic site [active] 105559006294 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 105559006295 putative active site [active] 105559006296 putative domain interface [polypeptide binding]; other site 105559006297 catalytic site [active] 105559006298 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 105559006299 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559006300 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559006301 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 105559006302 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 105559006303 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 105559006304 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 105559006305 amidase catalytic site [active] 105559006306 substrate binding site [chemical binding]; other site 105559006307 Zn binding residues [ion binding]; other site 105559006308 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 105559006309 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 105559006310 dimerization interface [polypeptide binding]; other site 105559006311 active site 105559006312 glutamate dehydrogenase; Provisional; Region: PRK09414 105559006313 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 105559006314 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 105559006315 NAD(P) binding site [chemical binding]; other site 105559006316 siroheme synthase; Provisional; Region: cysG; PRK10637 105559006317 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 105559006318 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 105559006319 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 105559006320 active site 105559006321 SAM binding site [chemical binding]; other site 105559006322 homodimer interface [polypeptide binding]; other site 105559006323 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559006324 metal binding site [ion binding]; metal-binding site 105559006325 active site 105559006326 I-site; other site 105559006327 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 105559006328 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 105559006329 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 105559006330 N-terminal plug; other site 105559006331 ligand-binding site [chemical binding]; other site 105559006332 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 105559006333 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 105559006334 Permutation of conserved domain; other site 105559006335 active site 105559006336 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cd01291 105559006337 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 105559006338 homotrimer interaction site [polypeptide binding]; other site 105559006339 zinc binding site [ion binding]; other site 105559006340 CDP-binding sites; other site 105559006341 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 105559006342 substrate binding site; other site 105559006343 dimer interface; other site 105559006344 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 105559006345 Septum formation initiator; Region: DivIC; cl17659 105559006346 enolase; Provisional; Region: eno; PRK00077 105559006347 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 105559006348 dimer interface [polypeptide binding]; other site 105559006349 metal binding site [ion binding]; metal-binding site 105559006350 substrate binding pocket [chemical binding]; other site 105559006351 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 105559006352 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 105559006353 CTP synthetase; Validated; Region: pyrG; PRK05380 105559006354 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 105559006355 Catalytic site [active] 105559006356 active site 105559006357 UTP binding site [chemical binding]; other site 105559006358 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 105559006359 active site 105559006360 putative oxyanion hole; other site 105559006361 catalytic triad [active] 105559006362 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 105559006363 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 105559006364 Ligand Binding Site [chemical binding]; other site 105559006365 TilS substrate binding domain; Region: TilS; pfam09179 105559006366 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 105559006367 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 105559006368 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 105559006369 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 105559006370 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 105559006371 active site 105559006372 phosphorylation site [posttranslational modification] 105559006373 intermolecular recognition site; other site 105559006374 dimerization interface [polypeptide binding]; other site 105559006375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559006376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559006377 metal binding site [ion binding]; metal-binding site 105559006378 active site 105559006379 I-site; other site 105559006380 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 105559006381 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 105559006382 putative active site [active] 105559006383 putative PHP Thumb interface [polypeptide binding]; other site 105559006384 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 105559006385 generic binding surface I; other site 105559006386 generic binding surface II; other site 105559006387 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 105559006388 FAD binding domain; Region: FAD_binding_4; pfam01565 105559006389 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 105559006390 putative inner membrane peptidase; Provisional; Region: PRK11778 105559006391 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 105559006392 tandem repeat interface [polypeptide binding]; other site 105559006393 oligomer interface [polypeptide binding]; other site 105559006394 active site residues [active] 105559006395 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 105559006396 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 105559006397 homodimer interface [polypeptide binding]; other site 105559006398 substrate-cofactor binding pocket; other site 105559006399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559006400 catalytic residue [active] 105559006401 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 105559006402 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 105559006403 Cysteine-rich domain; Region: CCG; pfam02754 105559006404 Cysteine-rich domain; Region: CCG; pfam02754 105559006405 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 105559006406 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 105559006407 cobalamin binding residues [chemical binding]; other site 105559006408 putative BtuC binding residues; other site 105559006409 dimer interface [polypeptide binding]; other site 105559006410 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 105559006411 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 105559006412 Walker A/P-loop; other site 105559006413 ATP binding site [chemical binding]; other site 105559006414 Q-loop/lid; other site 105559006415 ABC transporter signature motif; other site 105559006416 Walker B; other site 105559006417 D-loop; other site 105559006418 H-loop/switch region; other site 105559006419 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 105559006420 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 105559006421 ABC-ATPase subunit interface; other site 105559006422 dimer interface [polypeptide binding]; other site 105559006423 putative PBP binding regions; other site 105559006424 Domain of unknown function (DUF427); Region: DUF427; pfam04248 105559006425 ferredoxin-NADP reductase; Provisional; Region: PRK10926 105559006426 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 105559006427 FAD binding pocket [chemical binding]; other site 105559006428 FAD binding motif [chemical binding]; other site 105559006429 phosphate binding motif [ion binding]; other site 105559006430 beta-alpha-beta structure motif; other site 105559006431 NAD binding pocket [chemical binding]; other site 105559006432 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 105559006433 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 105559006434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559006435 ligand binding site [chemical binding]; other site 105559006436 flagellar motor protein PomA; Reviewed; Region: PRK08990 105559006437 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 105559006438 Cupin domain; Region: Cupin_2; pfam07883 105559006439 trehalose synthase; Region: treS_nterm; TIGR02456 105559006440 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 105559006441 active site 105559006442 catalytic site [active] 105559006443 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 105559006444 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 105559006445 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 105559006446 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 105559006447 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 105559006448 active site 105559006449 homodimer interface [polypeptide binding]; other site 105559006450 catalytic site [active] 105559006451 acceptor binding site [chemical binding]; other site 105559006452 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 105559006453 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 105559006454 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 105559006455 dimer interface [polypeptide binding]; other site 105559006456 active site 105559006457 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 105559006458 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 105559006459 substrate binding site [chemical binding]; other site 105559006460 oxyanion hole (OAH) forming residues; other site 105559006461 trimer interface [polypeptide binding]; other site 105559006462 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 105559006463 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 105559006464 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 105559006465 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 105559006466 acyl-activating enzyme (AAE) consensus motif; other site 105559006467 putative AMP binding site [chemical binding]; other site 105559006468 putative active site [active] 105559006469 putative CoA binding site [chemical binding]; other site 105559006470 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 105559006471 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 105559006472 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 105559006473 ligand binding site [chemical binding]; other site 105559006474 GTP-binding protein Der; Reviewed; Region: PRK00093 105559006475 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 105559006476 G1 box; other site 105559006477 GTP/Mg2+ binding site [chemical binding]; other site 105559006478 Switch I region; other site 105559006479 G2 box; other site 105559006480 Switch II region; other site 105559006481 G3 box; other site 105559006482 G4 box; other site 105559006483 G5 box; other site 105559006484 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 105559006485 G1 box; other site 105559006486 GTP/Mg2+ binding site [chemical binding]; other site 105559006487 Switch I region; other site 105559006488 G2 box; other site 105559006489 G3 box; other site 105559006490 Switch II region; other site 105559006491 G4 box; other site 105559006492 G5 box; other site 105559006493 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 105559006494 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 105559006495 Trp docking motif [polypeptide binding]; other site 105559006496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 105559006497 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 105559006498 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 105559006499 active site 105559006500 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 105559006501 periplasmic chaperone; Provisional; Region: PRK10780 105559006502 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 105559006503 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 105559006504 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 105559006505 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 105559006506 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 105559006507 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 105559006508 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 105559006509 Surface antigen; Region: Bac_surface_Ag; pfam01103 105559006510 zinc metallopeptidase RseP; Provisional; Region: PRK10779 105559006511 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 105559006512 active site 105559006513 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 105559006514 protein binding site [polypeptide binding]; other site 105559006515 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 105559006516 protein binding site [polypeptide binding]; other site 105559006517 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 105559006518 putative substrate binding region [chemical binding]; other site 105559006519 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 105559006520 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 105559006521 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 105559006522 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 105559006523 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 105559006524 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 105559006525 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 105559006526 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 105559006527 catalytic residue [active] 105559006528 putative FPP diphosphate binding site; other site 105559006529 putative FPP binding hydrophobic cleft; other site 105559006530 dimer interface [polypeptide binding]; other site 105559006531 putative IPP diphosphate binding site; other site 105559006532 ribosome recycling factor; Reviewed; Region: frr; PRK00083 105559006533 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 105559006534 hinge region; other site 105559006535 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 105559006536 putative nucleotide binding site [chemical binding]; other site 105559006537 uridine monophosphate binding site [chemical binding]; other site 105559006538 homohexameric interface [polypeptide binding]; other site 105559006539 elongation factor Ts; Provisional; Region: tsf; PRK09377 105559006540 UBA/TS-N domain; Region: UBA; pfam00627 105559006541 Elongation factor TS; Region: EF_TS; pfam00889 105559006542 Elongation factor TS; Region: EF_TS; pfam00889 105559006543 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 105559006544 rRNA interaction site [nucleotide binding]; other site 105559006545 S8 interaction site; other site 105559006546 putative laminin-1 binding site; other site 105559006547 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 105559006548 active site 105559006549 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 105559006550 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 105559006551 metal binding triad; other site 105559006552 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 105559006553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 105559006554 Zn2+ binding site [ion binding]; other site 105559006555 Mg2+ binding site [ion binding]; other site 105559006556 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 105559006557 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 105559006558 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 105559006559 tetramer interfaces [polypeptide binding]; other site 105559006560 binuclear metal-binding site [ion binding]; other site 105559006561 thiamine monophosphate kinase; Provisional; Region: PRK05731 105559006562 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 105559006563 ATP binding site [chemical binding]; other site 105559006564 dimerization interface [polypeptide binding]; other site 105559006565 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 105559006566 putative RNA binding site [nucleotide binding]; other site 105559006567 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 105559006568 homopentamer interface [polypeptide binding]; other site 105559006569 active site 105559006570 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 105559006571 TRAM domain; Region: TRAM; cl01282 105559006572 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 105559006573 S-adenosylmethionine binding site [chemical binding]; other site 105559006574 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 105559006575 active site 105559006576 catalytic site [active] 105559006577 substrate binding site [chemical binding]; other site 105559006578 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 105559006579 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 105559006580 cysteine synthase B; Region: cysM; TIGR01138 105559006581 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 105559006582 dimer interface [polypeptide binding]; other site 105559006583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559006584 catalytic residue [active] 105559006585 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 105559006586 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 105559006587 active site 105559006588 hydrophilic channel; other site 105559006589 dimerization interface [polypeptide binding]; other site 105559006590 catalytic residues [active] 105559006591 active site lid [active] 105559006592 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 105559006593 Recombination protein O N terminal; Region: RecO_N; pfam11967 105559006594 Recombination protein O C terminal; Region: RecO_C; pfam02565 105559006595 PEP-CTERM motif; Region: VPEP; pfam07589 105559006596 peptide chain release factor 2; Region: prfB; TIGR00020 105559006597 This domain is found in peptide chain release factors; Region: PCRF; smart00937 105559006598 RF-1 domain; Region: RF-1; pfam00472 105559006599 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 105559006600 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559006601 Peptidase family M23; Region: Peptidase_M23; pfam01551 105559006602 Predicted membrane protein [Function unknown]; Region: COG1238 105559006603 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 105559006604 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 105559006605 S-adenosylmethionine binding site [chemical binding]; other site 105559006606 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 105559006607 response regulator GlrR; Provisional; Region: PRK15115 105559006608 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 105559006609 active site 105559006610 phosphorylation site [posttranslational modification] 105559006611 intermolecular recognition site; other site 105559006612 dimerization interface [polypeptide binding]; other site 105559006613 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 105559006614 Walker A motif; other site 105559006615 ATP binding site [chemical binding]; other site 105559006616 Walker B motif; other site 105559006617 arginine finger; other site 105559006618 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 105559006619 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 105559006620 dimer interface [polypeptide binding]; other site 105559006621 phosphorylation site [posttranslational modification] 105559006622 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 105559006623 ATP binding site [chemical binding]; other site 105559006624 Mg2+ binding site [ion binding]; other site 105559006625 G-X-G motif; other site 105559006626 allantoate amidohydrolase; Reviewed; Region: PRK09290 105559006627 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 105559006628 active site 105559006629 metal binding site [ion binding]; metal-binding site 105559006630 dimer interface [polypeptide binding]; other site 105559006631 Isochorismatase family; Region: Isochorismatase; pfam00857 105559006632 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 105559006633 catalytic triad [active] 105559006634 conserved cis-peptide bond; other site 105559006635 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 105559006636 Na binding site [ion binding]; other site 105559006637 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 105559006638 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 105559006639 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 105559006640 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559006641 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 105559006642 active site 105559006643 dimer interface [polypeptide binding]; other site 105559006644 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 105559006645 Ligand Binding Site [chemical binding]; other site 105559006646 Molecular Tunnel; other site 105559006647 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 105559006648 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 105559006649 NADP binding site [chemical binding]; other site 105559006650 active site 105559006651 putative substrate binding site [chemical binding]; other site 105559006652 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 105559006653 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 105559006654 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 105559006655 substrate binding site; other site 105559006656 tetramer interface; other site 105559006657 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 105559006658 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 105559006659 NAD binding site [chemical binding]; other site 105559006660 substrate binding site [chemical binding]; other site 105559006661 homodimer interface [polypeptide binding]; other site 105559006662 active site 105559006663 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 105559006664 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 105559006665 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 105559006666 glycogen synthase; Provisional; Region: glgA; PRK00654 105559006667 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 105559006668 ADP-binding pocket [chemical binding]; other site 105559006669 homodimer interface [polypeptide binding]; other site 105559006670 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 105559006671 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 105559006672 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 105559006673 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 105559006674 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 105559006675 Domain of unknown function DUF29; Region: DUF29; pfam01724 105559006676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559006677 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 105559006678 Probable transposase; Region: OrfB_IS605; pfam01385 105559006679 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 105559006680 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559006681 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559006682 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 105559006683 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 105559006684 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 105559006685 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 105559006686 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 105559006687 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 105559006688 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 105559006689 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 105559006690 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 105559006691 general secretion pathway protein J; Validated; Region: PRK08808 105559006692 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 105559006693 TPR motif; other site 105559006694 TPR repeat; Region: TPR_11; pfam13414 105559006695 binding surface 105559006696 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 105559006697 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 105559006698 putative active site [active] 105559006699 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 105559006700 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 105559006701 Ligand binding site; other site 105559006702 Putative Catalytic site; other site 105559006703 DXD motif; other site 105559006704 Cytochrome c; Region: Cytochrom_C; cl11414 105559006705 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 105559006706 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559006707 putative ADP-binding pocket [chemical binding]; other site 105559006708 Galactose-3-O-sulfotransferase; Region: Gal-3-0_sulfotr; pfam06990 105559006709 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 105559006710 Family description; Region: VCBS; pfam13517 105559006711 Family description; Region: VCBS; pfam13517 105559006712 Family description; Region: VCBS; pfam13517 105559006713 Family description; Region: VCBS; pfam13517 105559006714 Family description; Region: VCBS; pfam13517 105559006715 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 105559006716 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 105559006717 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559006718 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 105559006719 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559006720 Sulfatase; Region: Sulfatase; pfam00884 105559006721 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559006722 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 105559006723 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 105559006724 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559006725 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 105559006726 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 105559006727 Walker A/P-loop; other site 105559006728 ATP binding site [chemical binding]; other site 105559006729 Q-loop/lid; other site 105559006730 ABC transporter signature motif; other site 105559006731 Walker B; other site 105559006732 D-loop; other site 105559006733 H-loop/switch region; other site 105559006734 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 105559006735 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 105559006736 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 105559006737 Family description; Region: VCBS; pfam13517 105559006738 Family description; Region: VCBS; pfam13517 105559006739 Family description; Region: VCBS; pfam13517 105559006740 Family description; Region: VCBS; pfam13517 105559006741 Family description; Region: VCBS; pfam13517 105559006742 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 105559006743 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 105559006744 G1 box; other site 105559006745 putative GEF interaction site [polypeptide binding]; other site 105559006746 GTP/Mg2+ binding site [chemical binding]; other site 105559006747 Switch I region; other site 105559006748 G2 box; other site 105559006749 G3 box; other site 105559006750 Switch II region; other site 105559006751 G4 box; other site 105559006752 G5 box; other site 105559006753 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 105559006754 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 105559006755 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 105559006756 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 105559006757 active site 105559006758 dimerization interface [polypeptide binding]; other site 105559006759 L,D-transpeptidase; Provisional; Region: PRK10260 105559006760 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559006761 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 105559006762 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 105559006763 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 105559006764 binding surface 105559006765 TPR motif; other site 105559006766 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 105559006767 Nitrogen regulatory protein P-II; Region: P-II; smart00938 105559006768 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 105559006769 CoA binding domain; Region: CoA_binding; pfam02629 105559006770 CoA-ligase; Region: Ligase_CoA; pfam00549 105559006771 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 105559006772 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 105559006773 CoA-ligase; Region: Ligase_CoA; pfam00549 105559006774 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 105559006775 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 105559006776 putative active site [active] 105559006777 dimerization interface [polypeptide binding]; other site 105559006778 putative tRNAtyr binding site [nucleotide binding]; other site 105559006779 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 105559006780 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 105559006781 DctM-like transporters; Region: DctM; pfam06808 105559006782 multiple promoter invertase; Provisional; Region: mpi; PRK13413 105559006783 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 105559006784 catalytic residues [active] 105559006785 catalytic nucleophile [active] 105559006786 Presynaptic Site I dimer interface [polypeptide binding]; other site 105559006787 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 105559006788 Synaptic Flat tetramer interface [polypeptide binding]; other site 105559006789 Synaptic Site I dimer interface [polypeptide binding]; other site 105559006790 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 105559006791 DNA-binding interface [nucleotide binding]; DNA binding site 105559006792 Protein of unknown function (DUF497); Region: DUF497; pfam04365 105559006793 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 105559006794 Uncharacterized conserved protein [Function unknown]; Region: COG0397 105559006795 hypothetical protein; Validated; Region: PRK00029 105559006796 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 105559006797 Helix-turn-helix domain; Region: HTH_37; pfam13744 105559006798 HsdM N-terminal domain; Region: HsdM_N; pfam12161 105559006799 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 105559006800 Methyltransferase domain; Region: Methyltransf_26; pfam13659 105559006801 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559006802 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 105559006803 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 105559006804 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 105559006805 DEAD-like helicases superfamily; Region: DEXDc; smart00487 105559006806 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 105559006807 ATP binding site [chemical binding]; other site 105559006808 putative Mg++ binding site [ion binding]; other site 105559006809 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 105559006810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559006811 Walker A/P-loop; other site 105559006812 ATP binding site [chemical binding]; other site 105559006813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559006814 Walker B; other site 105559006815 D-loop; other site 105559006816 H-loop/switch region; other site 105559006817 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 105559006818 Protein of unknown function (DUF497); Region: DUF497; pfam04365 105559006819 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 105559006820 multiple promoter invertase; Provisional; Region: mpi; PRK13413 105559006821 catalytic residues [active] 105559006822 catalytic nucleophile [active] 105559006823 Presynaptic Site I dimer interface [polypeptide binding]; other site 105559006824 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 105559006825 Synaptic Flat tetramer interface [polypeptide binding]; other site 105559006826 Synaptic Site I dimer interface [polypeptide binding]; other site 105559006827 DNA binding site [nucleotide binding] 105559006828 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 105559006829 DNA-binding interface [nucleotide binding]; DNA binding site 105559006830 Uncharacterized conserved protein [Function unknown]; Region: COG1479 105559006831 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006832 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006833 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006834 Uncharacterized conserved protein [Function unknown]; Region: COG1479 105559006835 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 105559006836 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 105559006837 catalytic nucleophile [active] 105559006838 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 105559006839 oligomeric interface; other site 105559006840 putative active site [active] 105559006841 homodimer interface [polypeptide binding]; other site 105559006842 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 105559006843 multiple promoter invertase; Provisional; Region: mpi; PRK13413 105559006844 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 105559006845 catalytic residues [active] 105559006846 catalytic nucleophile [active] 105559006847 Presynaptic Site I dimer interface [polypeptide binding]; other site 105559006848 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 105559006849 Synaptic Flat tetramer interface [polypeptide binding]; other site 105559006850 Synaptic Site I dimer interface [polypeptide binding]; other site 105559006851 DNA binding site [nucleotide binding] 105559006852 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 105559006853 DNA-binding interface [nucleotide binding]; DNA binding site 105559006854 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 105559006855 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 105559006856 Protein of unknown function DUF262; Region: DUF262; pfam03235 105559006857 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 105559006858 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 105559006859 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 105559006860 active site 105559006861 DNA binding site [nucleotide binding] 105559006862 Int/Topo IB signature motif; other site 105559006863 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 105559006864 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 105559006865 tetramer interface [polypeptide binding]; other site 105559006866 heme binding pocket [chemical binding]; other site 105559006867 NADPH binding site [chemical binding]; other site 105559006868 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 105559006869 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 105559006870 Transposase, Mutator family; Region: Transposase_mut; pfam00872 105559006871 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 105559006872 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 105559006873 putative substrate translocation pore; other site 105559006874 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 105559006875 cytosine deaminase; Provisional; Region: PRK09230 105559006876 active site 105559006877 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 105559006878 GMP synthase; Reviewed; Region: guaA; PRK00074 105559006879 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 105559006880 AMP/PPi binding site [chemical binding]; other site 105559006881 candidate oxyanion hole; other site 105559006882 catalytic triad [active] 105559006883 potential glutamine specificity residues [chemical binding]; other site 105559006884 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 105559006885 ATP Binding subdomain [chemical binding]; other site 105559006886 Ligand Binding sites [chemical binding]; other site 105559006887 Dimerization subdomain; other site 105559006888 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 105559006889 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 105559006890 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 105559006891 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 105559006892 active site 105559006893 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 105559006894 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 105559006895 generic binding surface II; other site 105559006896 generic binding surface I; other site 105559006897 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 105559006898 binding surface 105559006899 TPR motif; other site 105559006900 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 105559006901 binding surface 105559006902 TPR motif; other site 105559006903 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 105559006904 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 105559006905 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 105559006906 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 105559006907 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 105559006908 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 105559006909 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 105559006910 Rubredoxin [Energy production and conversion]; Region: COG1773 105559006911 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 105559006912 iron binding site [ion binding]; other site 105559006913 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 105559006914 thiamine phosphate binding site [chemical binding]; other site 105559006915 active site 105559006916 pyrophosphate binding site [ion binding]; other site 105559006917 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 105559006918 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 105559006919 catalytic residues [active] 105559006920 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 105559006921 binding surface 105559006922 TPR motif; other site 105559006923 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 105559006924 Mechanosensitive ion channel; Region: MS_channel; pfam00924 105559006925 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 105559006926 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 105559006927 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 105559006928 inhibitor-cofactor binding pocket; inhibition site 105559006929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559006930 catalytic residue [active] 105559006931 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 105559006932 Part of AAA domain; Region: AAA_19; pfam13245 105559006933 Family description; Region: UvrD_C_2; pfam13538 105559006934 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 105559006935 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 105559006936 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 105559006937 Sel1-like repeats; Region: SEL1; smart00671 105559006938 Cation efflux family; Region: Cation_efflux; cl00316 105559006939 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 105559006940 active site 105559006941 metal binding site [ion binding]; metal-binding site 105559006942 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 105559006943 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 105559006944 active site residue [active] 105559006945 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 105559006946 active site residue [active] 105559006947 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 105559006948 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 105559006949 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 105559006950 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 105559006951 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 105559006952 putative active site [active] 105559006953 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559006954 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 105559006955 putative ADP-binding pocket [chemical binding]; other site 105559006956 Transposase; Region: HTH_Tnp_IS630; pfam01710 105559006957 Methyltransferase domain; Region: Methyltransf_23; pfam13489 105559006958 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 105559006959 S-adenosylmethionine binding site [chemical binding]; other site 105559006960 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 105559006961 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 105559006962 putative active site [active] 105559006963 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 105559006964 non-specific DNA binding site [nucleotide binding]; other site 105559006965 salt bridge; other site 105559006966 sequence-specific DNA binding site [nucleotide binding]; other site 105559006967 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559006968 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 105559006969 non-specific DNA binding site [nucleotide binding]; other site 105559006970 salt bridge; other site 105559006971 sequence-specific DNA binding site [nucleotide binding]; other site 105559006972 exonuclease subunit SbcC; Provisional; Region: PRK10246 105559006973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559006974 Walker A/P-loop; other site 105559006975 ATP binding site [chemical binding]; other site 105559006976 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 105559006977 ABC transporter signature motif; other site 105559006978 Walker B; other site 105559006979 D-loop; other site 105559006980 H-loop/switch region; other site 105559006981 exonuclease subunit SbcD; Provisional; Region: PRK10966 105559006982 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 105559006983 active site 105559006984 metal binding site [ion binding]; metal-binding site 105559006985 DNA binding site [nucleotide binding] 105559006986 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 105559006987 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559006988 active site 105559006989 NTP binding site [chemical binding]; other site 105559006990 metal binding triad [ion binding]; metal-binding site 105559006991 antibiotic binding site [chemical binding]; other site 105559006992 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 105559006993 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 105559006994 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 105559006995 putative metal binding site [ion binding]; other site 105559006996 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 105559006997 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 105559006998 putative active site [active] 105559006999 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 105559007000 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559007001 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 105559007002 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 105559007003 active site 105559007004 dimer interface [polypeptide binding]; other site 105559007005 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 105559007006 Ligand Binding Site [chemical binding]; other site 105559007007 Molecular Tunnel; other site 105559007008 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 105559007009 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559007010 putative ADP-binding pocket [chemical binding]; other site 105559007011 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 105559007012 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 105559007013 Methyltransferase domain; Region: Methyltransf_23; pfam13489 105559007014 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 105559007015 S-adenosylmethionine binding site [chemical binding]; other site 105559007016 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 105559007017 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 105559007018 Ligand binding site; other site 105559007019 Putative Catalytic site; other site 105559007020 DXD motif; other site 105559007021 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 105559007022 Pilin (bacterial filament); Region: Pilin; pfam00114 105559007023 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 105559007024 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 105559007025 Transposase IS200 like; Region: Y1_Tnp; cl00848 105559007026 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 105559007027 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 105559007028 gating phenylalanine in ion channel; other site 105559007029 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 105559007030 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 105559007031 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 105559007032 dimer interface [polypeptide binding]; other site 105559007033 conserved gate region; other site 105559007034 ABC-ATPase subunit interface; other site 105559007035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559007036 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 105559007037 Walker A/P-loop; other site 105559007038 ATP binding site [chemical binding]; other site 105559007039 Q-loop/lid; other site 105559007040 ABC transporter signature motif; other site 105559007041 Walker B; other site 105559007042 D-loop; other site 105559007043 H-loop/switch region; other site 105559007044 Family description; Region: DsbD_2; pfam13386 105559007045 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 105559007046 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 105559007047 Walker A motif; other site 105559007048 ATP binding site [chemical binding]; other site 105559007049 Walker B motif; other site 105559007050 arginine finger; other site 105559007051 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559007052 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 105559007053 Predicted metal-binding protein [General function prediction only]; Region: COG3019 105559007054 NnrU protein; Region: NnrU; pfam07298 105559007055 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 105559007056 PemK-like protein; Region: PemK; cl00995 105559007057 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 105559007058 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559007059 YcfA-like protein; Region: YcfA; pfam07927 105559007060 YcfA-like protein; Region: YcfA; pfam07927 105559007061 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 105559007062 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 105559007063 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 105559007064 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559007065 Sulfatase; Region: Sulfatase; pfam00884 105559007066 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559007067 Sulfatase; Region: Sulfatase; pfam00884 105559007068 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 105559007069 GTP-binding protein YchF; Reviewed; Region: PRK09601 105559007070 YchF GTPase; Region: YchF; cd01900 105559007071 G1 box; other site 105559007072 GTP/Mg2+ binding site [chemical binding]; other site 105559007073 Switch I region; other site 105559007074 G2 box; other site 105559007075 Switch II region; other site 105559007076 G3 box; other site 105559007077 G4 box; other site 105559007078 G5 box; other site 105559007079 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 105559007080 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 105559007081 putative active site [active] 105559007082 catalytic residue [active] 105559007083 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 105559007084 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 105559007085 5S rRNA interface [nucleotide binding]; other site 105559007086 CTC domain interface [polypeptide binding]; other site 105559007087 L16 interface [polypeptide binding]; other site 105559007088 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 105559007089 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 105559007090 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559007091 active site 105559007092 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 105559007093 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 105559007094 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 105559007095 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 105559007096 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 105559007097 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 105559007098 TPR motif; other site 105559007099 binding surface 105559007100 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 105559007101 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 105559007102 binding surface 105559007103 TPR motif; other site 105559007104 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 105559007105 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 105559007106 tRNA; other site 105559007107 putative tRNA binding site [nucleotide binding]; other site 105559007108 putative NADP binding site [chemical binding]; other site 105559007109 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 105559007110 peptide chain release factor 1; Validated; Region: prfA; PRK00591 105559007111 This domain is found in peptide chain release factors; Region: PCRF; smart00937 105559007112 RF-1 domain; Region: RF-1; pfam00472 105559007113 septum formation inhibitor; Reviewed; Region: minC; PRK00339 105559007114 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 105559007115 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 105559007116 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 105559007117 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 105559007118 Switch I; other site 105559007119 Switch II; other site 105559007120 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 105559007121 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 105559007122 HemY protein N-terminus; Region: HemY_N; pfam07219 105559007123 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 105559007124 binding surface 105559007125 TPR motif; other site 105559007126 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 105559007127 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 105559007128 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 105559007129 active site 105559007130 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 105559007131 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 105559007132 domain interfaces; other site 105559007133 active site 105559007134 argininosuccinate lyase; Provisional; Region: PRK00855 105559007135 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 105559007136 active sites [active] 105559007137 tetramer interface [polypeptide binding]; other site 105559007138 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 105559007139 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 105559007140 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 105559007141 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559007142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559007143 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 105559007144 Predicted flavoprotein [General function prediction only]; Region: COG0431 105559007145 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 105559007146 acetoin reductases; Region: 23BDH; TIGR02415 105559007147 NAD binding site [chemical binding]; other site 105559007148 homotetramer interface [polypeptide binding]; other site 105559007149 homodimer interface [polypeptide binding]; other site 105559007150 active site 105559007151 substrate binding site [chemical binding]; other site 105559007152 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 105559007153 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 105559007154 Predicted membrane protein [Function unknown]; Region: COG3650 105559007155 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 105559007156 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 105559007157 metal binding site [ion binding]; metal-binding site 105559007158 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 105559007159 FAD binding domain; Region: FAD_binding_4; pfam01565 105559007160 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 105559007161 active site 105559007162 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559007163 Domain of unknown function DUF20; Region: UPF0118; pfam01594 105559007164 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 105559007165 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 105559007166 Ligand binding site; other site 105559007167 DXD motif; other site 105559007168 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 105559007169 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 105559007170 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559007171 AsmA family; Region: AsmA; pfam05170 105559007172 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 105559007173 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 105559007174 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 105559007175 PRC-barrel domain; Region: PRC; pfam05239 105559007176 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 105559007177 hypothetical protein; Provisional; Region: PRK13682 105559007178 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 105559007179 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559007180 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 105559007181 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559007182 Transposase IS200 like; Region: Y1_Tnp; pfam01797 105559007183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559007184 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 105559007185 Probable transposase; Region: OrfB_IS605; pfam01385 105559007186 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 105559007187 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 105559007188 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 105559007189 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 105559007190 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 105559007191 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 105559007192 NADH dehydrogenase; Region: NADHdh; cl00469 105559007193 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 105559007194 PRC-barrel domain; Region: PRC; pfam05239 105559007195 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 105559007196 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559007197 short chain dehydrogenase; Provisional; Region: PRK07109 105559007198 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 105559007199 putative NAD(P) binding site [chemical binding]; other site 105559007200 active site 105559007201 thiamine pyrophosphate protein; Provisional; Region: PRK08273 105559007202 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 105559007203 PYR/PP interface [polypeptide binding]; other site 105559007204 dimer interface [polypeptide binding]; other site 105559007205 tetramer interface [polypeptide binding]; other site 105559007206 TPP binding site [chemical binding]; other site 105559007207 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 105559007208 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 105559007209 TPP-binding site [chemical binding]; other site 105559007210 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 105559007211 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 105559007212 putative active site pocket [active] 105559007213 putative metal binding site [ion binding]; other site 105559007214 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 105559007215 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 105559007216 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 105559007217 Cupin domain; Region: Cupin_2; cl17218 105559007218 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 105559007219 Strictosidine synthase; Region: Str_synth; pfam03088 105559007220 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 105559007221 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 105559007222 active site 105559007223 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 105559007224 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 105559007225 active site 105559007226 metal binding site [ion binding]; metal-binding site 105559007227 Predicted membrane protein [Function unknown]; Region: COG4325 105559007228 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 105559007229 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 105559007230 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 105559007231 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 105559007232 Anabaena sensory rhodopsin transducer; Region: ASRT; pfam07100 105559007233 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 105559007234 Domain of unknown function (DUF202); Region: DUF202; cl09954 105559007235 cation transport regulator; Reviewed; Region: chaB; PRK09582 105559007236 short chain dehydrogenase; Provisional; Region: PRK06701 105559007237 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 105559007238 NAD binding site [chemical binding]; other site 105559007239 metal binding site [ion binding]; metal-binding site 105559007240 active site 105559007241 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 105559007242 catalytic residues [active] 105559007243 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 105559007244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559007245 active site 105559007246 hypothetical protein; Provisional; Region: PRK10279 105559007247 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 105559007248 active site 105559007249 nucleophile elbow; other site 105559007250 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 105559007251 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 105559007252 NADH(P)-binding; Region: NAD_binding_10; pfam13460 105559007253 NAD binding site [chemical binding]; other site 105559007254 substrate binding site [chemical binding]; other site 105559007255 putative active site [active] 105559007256 MAPEG family; Region: MAPEG; pfam01124 105559007257 amphi-Trp domain; Region: amphi-Trp; TIGR04354 105559007258 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 105559007259 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 105559007260 tetramer interface [polypeptide binding]; other site 105559007261 catalytic Zn binding site [ion binding]; other site 105559007262 NADP binding site [chemical binding]; other site 105559007263 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 105559007264 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 105559007265 E3 interaction surface; other site 105559007266 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559007267 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 105559007268 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 105559007269 Walker A/P-loop; other site 105559007270 ATP binding site [chemical binding]; other site 105559007271 Q-loop/lid; other site 105559007272 ABC transporter signature motif; other site 105559007273 Walker B; other site 105559007274 D-loop; other site 105559007275 H-loop/switch region; other site 105559007276 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 105559007277 Walker A/P-loop; other site 105559007278 ATP binding site [chemical binding]; other site 105559007279 Q-loop/lid; other site 105559007280 ABC transporter signature motif; other site 105559007281 Walker B; other site 105559007282 D-loop; other site 105559007283 H-loop/switch region; other site 105559007284 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559007285 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 105559007286 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 105559007287 hypothetical protein; Provisional; Region: PRK09256 105559007288 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 105559007289 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 105559007290 active site 105559007291 catalytic triad [active] 105559007292 oxyanion hole [active] 105559007293 switch loop; other site 105559007294 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 105559007295 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 105559007296 Walker A/P-loop; other site 105559007297 ATP binding site [chemical binding]; other site 105559007298 Q-loop/lid; other site 105559007299 ABC transporter signature motif; other site 105559007300 Walker B; other site 105559007301 D-loop; other site 105559007302 H-loop/switch region; other site 105559007303 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 105559007304 FtsX-like permease family; Region: FtsX; pfam02687 105559007305 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 105559007306 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 105559007307 Putative integral membrane protein DUF46; Region: DUF46; cl17511 105559007308 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 105559007309 DNA methylase; Region: N6_N4_Mtase; pfam01555 105559007310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 105559007311 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 105559007312 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 105559007313 non-specific DNA binding site [nucleotide binding]; other site 105559007314 salt bridge; other site 105559007315 sequence-specific DNA binding site [nucleotide binding]; other site 105559007316 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559007317 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 105559007318 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 105559007319 non-specific DNA binding site [nucleotide binding]; other site 105559007320 salt bridge; other site 105559007321 sequence-specific DNA binding site [nucleotide binding]; other site 105559007322 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559007323 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 105559007324 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 105559007325 putative active site [active] 105559007326 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559007327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559007328 Winged helix-turn helix; Region: HTH_29; pfam13551 105559007329 Helix-turn-helix domain; Region: HTH_28; pfam13518 105559007330 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559007331 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 105559007332 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 105559007333 non-specific DNA binding site [nucleotide binding]; other site 105559007334 salt bridge; other site 105559007335 sequence-specific DNA binding site [nucleotide binding]; other site 105559007336 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 105559007337 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 105559007338 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 105559007339 putative active site [active] 105559007340 putative metal binding site [ion binding]; other site 105559007341 Peptidase family M48; Region: Peptidase_M48; cl12018 105559007342 TPR repeat; Region: TPR_11; pfam13414 105559007343 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 105559007344 binding surface 105559007345 TPR motif; other site 105559007346 TPR repeat; Region: TPR_11; pfam13414 105559007347 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 105559007348 Helix-turn-helix domain; Region: HTH_31; pfam13560 105559007349 sequence-specific DNA binding site [nucleotide binding]; other site 105559007350 salt bridge; other site 105559007351 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 105559007352 non-specific DNA binding site [nucleotide binding]; other site 105559007353 salt bridge; other site 105559007354 sequence-specific DNA binding site [nucleotide binding]; other site 105559007355 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 105559007356 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 105559007357 Protein of unknown function (DUF523); Region: DUF523; pfam04463 105559007358 Uncharacterized conserved protein [Function unknown]; Region: COG3272 105559007359 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 105559007360 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 105559007361 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 105559007362 S-adenosylmethionine binding site [chemical binding]; other site 105559007363 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 105559007364 Response regulator receiver domain; Region: Response_reg; pfam00072 105559007365 active site 105559007366 phosphorylation site [posttranslational modification] 105559007367 intermolecular recognition site; other site 105559007368 dimerization interface [polypeptide binding]; other site 105559007369 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 105559007370 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 105559007371 NAD(P) binding site [chemical binding]; other site 105559007372 catalytic residues [active] 105559007373 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 105559007374 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 105559007375 putative NAD(P) binding site [chemical binding]; other site 105559007376 active site 105559007377 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 105559007378 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 105559007379 active site 105559007380 NTP binding site [chemical binding]; other site 105559007381 metal binding triad [ion binding]; metal-binding site 105559007382 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 105559007383 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 105559007384 Zn2+ binding site [ion binding]; other site 105559007385 Mg2+ binding site [ion binding]; other site 105559007386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 105559007387 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 105559007388 AAA domain; Region: AAA_33; pfam13671 105559007389 ATP-binding site [chemical binding]; other site 105559007390 Gluconate-6-phosphate binding site [chemical binding]; other site 105559007391 5-oxoprolinase; Region: PLN02666 105559007392 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 105559007393 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 105559007394 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 105559007395 heat shock protein HtpX; Provisional; Region: PRK05457 105559007396 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 105559007397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 105559007398 active site 105559007399 phosphorylation site [posttranslational modification] 105559007400 intermolecular recognition site; other site 105559007401 dimerization interface [polypeptide binding]; other site 105559007402 PAS domain S-box; Region: sensory_box; TIGR00229 105559007403 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 105559007404 putative active site [active] 105559007405 heme pocket [chemical binding]; other site 105559007406 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559007407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559007408 metal binding site [ion binding]; metal-binding site 105559007409 active site 105559007410 I-site; other site 105559007411 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 105559007412 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 105559007413 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 105559007414 putative acyl-acceptor binding pocket; other site 105559007415 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 105559007416 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 105559007417 active site 105559007418 motif I; other site 105559007419 motif II; other site 105559007420 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 105559007421 DALR anticodon binding domain; Region: DALR_1; smart00836 105559007422 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 105559007423 dimer interface [polypeptide binding]; other site 105559007424 motif 1; other site 105559007425 active site 105559007426 motif 2; other site 105559007427 motif 3; other site 105559007428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 105559007429 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 105559007430 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 105559007431 Family of unknown function (DUF490); Region: DUF490; pfam04357 105559007432 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 105559007433 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 105559007434 Surface antigen; Region: Bac_surface_Ag; pfam01103 105559007435 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 105559007436 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 105559007437 hypothetical protein; Validated; Region: PRK00228 105559007438 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 105559007439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559007440 active site 105559007441 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 105559007442 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 105559007443 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 105559007444 dihydroorotase; Provisional; Region: PRK07627 105559007445 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 105559007446 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 105559007447 active site 105559007448 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 105559007449 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 105559007450 FAD binding pocket [chemical binding]; other site 105559007451 FAD binding motif [chemical binding]; other site 105559007452 phosphate binding motif [ion binding]; other site 105559007453 beta-alpha-beta structure motif; other site 105559007454 NAD binding pocket [chemical binding]; other site 105559007455 Iron coordination center [ion binding]; other site 105559007456 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 105559007457 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 105559007458 ATP binding site [chemical binding]; other site 105559007459 substrate interface [chemical binding]; other site 105559007460 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 105559007461 MPN+ (JAMM) motif; other site 105559007462 Zinc-binding site [ion binding]; other site 105559007463 Protein of unknown function (DUF533); Region: DUF533; pfam04391 105559007464 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 105559007465 putative metal binding site [ion binding]; other site 105559007466 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 105559007467 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 105559007468 Cl- selectivity filter; other site 105559007469 Cl- binding residues [ion binding]; other site 105559007470 pore gating glutamate residue; other site 105559007471 dimer interface [polypeptide binding]; other site 105559007472 Predicted methyltransferases [General function prediction only]; Region: COG0313 105559007473 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 105559007474 putative SAM binding site [chemical binding]; other site 105559007475 putative homodimer interface [polypeptide binding]; other site 105559007476 LppC putative lipoprotein; Region: LppC; pfam04348 105559007477 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 105559007478 putative ligand binding site [chemical binding]; other site 105559007479 hypothetical protein; Reviewed; Region: PRK12497 105559007480 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 105559007481 dimer interface [polypeptide binding]; other site 105559007482 active site 105559007483 BON domain; Region: BON; pfam04972 105559007484 BON domain; Region: BON; pfam04972 105559007485 FAD binding domain; Region: FAD_binding_4; pfam01565 105559007486 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 105559007487 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 105559007488 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 105559007489 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 105559007490 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 105559007491 Zn2+ binding site [ion binding]; other site 105559007492 Mg2+ binding site [ion binding]; other site 105559007493 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559007494 metal binding site [ion binding]; metal-binding site 105559007495 active site 105559007496 I-site; other site 105559007497 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 105559007498 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 105559007499 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 105559007500 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 105559007501 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 105559007502 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 105559007503 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 105559007504 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 105559007505 hexamer interface [polypeptide binding]; other site 105559007506 ligand binding site [chemical binding]; other site 105559007507 putative active site [active] 105559007508 NAD(P) binding site [chemical binding]; other site 105559007509 thioredoxin reductase; Provisional; Region: PRK10262 105559007510 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 105559007511 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 105559007512 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 105559007513 Peptidase family M48; Region: Peptidase_M48; pfam01435 105559007514 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 105559007515 catalytic site [active] 105559007516 putative active site [active] 105559007517 putative substrate binding site [chemical binding]; other site 105559007518 dimer interface [polypeptide binding]; other site 105559007519 epoxyqueuosine reductase; Region: TIGR00276 105559007520 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 105559007521 putative carbohydrate kinase; Provisional; Region: PRK10565 105559007522 Uncharacterized conserved protein [Function unknown]; Region: COG0062 105559007523 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 105559007524 putative substrate binding site [chemical binding]; other site 105559007525 putative ATP binding site [chemical binding]; other site 105559007526 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 105559007527 AMIN domain; Region: AMIN; pfam11741 105559007528 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 105559007529 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 105559007530 active site 105559007531 metal binding site [ion binding]; metal-binding site 105559007532 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559007533 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 105559007534 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 105559007535 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 105559007536 ATP binding site [chemical binding]; other site 105559007537 Mg2+ binding site [ion binding]; other site 105559007538 G-X-G motif; other site 105559007539 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 105559007540 ATP binding site [chemical binding]; other site 105559007541 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 105559007542 PAS domain S-box; Region: sensory_box; TIGR00229 105559007543 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 105559007544 putative active site [active] 105559007545 heme pocket [chemical binding]; other site 105559007546 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559007547 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559007548 metal binding site [ion binding]; metal-binding site 105559007549 active site 105559007550 I-site; other site 105559007551 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 105559007552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 105559007553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 105559007554 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 105559007555 putative dimerization interface [polypeptide binding]; other site 105559007556 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 105559007557 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 105559007558 homodimer interface [polypeptide binding]; other site 105559007559 active site 105559007560 heterodimer interface [polypeptide binding]; other site 105559007561 catalytic residue [active] 105559007562 metal binding site [ion binding]; metal-binding site 105559007563 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 105559007564 multimerization interface [polypeptide binding]; other site 105559007565 CbbX; Provisional; Region: cbbX; CHL00181 105559007566 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 105559007567 Walker A motif; other site 105559007568 ATP binding site [chemical binding]; other site 105559007569 Walker B motif; other site 105559007570 arginine finger; other site 105559007571 BNR repeat-like domain; Region: BNR_2; pfam13088 105559007572 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 105559007573 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 105559007574 catalytic residues [active] 105559007575 glycerol kinase; Provisional; Region: glpK; PRK00047 105559007576 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 105559007577 N- and C-terminal domain interface [polypeptide binding]; other site 105559007578 active site 105559007579 MgATP binding site [chemical binding]; other site 105559007580 catalytic site [active] 105559007581 metal binding site [ion binding]; metal-binding site 105559007582 glycerol binding site [chemical binding]; other site 105559007583 homotetramer interface [polypeptide binding]; other site 105559007584 homodimer interface [polypeptide binding]; other site 105559007585 FBP binding site [chemical binding]; other site 105559007586 protein IIAGlc interface [polypeptide binding]; other site 105559007587 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 105559007588 homoserine O-succinyltransferase; Provisional; Region: PRK05368 105559007589 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 105559007590 conserved cys residue [active] 105559007591 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 105559007592 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 105559007593 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 105559007594 Sel1-like repeats; Region: SEL1; smart00671 105559007595 Sel1-like repeats; Region: SEL1; smart00671 105559007596 Sel1-like repeats; Region: SEL1; smart00671 105559007597 Sel1-like repeats; Region: SEL1; smart00671 105559007598 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 105559007599 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 105559007600 Helicase; Region: Helicase_RecD; pfam05127 105559007601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 105559007602 Coenzyme A binding pocket [chemical binding]; other site 105559007603 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 105559007604 aconitate hydratase; Validated; Region: PRK07229 105559007605 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 105559007606 substrate binding site [chemical binding]; other site 105559007607 ligand binding site [chemical binding]; other site 105559007608 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 105559007609 substrate binding site [chemical binding]; other site 105559007610 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 105559007611 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 105559007612 Walker A motif; other site 105559007613 ATP binding site [chemical binding]; other site 105559007614 AAA-like domain; Region: AAA_10; pfam12846 105559007615 TRL-like protein family; Region: TRL; pfam13146 105559007616 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 105559007617 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 105559007618 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 105559007619 putative active site pocket [active] 105559007620 dimerization interface [polypeptide binding]; other site 105559007621 putative catalytic residue [active] 105559007622 Predicted metalloprotease [General function prediction only]; Region: COG2321 105559007623 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 105559007624 propionate/acetate kinase; Provisional; Region: PRK12379 105559007625 Acetokinase family; Region: Acetate_kinase; cl17229 105559007626 putative phosphoketolase; Provisional; Region: PRK05261 105559007627 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 105559007628 TPP-binding site; other site 105559007629 XFP C-terminal domain; Region: XFP_C; pfam09363 105559007630 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 105559007631 YcgL domain; Region: YcgL; pfam05166 105559007632 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 105559007633 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 105559007634 Paraquat-inducible protein A; Region: PqiA; pfam04403 105559007635 Paraquat-inducible protein A; Region: PqiA; pfam04403 105559007636 paraquat-inducible protein B; Provisional; Region: PRK10807 105559007637 mce related protein; Region: MCE; pfam02470 105559007638 mce related protein; Region: MCE; pfam02470 105559007639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 105559007640 Protein of unknown function (DUF330); Region: DUF330; pfam03886 105559007641 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 105559007642 ApbE family; Region: ApbE; pfam02424 105559007643 methionine sulfoxide reductase B; Provisional; Region: PRK00222 105559007644 SelR domain; Region: SelR; pfam01641 105559007645 Domain of unknown function (DUF333); Region: DUF333; pfam03891 105559007646 Uncharacterized conserved protein [Function unknown]; Region: COG5361 105559007647 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 105559007648 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 105559007649 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 105559007650 Sulfatase; Region: Sulfatase; pfam00884 105559007651 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 105559007652 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 105559007653 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 105559007654 motif II; other site 105559007655 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 105559007656 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 105559007657 HEAT repeats; Region: HEAT_2; pfam13646 105559007658 TPR repeat; Region: TPR_11; pfam13414 105559007659 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 105559007660 binding surface 105559007661 TPR motif; other site 105559007662 TPR repeat; Region: TPR_11; pfam13414 105559007663 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 105559007664 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559007665 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559007666 ABC transporter; Region: ABC_tran_2; pfam12848 105559007667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 105559007668 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 105559007669 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 105559007670 putative dimer interface [polypeptide binding]; other site 105559007671 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 105559007672 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 105559007673 putative dimer interface [polypeptide binding]; other site 105559007674 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 105559007675 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 105559007676 NodB motif; other site 105559007677 putative active site [active] 105559007678 putative catalytic site [active] 105559007679 putative Zn binding site [ion binding]; other site 105559007680 hypothetical protein; Provisional; Region: PRK09936 105559007681 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 105559007682 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 105559007683 active site 105559007684 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 105559007685 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 105559007686 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 105559007687 active site 105559007688 homodimer interface [polypeptide binding]; other site 105559007689 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 105559007690 binding surface 105559007691 TPR motif; other site 105559007692 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 105559007693 binding surface 105559007694 TPR motif; other site 105559007695 Tetratricopeptide repeat; Region: TPR_16; pfam13432 105559007696 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 105559007697 TPR motif; other site 105559007698 binding surface 105559007699 TPR repeat; Region: TPR_11; pfam13414 105559007700 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 105559007701 binding surface 105559007702 TPR motif; other site 105559007703 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 105559007704 TPR motif; other site 105559007705 binding surface 105559007706 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 105559007707 binding surface 105559007708 TPR motif; other site 105559007709 Tetratricopeptide repeat; Region: TPR_12; pfam13424 105559007710 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 105559007711 binding surface 105559007712 TPR motif; other site 105559007713 TPR repeat; Region: TPR_11; pfam13414 105559007714 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 105559007715 binding surface 105559007716 TPR motif; other site 105559007717 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 105559007718 Helix-turn-helix domain; Region: HTH_17; cl17695 105559007719 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 105559007720 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559007721 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 105559007722 Chain length determinant protein; Region: Wzz; pfam02706 105559007723 Chain length determinant protein; Region: Wzz; cl15801 105559007724 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 105559007725 O-Antigen ligase; Region: Wzy_C; pfam04932 105559007726 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 105559007727 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 105559007728 active site 105559007729 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 105559007730 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 105559007731 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559007732 putative ADP-binding pocket [chemical binding]; other site 105559007733 Bacterial sugar transferase; Region: Bac_transf; cl00939 105559007734 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 105559007735 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 105559007736 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 105559007737 inhibitor-cofactor binding pocket; inhibition site 105559007738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 105559007739 catalytic residue [active] 105559007740 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 105559007741 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 105559007742 active site 105559007743 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 105559007744 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 105559007745 NAD binding site [chemical binding]; other site 105559007746 substrate binding site [chemical binding]; other site 105559007747 active site 105559007748 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 105559007749 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 105559007750 SLBB domain; Region: SLBB; pfam10531 105559007751 AAA domain; Region: AAA_31; pfam13614 105559007752 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 105559007753 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 105559007754 Right handed beta helix region; Region: Beta_helix; pfam13229 105559007755 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 105559007756 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 105559007757 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 105559007758 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 105559007759 active site 105559007760 metal binding site [ion binding]; metal-binding site 105559007761 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 105559007762 Protein of unknown function DUF45; Region: DUF45; pfam01863 105559007763 Uncharacterized conserved protein [Function unknown]; Region: COG5316 105559007764 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 105559007765 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 105559007766 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 105559007767 Predicted transcriptional regulator [Transcription]; Region: COG2944 105559007768 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 105559007769 non-specific DNA binding site [nucleotide binding]; other site 105559007770 salt bridge; other site 105559007771 sequence-specific DNA binding site [nucleotide binding]; other site 105559007772 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 105559007773 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559007774 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 105559007775 HicB family; Region: HicB; pfam05534 105559007776 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559007777 HicB family; Region: HicB; pfam05534 105559007778 YcfA-like protein; Region: YcfA; cl00752 105559007779 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 105559007780 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 105559007781 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 105559007782 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 105559007783 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 105559007784 DNA-binding site [nucleotide binding]; DNA binding site 105559007785 RNA-binding motif; other site 105559007786 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 105559007787 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559007788 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 105559007789 nudix motif; other site 105559007790 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 105559007791 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 105559007792 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 105559007793 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 105559007794 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 105559007795 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 105559007796 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 105559007797 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 105559007798 trimer interface [polypeptide binding]; other site 105559007799 active site 105559007800 UDP-GlcNAc binding site [chemical binding]; other site 105559007801 lipid binding site [chemical binding]; lipid-binding site 105559007802 Transposase IS200 like; Region: Y1_Tnp; pfam01797 105559007803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559007804 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 105559007805 Probable transposase; Region: OrfB_IS605; pfam01385 105559007806 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 105559007807 MASE1; Region: MASE1; cl17823 105559007808 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 105559007809 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 105559007810 putative active site [active] 105559007811 heme pocket [chemical binding]; other site 105559007812 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 105559007813 putative active site [active] 105559007814 heme pocket [chemical binding]; other site 105559007815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 105559007816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 105559007817 metal binding site [ion binding]; metal-binding site 105559007818 active site 105559007819 I-site; other site 105559007820 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 105559007821 DNA repair protein RadA; Provisional; Region: PRK11823 105559007822 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 105559007823 Walker A motif; other site 105559007824 ATP binding site [chemical binding]; other site 105559007825 Walker B motif; other site 105559007826 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 105559007827 alanine racemase; Reviewed; Region: alr; PRK00053 105559007828 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 105559007829 active site 105559007830 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 105559007831 substrate binding site [chemical binding]; other site 105559007832 catalytic residues [active] 105559007833 dimer interface [polypeptide binding]; other site 105559007834 replicative DNA helicase; Region: DnaB; TIGR00665 105559007835 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 105559007836 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 105559007837 Walker A motif; other site 105559007838 ATP binding site [chemical binding]; other site 105559007839 Walker B motif; other site 105559007840 DNA binding loops [nucleotide binding] 105559007841 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 105559007842 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 105559007843 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 105559007844 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 105559007845 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 105559007846 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 105559007847 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 105559007848 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 105559007849 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 105559007850 trehalose synthase; Region: treS_nterm; TIGR02456 105559007851 active site 105559007852 catalytic site [active] 105559007853 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 105559007854 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 105559007855 Active_site [active] 105559007856 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 105559007857 PilZ domain; Region: PilZ; pfam07238 105559007858 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 105559007859 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 105559007860 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 105559007861 binding surface 105559007862 TPR motif; other site 105559007863 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 105559007864 putative catalytic site [active] 105559007865 putative phosphate binding site [ion binding]; other site 105559007866 active site 105559007867 metal binding site A [ion binding]; metal-binding site 105559007868 DNA binding site [nucleotide binding] 105559007869 putative AP binding site [nucleotide binding]; other site 105559007870 putative metal binding site B [ion binding]; other site 105559007871 oligopeptidase A; Provisional; Region: PRK10911 105559007872 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 105559007873 active site 105559007874 Zn binding site [ion binding]; other site 105559007875 PAS domain S-box; Region: sensory_box; TIGR00229 105559007876 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 105559007877 putative active site [active] 105559007878 heme pocket [chemical binding]; other site 105559007879 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 105559007880 PAS domain; Region: PAS_9; pfam13426 105559007881 putative active site [active] 105559007882 heme pocket [chemical binding]; other site 105559007883 PAS domain S-box; Region: sensory_box; TIGR00229 105559007884 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 105559007885 putative active site [active] 105559007886 heme pocket [chemical binding]; other site 105559007887 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 105559007888 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 105559007889 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 105559007890 GAF domain; Region: GAF; pfam01590 105559007891 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 105559007892 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 105559007893 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 105559007894 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 105559007895 metal-binding site [ion binding] 105559007896 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 105559007897 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 105559007898 metal-binding site [ion binding] 105559007899 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 105559007900 Soluble P-type ATPase [General function prediction only]; Region: COG4087 105559007901 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 105559007902 metal-binding site [ion binding] 105559007903 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 105559007904 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 105559007905 DNA binding residues [nucleotide binding] 105559007906 dimer interface [polypeptide binding]; other site 105559007907 copper binding site [ion binding]; other site 105559007908 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 105559007909 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 105559007910 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 105559007911 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 105559007912 ring oligomerisation interface [polypeptide binding]; other site 105559007913 ATP/Mg binding site [chemical binding]; other site 105559007914 stacking interactions; other site 105559007915 hinge regions; other site 105559007916 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 105559007917 oligomerisation interface [polypeptide binding]; other site 105559007918 mobile loop; other site 105559007919 roof hairpin; other site 105559007920 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 105559007921 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 105559007922 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 105559007923 Methyltransferase domain; Region: Methyltransf_31; pfam13847 105559007924 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 105559007925 S-adenosylmethionine binding site [chemical binding]; other site 105559007926 Abi-like protein; Region: Abi_2; cl01988 105559007927 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 105559007928 DNA methylase; Region: N6_N4_Mtase; pfam01555 105559007929 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 105559007930 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 105559007931 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 105559007932 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 105559007933 HemK family putative methylases; Region: hemK_fam; TIGR00536 105559007934 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 105559007935 S-adenosylmethionine binding site [chemical binding]; other site 105559007936 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 105559007937 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 105559007938 substrate binding site [chemical binding]; other site 105559007939 ligand binding site [chemical binding]; other site 105559007940 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 105559007941 Protein export membrane protein; Region: SecD_SecF; cl14618 105559007942 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559007943 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 105559007944 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559007945 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 105559007946 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 105559007947 Tetramer interface [polypeptide binding]; other site 105559007948 active site 105559007949 FMN-binding site [chemical binding]; other site 105559007950 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 105559007951 Ceramidase; Region: Ceramidase; pfam05875 105559007952 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 105559007953 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 105559007954 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 105559007955 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 105559007956 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 105559007957 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 105559007958 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 105559007959 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 105559007960 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 105559007961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 105559007962 Walker A/P-loop; other site 105559007963 ATP binding site [chemical binding]; other site 105559007964 Q-loop/lid; other site 105559007965 ABC transporter signature motif; other site 105559007966 Walker B; other site 105559007967 D-loop; other site 105559007968 H-loop/switch region; other site 105559007969 universal stress protein UspE; Provisional; Region: PRK11175 105559007970 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 105559007971 Ligand Binding Site [chemical binding]; other site 105559007972 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 105559007973 Ligand Binding Site [chemical binding]; other site 105559007974 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 105559007975 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 105559007976 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 105559007977 TrkA-N domain; Region: TrkA_N; pfam02254 105559007978 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 105559007979 hypothetical protein; Provisional; Region: PRK02237 105559007980 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 105559007981 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 105559007982 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 105559007983 active site 105559007984 FMN binding site [chemical binding]; other site 105559007985 substrate binding site [chemical binding]; other site 105559007986 3Fe-4S cluster binding site [ion binding]; other site 105559007987 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 105559007988 Winged helix-turn helix; Region: HTH_29; pfam13551 105559007989 Helix-turn-helix domain; Region: HTH_28; pfam13518 105559007990 Helix-turn-helix domain; Region: HTH_17; pfam12728 105559007991 DDE superfamily endonuclease; Region: DDE_3; pfam13358 105559007992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 105559007993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 105559007994 Protein of unknown function (DUF497); Region: DUF497; cl01108 105559007995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 105559007996 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 105559007997 putative ADP-binding pocket [chemical binding]; other site 105559007998 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 105559007999 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 105559008000 Type II transport protein GspH; Region: GspH; pfam12019 105559008001 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 105559008002 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 105559008003 type II secretion system protein F; Region: GspF; TIGR02120 105559008004 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 105559008005 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 105559008006 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 105559008007 type II secretion system protein E; Region: type_II_gspE; TIGR02533 105559008008 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 105559008009 Walker A motif; other site 105559008010 ATP binding site [chemical binding]; other site 105559008011 Walker B motif; other site 105559008012 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 105559008013 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 105559008014 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 105559008015 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 105559008016 ribonuclease R; Region: RNase_R; TIGR02063 105559008017 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 105559008018 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 105559008019 RNB domain; Region: RNB; pfam00773 105559008020 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 105559008021 RNA binding site [nucleotide binding]; other site 105559008022 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 105559008023 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 105559008024 Cu(I) binding site [ion binding]; other site 105559008025 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 105559008026 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 105559008027 active site 105559008028 NTP binding site [chemical binding]; other site 105559008029 metal binding triad [ion binding]; metal-binding site 105559008030 antibiotic binding site [chemical binding]; other site 105559008031 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 105559008032 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 105559008033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 105559008034 Probable transposase; Region: OrfB_IS605; pfam01385 105559008035 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 105559008036 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 105559008037 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 105559008038 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 105559008039 ATP binding site [chemical binding]; other site 105559008040 putative Mg++ binding site [ion binding]; other site 105559008041 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 105559008042 Protein of unknown function DUF45; Region: DUF45; pfam01863 105559008043 Uncharacterized subfamily of glycoside hydrolase family 57 (GH57); Region: GH57N_like_1; cd10798 105559008044 active site 105559008045 catalytic site [active] 105559008046 Protein of unknown function (DUF779); Region: DUF779; pfam05610 105559008047 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559008048 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 105559008049 NAD(P) binding site [chemical binding]; other site 105559008050 catalytic residues [active] 105559008051 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 105559008052 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 105559008053 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 105559008054 Transposase [DNA replication, recombination, and repair]; Region: COG5433 105559008055 multidrug efflux protein; Reviewed; Region: PRK09579 105559008056 Protein export membrane protein; Region: SecD_SecF; cl14618 105559008057 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 105559008058 HlyD family secretion protein; Region: HlyD_3; pfam13437 105559008059 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 105559008060 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 105559008061 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 105559008062 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 105559008063 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 105559008064 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 105559008065 FMN binding site [chemical binding]; other site 105559008066 active site 105559008067 catalytic residues [active] 105559008068 substrate binding site [chemical binding]; other site 105559008069 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 105559008070 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 105559008071 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 105559008072 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 105559008073 Walker A motif; other site 105559008074 ATP binding site [chemical binding]; other site 105559008075 Walker B motif; other site 105559008076 arginine finger; other site 105559008077 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 105559008078 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 105559008079 IHF - DNA interface [nucleotide binding]; other site 105559008080 IHF dimer interface [polypeptide binding]; other site 105559008081 Predicted transcriptional regulator [Transcription]; Region: COG1959 105559008082 Transcriptional regulator; Region: Rrf2; cl17282 105559008083 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 105559008084 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 105559008085 Cu(I) binding site [ion binding]; other site 105559008086 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 105559008087 D-pathway; other site 105559008088 Low-spin heme binding site [chemical binding]; other site 105559008089 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 105559008090 Putative water exit pathway; other site 105559008091 Binuclear center (active site) [active] 105559008092 K-pathway; other site 105559008093 Putative proton exit pathway; other site 105559008094 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 105559008095 FMN-binding domain; Region: FMN_bind; pfam04205 105559008096 Predicted membrane protein [Function unknown]; Region: COG2259 105559008097 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 105559008098 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 105559008099 Walker A motif; other site 105559008100 ATP binding site [chemical binding]; other site 105559008101 Walker B motif; other site 105559008102 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 105559008103 RxxxH motif; other site 105559008104 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 105559008105 anti sigma factor interaction site; other site 105559008106 regulatory phosphorylation site [posttranslational modification]; other site 105559008107 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 105559008108 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 105559008109 Mg2+ binding site [ion binding]; other site 105559008110 G-X-G motif; other site 105559008111 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 105559008112 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 105559008113 PAS domain S-box; Region: sensory_box; TIGR00229 105559008114 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 105559008115 putative active site [active] 105559008116 heme pocket [chemical binding]; other site 105559008117 PAS domain S-box; Region: sensory_box; TIGR00229 105559008118 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 105559008119 putative active site [active] 105559008120 heme pocket [chemical binding]; other site 105559008121 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 105559008122 PAS domain; Region: PAS_9; pfam13426 105559008123 putative active site [active] 105559008124 heme pocket [chemical binding]; other site 105559008125 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 105559008126 PAS domain; Region: PAS_9; pfam13426 105559008127 putative active site [active] 105559008128 heme pocket [chemical binding]; other site 105559008129 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 105559008130 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 105559008131 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 105559008132 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 105559008133 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 105559008134 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 105559008135 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 105559008136 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 105559008137 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 105559008138 catalytic residue [active] 105559008139 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 105559008140 PAS domain; Region: PAS_9; pfam13426 105559008141 putative active site [active] 105559008142 heme pocket [chemical binding]; other site 105559008143 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 105559008144 putative hydrophobic ligand binding site [chemical binding]; other site 105559008145 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 105559008146 N-acetyl-D-glucosamine binding site [chemical binding]; other site 105559008147 catalytic residue [active] 105559008148 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559008149 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 105559008150 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559008151 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 105559008152 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 105559008153 putative metal binding site [ion binding]; other site 105559008154 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 105559008155 HSP70 interaction site [polypeptide binding]; other site 105559008156 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 105559008157 Flavoprotein; Region: Flavoprotein; pfam02441 105559008158 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 105559008159 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 105559008160 trimer interface [polypeptide binding]; other site 105559008161 active site 105559008162 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 105559008163 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 105559008164 active site 105559008165 substrate binding site [chemical binding]; other site 105559008166 metal binding site [ion binding]; metal-binding site 105559008167 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 105559008168 feedback inhibition sensing region; other site 105559008169 homohexameric interface [polypeptide binding]; other site 105559008170 nucleotide binding site [chemical binding]; other site 105559008171 N-acetyl-L-glutamate binding site [chemical binding]; other site 105559008172 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 105559008173 hypothetical protein; Provisional; Region: PRK10621 105559008174 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 105559008175 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 105559008176 active site 105559008177 muropeptide transporter; Reviewed; Region: ampG; PRK11902 105559008178 muropeptide transporter; Validated; Region: ampG; cl17669 105559008179 hypothetical protein; Validated; Region: PRK05090 105559008180 YGGT family; Region: YGGT; pfam02325 105559008181 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 105559008182 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 105559008183 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 105559008184 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 105559008185 catalytic residue [active] 105559008186 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 105559008187 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 105559008188 Walker A motif; other site 105559008189 ATP binding site [chemical binding]; other site 105559008190 Walker B motif; other site 105559008191 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 105559008192 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 105559008193 substrate binding site [chemical binding]; other site 105559008194 active site 105559008195 AIR carboxylase; Region: AIRC; pfam00731 105559008196 DNA topoisomerase I; Provisional; Region: PRK08780 105559008197 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 105559008198 active site 105559008199 interdomain interaction site; other site 105559008200 putative metal-binding site [ion binding]; other site 105559008201 nucleotide binding site [chemical binding]; other site 105559008202 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 105559008203 domain I; other site 105559008204 DNA binding groove [nucleotide binding] 105559008205 phosphate binding site [ion binding]; other site 105559008206 domain II; other site 105559008207 domain III; other site 105559008208 nucleotide binding site [chemical binding]; other site 105559008209 catalytic site [active] 105559008210 domain IV; other site 105559008211 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 105559008212 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 105559008213 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 105559008214 Protein of unknown function (DUF494); Region: DUF494; pfam04361 105559008215 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 105559008216 DNA protecting protein DprA; Region: dprA; TIGR00732 105559008217 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 105559008218 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 105559008219 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 105559008220 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 105559008221 active site 105559008222 catalytic residues [active] 105559008223 metal binding site [ion binding]; metal-binding site 105559008224 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 105559008225 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 105559008226 putative active site [active] 105559008227 substrate binding site [chemical binding]; other site 105559008228 putative cosubstrate binding site; other site 105559008229 catalytic site [active] 105559008230 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 105559008231 substrate binding site [chemical binding]; other site 105559008232 16S rRNA methyltransferase B; Provisional; Region: PRK10901 105559008233 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 105559008234 putative RNA binding site [nucleotide binding]; other site 105559008235 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 105559008236 S-adenosylmethionine binding site [chemical binding]; other site 105559008237 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 105559008238 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 105559008239 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 105559008240 dimerization interface [polypeptide binding]; other site 105559008241 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 105559008242 dimer interface [polypeptide binding]; other site 105559008243 phosphorylation site [posttranslational modification] 105559008244 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 105559008245 ATP binding site [chemical binding]; other site 105559008246 Mg2+ binding site [ion binding]; other site 105559008247 G-X-G motif; other site 105559008248 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 105559008249 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 105559008250 active site 105559008251 phosphorylation site [posttranslational modification] 105559008252 intermolecular recognition site; other site 105559008253 dimerization interface [polypeptide binding]; other site 105559008254 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 105559008255 Walker A motif; other site 105559008256 ATP binding site [chemical binding]; other site 105559008257 Walker B motif; other site 105559008258 arginine finger; other site 105559008259 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 105559008260 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 105559008261 TrkA-N domain; Region: TrkA_N; pfam02254 105559008262 TrkA-C domain; Region: TrkA_C; pfam02080 105559008263 TrkA-N domain; Region: TrkA_N; pfam02254 105559008264 TrkA-C domain; Region: TrkA_C; pfam02080 105559008265 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 105559008266 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 105559008267 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 105559008268 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 105559008269 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 105559008270 Major Facilitator Superfamily; Region: MFS_1; pfam07690 105559008271 putative substrate translocation pore; other site 105559008272 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 105559008273 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 105559008274 dimer interface [polypeptide binding]; other site 105559008275 ssDNA binding site [nucleotide binding]; other site 105559008276 tetramer (dimer of dimers) interface [polypeptide binding]; other site 105559008277 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 105559008278 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 105559008279 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 105559008280 substrate binding pocket [chemical binding]; other site 105559008281 chain length determination region; other site 105559008282 substrate-Mg2+ binding site; other site 105559008283 catalytic residues [active] 105559008284 aspartate-rich region 1; other site 105559008285 active site lid residues [active] 105559008286 aspartate-rich region 2; other site 105559008287 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 105559008288 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 105559008289 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 105559008290 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 105559008291 GTP1/OBG; Region: GTP1_OBG; pfam01018 105559008292 Obg GTPase; Region: Obg; cd01898 105559008293 G1 box; other site 105559008294 GTP/Mg2+ binding site [chemical binding]; other site 105559008295 Switch I region; other site 105559008296 G2 box; other site 105559008297 G3 box; other site 105559008298 Switch II region; other site 105559008299 G4 box; other site 105559008300 G5 box; other site 105559008301 gamma-glutamyl kinase; Provisional; Region: PRK05429 105559008302 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 105559008303 nucleotide binding site [chemical binding]; other site 105559008304 homotetrameric interface [polypeptide binding]; other site 105559008305 putative phosphate binding site [ion binding]; other site 105559008306 putative allosteric binding site; other site 105559008307 PUA domain; Region: PUA; pfam01472 105559008308 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 105559008309 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 105559008310 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 105559008311 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 105559008312 UbiA prenyltransferase family; Region: UbiA; pfam01040 105559008313 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 105559008314 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 105559008315 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 105559008316 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 105559008317 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 105559008318 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 105559008319 Subunit III/VIIa interface [polypeptide binding]; other site 105559008320 Phospholipid binding site [chemical binding]; other site 105559008321 Subunit I/III interface [polypeptide binding]; other site 105559008322 Subunit III/VIb interface [polypeptide binding]; other site 105559008323 Subunit III/VIa interface; other site 105559008324 Subunit III/Vb interface [polypeptide binding]; other site 105559008325 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 105559008326 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 105559008327 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 105559008328 Subunit I/III interface [polypeptide binding]; other site 105559008329 D-pathway; other site 105559008330 Subunit I/VIIc interface [polypeptide binding]; other site 105559008331 Subunit I/IV interface [polypeptide binding]; other site 105559008332 Subunit I/II interface [polypeptide binding]; other site 105559008333 Low-spin heme (heme a) binding site [chemical binding]; other site 105559008334 Subunit I/VIIa interface [polypeptide binding]; other site 105559008335 Subunit I/VIa interface [polypeptide binding]; other site 105559008336 Dimer interface; other site 105559008337 Putative water exit pathway; other site 105559008338 Binuclear center (heme a3/CuB) [ion binding]; other site 105559008339 K-pathway; other site 105559008340 Subunit I/Vb interface [polypeptide binding]; other site 105559008341 Putative proton exit pathway; other site 105559008342 Subunit I/VIb interface; other site 105559008343 Subunit I/VIc interface [polypeptide binding]; other site 105559008344 Electron transfer pathway; other site 105559008345 Subunit I/VIIIb interface [polypeptide binding]; other site 105559008346 Subunit I/VIIb interface [polypeptide binding]; other site 105559008347 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 105559008348 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 105559008349 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 105559008350 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 105559008351 Cytochrome c553 [Energy production and conversion]; Region: COG2863 105559008352 Cytochrome c553 [Energy production and conversion]; Region: COG2863 105559008353 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 105559008354 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 105559008355 putative active site pocket [active] 105559008356 4-fold oligomerization interface [polypeptide binding]; other site 105559008357 metal binding residues [ion binding]; metal-binding site 105559008358 3-fold/trimer interface [polypeptide binding]; other site 105559008359 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 105559008360 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 105559008361 putative active site [active] 105559008362 oxyanion strand; other site 105559008363 catalytic triad [active] 105559008364 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 105559008365 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 105559008366 catalytic residues [active] 105559008367 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 105559008368 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 105559008369 substrate binding site [chemical binding]; other site 105559008370 glutamase interaction surface [polypeptide binding]; other site 105559008371 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 105559008372 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 105559008373 metal binding site [ion binding]; metal-binding site 105559008374 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 105559008375 nucleotide binding site/active site [active] 105559008376 HIT family signature motif; other site 105559008377 catalytic residue [active] 105559008378 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 105559008379 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 105559008380 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 105559008381 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 105559008382 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 105559008383 amino acid transporter; Region: 2A0306; TIGR00909 105559008384 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 105559008385 putative cation:proton antiport protein; Provisional; Region: PRK10669 105559008386 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 105559008387 TrkA-N domain; Region: TrkA_N; pfam02254 105559008388 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 105559008389 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 105559008390 P-loop; other site 105559008391 Winged helix-turn helix; Region: HTH_29; pfam13551 105559008392 Helix-turn-helix domain; Region: HTH_28; pfam13518 105559008393 sucrose synthase; Region: sucr_synth; TIGR02470 105559008394 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 105559008395 putative ADP-binding pocket [chemical binding]; other site 105559008396 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 105559008397 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 105559008398 putative ADP-binding pocket [chemical binding]; other site 105559008399 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 105559008400 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 105559008401 active site 105559008402 motif I; other site 105559008403 motif II; other site 105559008404 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 105559008405 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 105559008406 putative substrate binding site [chemical binding]; other site 105559008407 putative ATP binding site [chemical binding]; other site 105559008408 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 105559008409 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 105559008410 glutaminase active site [active] 105559008411 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 105559008412 dimer interface [polypeptide binding]; other site 105559008413 active site 105559008414 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 105559008415 dimer interface [polypeptide binding]; other site 105559008416 active site 105559008417 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 105559008418 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 105559008419 Substrate binding site; other site 105559008420 Mg++ binding site; other site 105559008421 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 105559008422 active site 105559008423 substrate binding site [chemical binding]; other site 105559008424 CoA binding site [chemical binding]; other site 105559008425 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 105559008426 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 105559008427 gamma subunit interface [polypeptide binding]; other site 105559008428 epsilon subunit interface [polypeptide binding]; other site 105559008429 LBP interface [polypeptide binding]; other site 105559008430 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 105559008431 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 105559008432 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 105559008433 alpha subunit interaction interface [polypeptide binding]; other site 105559008434 Walker A motif; other site 105559008435 ATP binding site [chemical binding]; other site 105559008436 Walker B motif; other site 105559008437 inhibitor binding site; inhibition site 105559008438 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559008439 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 105559008440 core domain interface [polypeptide binding]; other site 105559008441 delta subunit interface [polypeptide binding]; other site 105559008442 epsilon subunit interface [polypeptide binding]; other site 105559008443 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 105559008444 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 105559008445 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 105559008446 beta subunit interaction interface [polypeptide binding]; other site 105559008447 Walker A motif; other site 105559008448 ATP binding site [chemical binding]; other site 105559008449 Walker B motif; other site 105559008450 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 105559008451 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 105559008452 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 105559008453 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 105559008454 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 105559008455 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 105559008456 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 105559008457 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 105559008458 ATP synthase I chain; Region: ATP_synt_I; cl09170 105559008459 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 105559008460 ParB-like nuclease domain; Region: ParB; smart00470 105559008461 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 105559008462 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 105559008463 P-loop; other site 105559008464 Magnesium ion binding site [ion binding]; other site 105559008465 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 105559008466 Magnesium ion binding site [ion binding]; other site 105559008467 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 105559008468 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 105559008469 S-adenosylmethionine binding site [chemical binding]; other site 105559008470 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 105559008471 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 105559008472 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 105559008473 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 105559008474 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 105559008475 trmE is a tRNA modification GTPase; Region: trmE; cd04164 105559008476 G1 box; other site 105559008477 GTP/Mg2+ binding site [chemical binding]; other site 105559008478 Switch I region; other site 105559008479 G2 box; other site 105559008480 Switch II region; other site 105559008481 G3 box; other site 105559008482 G4 box; other site 105559008483 G5 box; other site 105559008484 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 105559008485 membrane protein insertase; Provisional; Region: PRK01318 105559008486 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 105559008487 Ribonuclease P; Region: Ribonuclease_P; cl00457 105559008488 YcfA-like protein; Region: YcfA; cl00752 105559008489 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 105559008490 HicB family; Region: HicB; pfam05534 105559008491 Domain of unknown function (DUF932); Region: DUF932; pfam06067 105559008492 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 105559008493 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 105559008494 Walker A motif; other site 105559008495 ATP binding site [chemical binding]; other site 105559008496 Walker B motif; other site 105559008497 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 105559008498 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 105559008499 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 105559008500 non-specific DNA binding site [nucleotide binding]; other site 105559008501 salt bridge; other site 105559008502 sequence-specific DNA binding site [nucleotide binding]; other site 105559008503 TrfA protein; Region: TrfA; pfam07042 105559008504 Replication initiator protein A; Region: RPA; cl17860 105559008505 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 105559008506 non-specific DNA binding site [nucleotide binding]; other site 105559008507 salt bridge; other site 105559008508 sequence-specific DNA binding site [nucleotide binding]; other site 105559008509 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 105559008510 non-specific DNA binding site [nucleotide binding]; other site 105559008511 salt bridge; other site 105559008512 sequence-specific DNA binding site [nucleotide binding]; other site 105559008513 PemK-like protein; Region: PemK; pfam02452 105559008514 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 105559008515 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 105559008516 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 105559008517 Zn2+ binding site [ion binding]; other site 105559008518 Mg2+ binding site [ion binding]; other site 105559008519 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 105559008520 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 105559008521 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 105559008522 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 105559008523 ATP binding site [chemical binding]; other site 105559008524 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 105559008525 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 105559008526 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 105559008527 active site 105559008528 DNA binding site [nucleotide binding] 105559008529 Int/Topo IB signature motif; other site 105559008530 ParB-like nuclease domain; Region: ParB; smart00470 105559008531 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 105559008532 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 105559008533 P-loop; other site 105559008534 Magnesium ion binding site [ion binding]; other site 105559008535 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 105559008536 Magnesium ion binding site [ion binding]; other site 105559008537 Restriction endonuclease; Region: Mrr_cat; pfam04471 105559008538 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 105559008539 putative active site [active] 105559008540 putative catalytic site [active] 105559008541 putative Mg binding site IVb [ion binding]; other site 105559008542 putative phosphate binding site [ion binding]; other site 105559008543 putative DNA binding site [nucleotide binding]; other site 105559008544 putative Mg binding site IVa [ion binding]; other site 105559008545 Lamin Tail Domain; Region: LTD; pfam00932 105559008546 Type II transport protein GspH; Region: GspH; pfam12019 105559008547 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 105559008548 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 105559008549 sequence-specific DNA binding site [nucleotide binding]; other site 105559008550 salt bridge; other site 105559008551 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 105559008552 TrfA protein; Region: TrfA; pfam07042 105559008553 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508