-- dump date 20140619_130421 -- class Genbank::misc_feature -- table misc_feature_note -- id note 297246000001 ParB-like nuclease domain; Region: ParBc; pfam02195 297246000002 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 297246000003 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 297246000004 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 297246000005 P-loop; other site 297246000006 Magnesium ion binding site [ion binding]; other site 297246000007 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 297246000008 Magnesium ion binding site [ion binding]; other site 297246000009 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 297246000010 ParB-like nuclease domain; Region: ParBc; pfam02195 297246000011 Initiator Replication protein; Region: Rep_3; pfam01051 297246000012 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 297246000013 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246000014 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 297246000015 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 297246000016 putative DNA binding site [nucleotide binding]; other site 297246000017 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 297246000018 Ubiquitin-like proteins; Region: UBQ; cl00155 297246000019 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 297246000020 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 297246000021 ATP binding site [chemical binding]; other site 297246000022 substrate interface [chemical binding]; other site 297246000023 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 297246000024 active site residue [active] 297246000025 Uncharacterized conserved protein [Function unknown]; Region: COG1944 297246000026 YcaO-like family; Region: YcaO; pfam02624 297246000027 TfuA-like protein; Region: TfuA; pfam07812 297246000028 Global regulator protein family; Region: CsrA; pfam02599 297246000029 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 297246000030 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 297246000031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 297246000032 Helix-turn-helix domain; Region: HTH_38; pfam13936 297246000033 Integrase core domain; Region: rve; pfam00665 297246000034 transposase/IS protein; Provisional; Region: PRK09183 297246000035 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 297246000036 Walker A motif; other site 297246000037 ATP binding site [chemical binding]; other site 297246000038 Walker B motif; other site 297246000039 TraA; Region: TraA; cl11503 297246000040 type IV conjugative transfer system protein TraL; Region: TraL_TIGR; TIGR02762 297246000041 TraE protein; Region: TraE; cl05060 297246000042 TraK protein; Region: TraK; pfam06586 297246000043 type-F conjugative transfer system secretin TraK; Region: TraK_Ftype; TIGR02756 297246000044 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 297246000045 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 297246000046 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 297246000047 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 297246000048 type-F conjugative transfer system protein TrbI; Region: TrbI_Ftype; TIGR02744 297246000049 type-F conjugative transfer system protein TraW; Region: TraW; TIGR02743 297246000050 TraU protein; Region: TraU; cl06067 297246000051 type-F conjugative transfer system pilin assembly protein TrbC; Region: TrbC_Ftype; TIGR02742 297246000052 type-F conjugative transfer system mating-pair stabilization protein TraN; Region: TraN_Ftype; TIGR02750 297246000053 type-F conjugative transfer system pilin assembly protein TraF; Region: TraF; TIGR02739 297246000054 F plasmid transfer operon protein; Region: TraF; pfam13728 297246000055 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB; Region: TrbB; TIGR02738 297246000056 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 297246000057 conjugal transfer mating pair stabilization protein TraG; Provisional; Region: PRK13735 297246000058 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 297246000059 F sex factor protein N terminal; Region: TraD_N; pfam12615 297246000060 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 297246000061 Walker A motif; other site 297246000062 ATP binding site [chemical binding]; other site 297246000063 Walker B motif; other site 297246000064 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 297246000065 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 297246000066 AAA domain; Region: AAA_30; pfam13604 297246000067 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 297246000068 active site 297246000069 metal binding site [ion binding]; metal-binding site 297246000070 interdomain interaction site; other site 297246000071 Plasmid conjugative transfer entry exclusion protein TraS; Region: TraS; pfam10624 297246000072 Antirestriction protein; Region: Antirestrict; pfam03230 297246000073 Abi-like protein; Region: Abi_2; pfam07751 297246000074 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 297246000075 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 297246000076 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 297246000077 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 297246000078 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 297246000079 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 297246000080 catalytic residues [active] 297246000081 catalytic nucleophile [active] 297246000082 Presynaptic Site I dimer interface [polypeptide binding]; other site 297246000083 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 297246000084 Synaptic Flat tetramer interface [polypeptide binding]; other site 297246000085 Synaptic Site I dimer interface [polypeptide binding]; other site 297246000086 DNA binding site [nucleotide binding] 297246000087 HTH domain; Region: HTH_22; pfam13309 297246000088 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 297246000089 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 297246000090 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 297246000091 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 297246000092 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246000093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246000094 Walker A/P-loop; other site 297246000095 ATP binding site [chemical binding]; other site 297246000096 Q-loop/lid; other site 297246000097 ABC transporter signature motif; other site 297246000098 Walker B; other site 297246000099 D-loop; other site 297246000100 H-loop/switch region; other site 297246000101 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 297246000102 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 297246000103 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 297246000104 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246000105 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 297246000106 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246000107 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 297246000108 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246000109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246000110 Walker A/P-loop; other site 297246000111 ATP binding site [chemical binding]; other site 297246000112 Q-loop/lid; other site 297246000113 ABC transporter signature motif; other site 297246000114 Walker B; other site 297246000115 D-loop; other site 297246000116 H-loop/switch region; other site 297246000117 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 297246000118 active site 297246000119 NTP binding site [chemical binding]; other site 297246000120 metal binding triad [ion binding]; metal-binding site 297246000121 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 297246000122 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 297246000123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000124 Coenzyme A binding pocket [chemical binding]; other site 297246000125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000126 Coenzyme A binding pocket [chemical binding]; other site 297246000127 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000128 Coenzyme A binding pocket [chemical binding]; other site 297246000129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000130 Coenzyme A binding pocket [chemical binding]; other site 297246000131 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 297246000132 Predicted ATPase [General function prediction only]; Region: COG3911 297246000133 AAA domain; Region: AAA_28; pfam13521 297246000134 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 297246000135 DNA binding residues [nucleotide binding] 297246000136 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 297246000137 dimer interface [polypeptide binding]; other site 297246000138 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 297246000139 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 297246000140 Beta-lactamase; Region: Beta-lactamase; pfam00144 297246000141 Beta-lactamase; Region: Beta-lactamase; pfam00144 297246000142 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 297246000143 Penicillinase repressor; Region: Pencillinase_R; pfam03965 297246000144 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 297246000145 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 297246000146 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 297246000147 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 297246000148 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 297246000149 NodB motif; other site 297246000150 putative active site [active] 297246000151 putative catalytic site [active] 297246000152 putative Zn binding site [ion binding]; other site 297246000153 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 297246000154 PGAP1-like protein; Region: PGAP1; pfam07819 297246000155 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 297246000156 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246000157 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 297246000158 active site 297246000159 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 297246000160 RibD C-terminal domain; Region: RibD_C; cl17279 297246000161 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246000162 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 297246000163 S-adenosylmethionine binding site [chemical binding]; other site 297246000164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000165 Coenzyme A binding pocket [chemical binding]; other site 297246000166 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 297246000167 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 297246000168 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 297246000169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 297246000170 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 297246000171 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246000172 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 297246000173 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 297246000174 DNA binding residues [nucleotide binding] 297246000175 dimer interface [polypeptide binding]; other site 297246000176 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 297246000177 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 297246000178 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 297246000179 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 297246000180 aminoglycoside resistance protein; Provisional; Region: PRK13746 297246000181 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 297246000182 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 297246000183 dimerization interface [polypeptide binding]; other site 297246000184 putative DNA binding site [nucleotide binding]; other site 297246000185 putative Zn2+ binding site [ion binding]; other site 297246000186 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 297246000187 active site 297246000188 NTP binding site [chemical binding]; other site 297246000189 metal binding triad [ion binding]; metal-binding site 297246000190 antibiotic binding site [chemical binding]; other site 297246000191 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246000192 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 297246000193 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 297246000194 active site 297246000195 phosphorylation site [posttranslational modification] 297246000196 intermolecular recognition site; other site 297246000197 dimerization interface [polypeptide binding]; other site 297246000198 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 297246000199 DNA binding site [nucleotide binding] 297246000200 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246000201 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246000202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 297246000203 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 297246000204 dimer interface [polypeptide binding]; other site 297246000205 phosphorylation site [posttranslational modification] 297246000206 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 297246000207 ATP binding site [chemical binding]; other site 297246000208 Mg2+ binding site [ion binding]; other site 297246000209 G-X-G motif; other site 297246000210 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 297246000211 active site 297246000212 NTP binding site [chemical binding]; other site 297246000213 metal binding triad [ion binding]; metal-binding site 297246000214 antibiotic binding site [chemical binding]; other site 297246000215 Cupin domain; Region: Cupin_2; cl17218 297246000216 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 297246000217 Phosphotransferase enzyme family; Region: APH; pfam01636 297246000218 Predicted transcriptional regulator [Transcription]; Region: COG2378 297246000219 HTH domain; Region: HTH_11; pfam08279 297246000220 WYL domain; Region: WYL; pfam13280 297246000221 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_11; cd07261 297246000222 putative dimer interface [polypeptide binding]; other site 297246000223 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246000224 hypothetical protein; Provisional; Region: PRK02268 297246000225 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 297246000226 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 297246000227 A new structural DNA glycosylase; Region: AlkD_like; cd06561 297246000228 active site 297246000229 Phosphotransferase enzyme family; Region: APH; pfam01636 297246000230 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246000231 C-terminal part similar to acetyltransferase;hypothetical protein 297246000232 LysE type translocator; Region: LysE; cl00565 297246000233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246000234 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246000235 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cd08368 297246000236 Zn binding site [ion binding]; other site 297246000237 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 297246000238 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 297246000239 Putative esterase; Region: Esterase; pfam00756 297246000240 shikimate kinase; Reviewed; Region: aroK; PRK00131 297246000241 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 297246000242 ADP binding site [chemical binding]; other site 297246000243 magnesium binding site [ion binding]; other site 297246000244 putative shikimate binding site; other site 297246000245 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 297246000246 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 297246000247 DNA binding residues [nucleotide binding] 297246000248 dimerization interface [polypeptide binding]; other site 297246000249 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246000250 Uncharacterized bacterial proteins with similarity to Aminoglycoside 3'-phosphotransferase (APH) and Choline kinase (ChoK) family members. The APH/ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases; Region: APH_ChoK_like_1; cd05155 297246000251 Phosphotransferase enzyme family; Region: APH; pfam01636 297246000252 putative active site [active] 297246000253 putative substrate binding site [chemical binding]; other site 297246000254 ATP binding site [chemical binding]; other site 297246000255 Phosphotransferase enzyme family; Region: APH; pfam01636 297246000256 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 297246000257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000258 Coenzyme A binding pocket [chemical binding]; other site 297246000259 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 297246000260 classical (c) SDRs; Region: SDR_c; cd05233 297246000261 NAD(P) binding site [chemical binding]; other site 297246000262 active site 297246000263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000264 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 297246000265 Coenzyme A binding pocket [chemical binding]; other site 297246000266 Cupin domain; Region: Cupin_2; cl17218 297246000267 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 297246000268 dimer interface [polypeptide binding]; other site 297246000269 catalytic triad [active] 297246000270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000271 Coenzyme A binding pocket [chemical binding]; other site 297246000272 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 297246000273 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 297246000274 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 297246000275 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 297246000276 S-adenosylmethionine binding site [chemical binding]; other site 297246000277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000278 Coenzyme A binding pocket [chemical binding]; other site 297246000279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 297246000280 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 297246000281 active site 297246000282 NTP binding site [chemical binding]; other site 297246000283 metal binding triad [ion binding]; metal-binding site 297246000284 antibiotic binding site [chemical binding]; other site 297246000285 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 297246000286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000287 Coenzyme A binding pocket [chemical binding]; other site 297246000288 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 297246000289 DNA binding residues [nucleotide binding] 297246000290 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 297246000291 dimer interface [polypeptide binding]; other site 297246000292 Phosphotransferase enzyme family; Region: APH; pfam01636 297246000293 Ecdysteroid kinase; Region: EcKinase; cl17738 297246000294 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 297246000295 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 297246000296 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 297246000297 putative deacylase active site [active] 297246000298 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 297246000299 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 297246000300 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 297246000301 non-specific DNA binding site [nucleotide binding]; other site 297246000302 salt bridge; other site 297246000303 sequence-specific DNA binding site [nucleotide binding]; other site 297246000304 Cupin domain; Region: Cupin_2; pfam07883 297246000305 Phosphotransferase enzyme family; Region: APH; pfam01636 297246000306 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246000307 substrate binding site [chemical binding]; other site 297246000308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246000309 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246000310 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 297246000311 active site 297246000312 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246000313 topology modulation protein; Reviewed; Region: PRK08118 297246000314 AAA domain; Region: AAA_17; pfam13207 297246000315 recombination regulator RecX; Reviewed; Region: recX; PRK00117 297246000316 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 297246000317 active site 297246000318 catalytic residues [active] 297246000319 DNA binding site [nucleotide binding] 297246000320 Int/Topo IB signature motif; other site 297246000321 similar to ATP-dependent DNA helicase RecG(C-terminal part);hypothetical protein 297246000322 Similar to N-terminal part of ATP-dependent DNA helicase recG;hypothetical protein 297246000323 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 297246000324 DnaA N-terminal domain; Region: DnaA_N; pfam11638 297246000325 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 297246000326 Walker A motif; other site 297246000327 ATP binding site [chemical binding]; other site 297246000328 Walker B motif; other site 297246000329 arginine finger; other site 297246000330 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 297246000331 DnaA box-binding interface [nucleotide binding]; other site 297246000332 DNA polymerase III subunit beta; Validated; Region: PRK05643 297246000333 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 297246000334 putative DNA binding surface [nucleotide binding]; other site 297246000335 dimer interface [polypeptide binding]; other site 297246000336 beta-clamp/clamp loader binding surface; other site 297246000337 beta-clamp/translesion DNA polymerase binding surface; other site 297246000338 recombination protein F; Reviewed; Region: recF; PRK00064 297246000339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246000340 Walker A/P-loop; other site 297246000341 ATP binding site [chemical binding]; other site 297246000342 Q-loop/lid; other site 297246000343 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246000344 ABC transporter signature motif; other site 297246000345 Walker B; other site 297246000346 D-loop; other site 297246000347 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 297246000348 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 297246000349 Mg2+ binding site [ion binding]; other site 297246000350 G-X-G motif; other site 297246000351 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 297246000352 anchoring element; other site 297246000353 dimer interface [polypeptide binding]; other site 297246000354 ATP binding site [chemical binding]; other site 297246000355 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 297246000356 active site 297246000357 putative metal-binding site [ion binding]; other site 297246000358 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 297246000359 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 297246000360 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 297246000361 arginine decarboxylase; Provisional; Region: PRK05354 297246000362 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 297246000363 dimer interface [polypeptide binding]; other site 297246000364 active site 297246000365 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 297246000366 catalytic residues [active] 297246000367 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 297246000368 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 297246000369 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 297246000370 putative active site; other site 297246000371 catalytic triad [active] 297246000372 putative dimer interface [polypeptide binding]; other site 297246000373 bacterial Hfq-like; Region: Hfq; cd01716 297246000374 hexamer interface [polypeptide binding]; other site 297246000375 Sm1 motif; other site 297246000376 RNA binding site [nucleotide binding]; other site 297246000377 Sm2 motif; other site 297246000378 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 297246000379 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 297246000380 HflX GTPase family; Region: HflX; cd01878 297246000381 G1 box; other site 297246000382 GTP/Mg2+ binding site [chemical binding]; other site 297246000383 Switch I region; other site 297246000384 G2 box; other site 297246000385 G3 box; other site 297246000386 Switch II region; other site 297246000387 G4 box; other site 297246000388 G5 box; other site 297246000389 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 297246000390 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 297246000391 catalytic residues [active] 297246000392 Pirin-related protein [General function prediction only]; Region: COG1741 297246000393 Pirin; Region: Pirin; pfam02678 297246000394 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 297246000395 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 297246000396 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 297246000397 active site 297246000398 nucleophile elbow; other site 297246000399 Patatin phospholipase; Region: DUF3734; pfam12536 297246000400 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 297246000401 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246000402 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246000403 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 297246000404 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 297246000405 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 297246000406 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 297246000407 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 297246000408 active site 297246000409 Zn binding site [ion binding]; other site 297246000410 hypothetical protein; Provisional; Region: PRK05255 297246000411 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 297246000412 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 297246000413 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 297246000414 Methyltransferase domain; Region: Methyltransf_26; pfam13659 297246000415 Protein of unknown function (DUF962); Region: DUF962; cl01879 297246000416 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 297246000417 amino acid transporter; Region: 2A0306; TIGR00909 297246000418 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 297246000419 Phosphate transporter family; Region: PHO4; pfam01384 297246000420 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 297246000421 diiron binding motif [ion binding]; other site 297246000422 PAS domain; Region: PAS_9; pfam13426 297246000423 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 297246000424 putative active site [active] 297246000425 heme pocket [chemical binding]; other site 297246000426 PAS domain S-box; Region: sensory_box; TIGR00229 297246000427 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 297246000428 putative active site [active] 297246000429 heme pocket [chemical binding]; other site 297246000430 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 297246000431 PAS domain; Region: PAS_9; pfam13426 297246000432 putative active site [active] 297246000433 heme pocket [chemical binding]; other site 297246000434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246000435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246000436 metal binding site [ion binding]; metal-binding site 297246000437 active site 297246000438 I-site; other site 297246000439 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 297246000440 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 297246000441 Peptidase family M28; Region: Peptidase_M28; pfam04389 297246000442 active site 297246000443 metal binding site [ion binding]; metal-binding site 297246000444 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 297246000445 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246000446 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246000447 substrate binding pocket [chemical binding]; other site 297246000448 membrane-bound complex binding site; other site 297246000449 hinge residues; other site 297246000450 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246000451 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246000452 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246000453 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246000454 GIY-YIG motif/motif A; other site 297246000455 putative active site [active] 297246000456 putative metal binding site [ion binding]; other site 297246000457 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 297246000458 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 297246000459 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 297246000460 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 297246000461 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 297246000462 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 297246000463 trimer interface [polypeptide binding]; other site 297246000464 active site 297246000465 substrate binding site [chemical binding]; other site 297246000466 CoA binding site [chemical binding]; other site 297246000467 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246000468 amino acid transporter; Region: 2A0306; TIGR00909 297246000469 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 297246000470 Predicted membrane protein [Function unknown]; Region: COG2323 297246000471 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 297246000472 tetramer interface [polypeptide binding]; other site 297246000473 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 297246000474 active site 297246000475 Mg2+/Mn2+ binding site [ion binding]; other site 297246000476 Domain of Unknown Function with PDB structure (DUF3865); Region: DUF3865; pfam12981 297246000477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246000478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246000479 LysR substrate binding domain; Region: LysR_substrate; pfam03466 297246000480 dimerization interface [polypeptide binding]; other site 297246000481 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 297246000482 putative active site [active] 297246000483 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 297246000484 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 297246000485 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 297246000486 DNA binding residues [nucleotide binding] 297246000487 dimer interface [polypeptide binding]; other site 297246000488 mercury binding site [ion binding]; other site 297246000489 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 297246000490 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 297246000491 HipA N-terminal domain; Region: couple_hipA; TIGR03071 297246000492 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 297246000493 HipA-like N-terminal domain; Region: HipA_N; pfam07805 297246000494 HipA-like C-terminal domain; Region: HipA_C; pfam07804 297246000495 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 297246000496 non-specific DNA binding site [nucleotide binding]; other site 297246000497 salt bridge; other site 297246000498 sequence-specific DNA binding site [nucleotide binding]; other site 297246000499 hypothetical protein 297246000500 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246000501 integrase; Provisional; Region: PRK09692 297246000502 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 297246000503 active site 297246000504 Int/Topo IB signature motif; other site 297246000505 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 297246000506 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 297246000507 non-specific DNA binding site [nucleotide binding]; other site 297246000508 salt bridge; other site 297246000509 sequence-specific DNA binding site [nucleotide binding]; other site 297246000510 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 297246000511 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 297246000512 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246000513 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 297246000514 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246000515 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 297246000516 Hemocyanin, copper containing domain; Region: Hemocyanin_M; pfam00372 297246000517 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 297246000518 activation loop (A-loop); other site 297246000519 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 297246000520 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 297246000521 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246000522 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 297246000523 aspartate aminotransferase; Provisional; Region: PRK05764 297246000524 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 297246000525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246000526 homodimer interface [polypeptide binding]; other site 297246000527 catalytic residue [active] 297246000528 excinuclease ABC subunit B; Provisional; Region: PRK05298 297246000529 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 297246000530 ATP binding site [chemical binding]; other site 297246000531 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 297246000532 nucleotide binding region [chemical binding]; other site 297246000533 ATP-binding site [chemical binding]; other site 297246000534 Ultra-violet resistance protein B; Region: UvrB; pfam12344 297246000535 UvrB/uvrC motif; Region: UVR; pfam02151 297246000536 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246000537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246000538 metal binding site [ion binding]; metal-binding site 297246000539 active site 297246000540 I-site; other site 297246000541 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 297246000542 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 297246000543 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 297246000544 active site 297246000545 FMN binding site [chemical binding]; other site 297246000546 substrate binding site [chemical binding]; other site 297246000547 3Fe-4S cluster binding site [ion binding]; other site 297246000548 Cell division protein ZapA; Region: ZapA; pfam05164 297246000549 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 297246000550 proline aminopeptidase P II; Provisional; Region: PRK10879 297246000551 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 297246000552 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 297246000553 active site 297246000554 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 297246000555 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 297246000556 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 297246000557 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 297246000558 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 297246000559 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 297246000560 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 297246000561 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 297246000562 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 297246000563 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246000564 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246000565 substrate binding pocket [chemical binding]; other site 297246000566 membrane-bound complex binding site; other site 297246000567 hinge residues; other site 297246000568 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 297246000569 ribonuclease R; Region: RNase_R; TIGR02063 297246000570 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 297246000571 RNB domain; Region: RNB; pfam00773 297246000572 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 297246000573 RNA binding site [nucleotide binding]; other site 297246000574 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 297246000575 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 297246000576 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 297246000577 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 297246000578 tetramer (dimer of dimers) interface [polypeptide binding]; other site 297246000579 active site 297246000580 dimer interface [polypeptide binding]; other site 297246000581 5' nucleotidase family; Region: 5_nucleotid; cl17687 297246000582 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 297246000583 similar to unknown protein, truncated;hypothetical protein 297246000584 Response regulator receiver domain; Region: Response_reg; pfam00072 297246000585 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 297246000586 active site 297246000587 phosphorylation site [posttranslational modification] 297246000588 intermolecular recognition site; other site 297246000589 DNA polymerase I; Provisional; Region: PRK05755 297246000590 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 297246000591 active site 297246000592 metal binding site 1 [ion binding]; metal-binding site 297246000593 putative 5' ssDNA interaction site; other site 297246000594 metal binding site 3; metal-binding site 297246000595 metal binding site 2 [ion binding]; metal-binding site 297246000596 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 297246000597 putative DNA binding site [nucleotide binding]; other site 297246000598 putative metal binding site [ion binding]; other site 297246000599 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 297246000600 active site 297246000601 catalytic site [active] 297246000602 substrate binding site [chemical binding]; other site 297246000603 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 297246000604 active site 297246000605 DNA binding site [nucleotide binding] 297246000606 catalytic site [active] 297246000607 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 297246000608 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 297246000609 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 297246000610 trimer interface [polypeptide binding]; other site 297246000611 active site 297246000612 UDP-GlcNAc binding site [chemical binding]; other site 297246000613 lipid binding site [chemical binding]; lipid-binding site 297246000614 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 297246000615 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 297246000616 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 297246000617 dimer interface [polypeptide binding]; other site 297246000618 active site 297246000619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000620 Coenzyme A binding pocket [chemical binding]; other site 297246000621 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 297246000622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000623 Coenzyme A binding pocket [chemical binding]; other site 297246000624 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 297246000625 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 297246000626 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 297246000627 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 297246000628 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 297246000629 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 297246000630 substrate binding pocket [chemical binding]; other site 297246000631 substrate-Mg2+ binding site; other site 297246000632 aspartate-rich region 1; other site 297246000633 aspartate-rich region 2; other site 297246000634 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246000635 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 297246000636 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 297246000637 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 297246000638 tetramer interface [polypeptide binding]; other site 297246000639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246000640 catalytic residue [active] 297246000641 YCII-related domain; Region: YCII; cl00999 297246000642 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 297246000643 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 297246000644 tetramer interface [polypeptide binding]; other site 297246000645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246000646 catalytic residue [active] 297246000647 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 297246000648 lipoyl attachment site [posttranslational modification]; other site 297246000649 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 297246000650 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 297246000651 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 297246000652 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246000653 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 297246000654 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 297246000655 dimer interface [polypeptide binding]; other site 297246000656 conserved gate region; other site 297246000657 putative PBP binding loops; other site 297246000658 ABC-ATPase subunit interface; other site 297246000659 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 297246000660 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 297246000661 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 297246000662 Walker A/P-loop; other site 297246000663 ATP binding site [chemical binding]; other site 297246000664 Q-loop/lid; other site 297246000665 ABC transporter signature motif; other site 297246000666 Walker B; other site 297246000667 D-loop; other site 297246000668 H-loop/switch region; other site 297246000669 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 297246000670 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 297246000671 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 297246000672 catalytic residues [active] 297246000673 hinge region; other site 297246000674 alpha helical domain; other site 297246000675 Cytochrome c553 [Energy production and conversion]; Region: COG2863 297246000676 Cytochrome c; Region: Cytochrom_C; cl11414 297246000677 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 297246000678 G1 box; other site 297246000679 GTP/Mg2+ binding site [chemical binding]; other site 297246000680 Switch I region; other site 297246000681 G2 box; other site 297246000682 G3 box; other site 297246000683 Switch II region; other site 297246000684 G4 box; other site 297246000685 G5 box; other site 297246000686 acetyl-CoA synthetase; Provisional; Region: PRK00174 297246000687 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 297246000688 active site 297246000689 CoA binding site [chemical binding]; other site 297246000690 acyl-activating enzyme (AAE) consensus motif; other site 297246000691 AMP binding site [chemical binding]; other site 297246000692 acetate binding site [chemical binding]; other site 297246000693 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 297246000694 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 297246000695 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 297246000696 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 297246000697 tetrameric interface [polypeptide binding]; other site 297246000698 NAD binding site [chemical binding]; other site 297246000699 catalytic residues [active] 297246000700 Dodecin; Region: Dodecin; cl01328 297246000701 dihydrodipicolinate reductase; Provisional; Region: PRK00048 297246000702 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 297246000703 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 297246000704 ProQ/FINO family; Region: ProQ; pfam04352 297246000705 putative RNA binding sites [nucleotide binding]; other site 297246000706 MltA specific insert domain; Region: MltA; cl08398 297246000707 pyruvate kinase; Provisional; Region: PRK05826 297246000708 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 297246000709 domain interfaces; other site 297246000710 active site 297246000711 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 297246000712 Phosphoglycerate kinase; Region: PGK; pfam00162 297246000713 substrate binding site [chemical binding]; other site 297246000714 hinge regions; other site 297246000715 ADP binding site [chemical binding]; other site 297246000716 catalytic site [active] 297246000717 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 297246000718 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 297246000719 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 297246000720 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 297246000721 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 297246000722 TPP-binding site [chemical binding]; other site 297246000723 dimer interface [polypeptide binding]; other site 297246000724 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 297246000725 PYR/PP interface [polypeptide binding]; other site 297246000726 dimer interface [polypeptide binding]; other site 297246000727 TPP binding site [chemical binding]; other site 297246000728 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 297246000729 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 297246000730 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 297246000731 active site 297246000732 Zn binding site [ion binding]; other site 297246000733 hypothetical protein 297246000734 hypothetical protein 297246000735 CRISPR/Cas system-associated protein Cas9; Region: Csx12; cd09704 297246000736 CRISPR-associated protein Cas9/Csx12, subtype II-B/NMENI; Region: cas_csx12; TIGR03031 297246000737 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 297246000738 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 297246000739 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 297246000740 similar to unknown proteins;hypothetical protein 297246000741 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 297246000742 sequence-specific DNA binding site [nucleotide binding]; other site 297246000743 salt bridge; other site 297246000744 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 297246000745 Catalytic site [active] 297246000746 Global regulator protein family; Region: CsrA; pfam02599 297246000747 TrbC/VIRB2 family; Region: TrbC; pfam04956 297246000748 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 297246000749 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 297246000750 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 297246000751 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 297246000752 Type IV secretion system proteins; Region: T4SS; pfam07996 297246000753 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 297246000754 VirB8 protein; Region: VirB8; pfam04335 297246000755 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 297246000756 VirB7 interaction site; other site 297246000757 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 297246000758 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 297246000759 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 297246000760 Walker A motif; other site 297246000761 hexamer interface [polypeptide binding]; other site 297246000762 ATP binding site [chemical binding]; other site 297246000763 Walker B motif; other site 297246000764 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 297246000765 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 297246000766 Walker A motif; other site 297246000767 ATP binding site [chemical binding]; other site 297246000768 Walker B motif; other site 297246000769 replicative DNA helicase; Provisional; Region: PRK05973 297246000770 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 297246000771 MobA/MobL family; Region: MobA_MobL; pfam03389 297246000772 AAA domain; Region: AAA_30; pfam13604 297246000773 Family description; Region: UvrD_C_2; pfam13538 297246000774 Conjugal transfer protein TraD; Region: TraD; pfam06412 297246000775 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 297246000776 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 297246000777 nucleoside/Zn binding site; other site 297246000778 dimer interface [polypeptide binding]; other site 297246000779 catalytic motif [active] 297246000780 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 297246000781 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 297246000782 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 297246000783 non-specific DNA binding site [nucleotide binding]; other site 297246000784 sequence-specific DNA binding site [nucleotide binding]; other site 297246000785 salt bridge; other site 297246000786 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 297246000787 Catalytic site [active] 297246000788 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 297246000789 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 297246000790 Int/Topo IB signature motif; other site 297246000791 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 297246000792 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 297246000793 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 297246000794 DNA methylase; Region: N6_N4_Mtase; pfam01555 297246000795 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 297246000796 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 297246000797 Transposase; Region: HTH_Tnp_1; pfam01527 297246000798 similar to transposase;hypothetical protein 297246000799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 297246000800 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246000801 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246000802 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246000803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 297246000804 Similar to C-terminal part of phage integrase;hypothetical protein 297246000805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 297246000806 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 297246000807 active site 297246000808 Similar to transposase (ISL3 family);hypothetical protein 297246000809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246000810 Coenzyme A binding pocket [chemical binding]; other site 297246000811 PAS domain; Region: PAS_9; pfam13426 297246000812 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 297246000813 putative active site [active] 297246000814 heme pocket [chemical binding]; other site 297246000815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246000816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246000817 metal binding site [ion binding]; metal-binding site 297246000818 active site 297246000819 I-site; other site 297246000820 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 297246000821 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 297246000822 active site 297246000823 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 297246000824 Uncharacterized conserved protein [Function unknown]; Region: COG0432 297246000825 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246000826 Acyl transferase domain; Region: Acyl_transf_1; cl08282 297246000827 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 297246000828 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 297246000829 Protein of unknown function (DUF808); Region: DUF808; pfam05661 297246000830 RF-1 domain; Region: RF-1; pfam00472 297246000831 Protein of unknown function (DUF330); Region: DUF330; pfam03886 297246000832 mce related protein; Region: MCE; pfam02470 297246000833 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 297246000834 Permease; Region: Permease; pfam02405 297246000835 F-box-like; Region: F-box-like; pfam12937 297246000836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246000837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246000838 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 297246000839 dimerization interface [polypeptide binding]; other site 297246000840 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 297246000841 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 297246000842 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 297246000843 substrate binding pocket [chemical binding]; other site 297246000844 active site 297246000845 iron coordination sites [ion binding]; other site 297246000846 hypothetical protein; Provisional; Region: PRK07190 297246000847 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 297246000848 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 297246000849 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 297246000850 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 297246000851 putative substrate translocation pore; other site 297246000852 hypothetical protein; Provisional; Region: PRK07206 297246000853 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 297246000854 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 297246000855 S-adenosylmethionine binding site [chemical binding]; other site 297246000856 M48 family peptidase; Provisional; Region: PRK03001 297246000857 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 297246000858 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 297246000859 hypothetical protein; Provisional; Region: PRK09133 297246000860 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 297246000861 putative metal binding site [ion binding]; other site 297246000862 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 297246000863 CoA-transferase family III; Region: CoA_transf_3; pfam02515 297246000864 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 297246000865 dimer interface [polypeptide binding]; other site 297246000866 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 297246000867 active site 297246000868 heme binding site [chemical binding]; other site 297246000869 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 297246000870 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 297246000871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 297246000872 Chitin binding domain; Region: Chitin_bind_3; pfam03067 297246000873 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 297246000874 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 297246000875 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 297246000876 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 297246000877 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 297246000878 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 297246000879 DAK2 domain; Region: Dak2; pfam02734 297246000880 EDD domain protein, DegV family; Region: DegV; TIGR00762 297246000881 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 297246000882 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 297246000883 classical (c) SDRs; Region: SDR_c; cd05233 297246000884 NAD(P) binding site [chemical binding]; other site 297246000885 active site 297246000886 similar to unknown protein (N-terminal part);hypothetical protein 297246000887 similar to unknown protein (C-terminal part);hypothetical protein 297246000888 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 297246000889 Catalytic domain of Protein Kinases; Region: PKc; cd00180 297246000890 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 297246000891 active site 297246000892 ATP binding site [chemical binding]; other site 297246000893 substrate binding site [chemical binding]; other site 297246000894 activation loop (A-loop); other site 297246000895 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 297246000896 TspO/MBR family; Region: TspO_MBR; pfam03073 297246000897 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 297246000898 DNA photolyase; Region: DNA_photolyase; pfam00875 297246000899 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 297246000900 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 297246000901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246000902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246000903 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 297246000904 putative dimerization interface [polypeptide binding]; other site 297246000905 Domain of unknown function (DUF329); Region: DUF329; pfam03884 297246000906 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 297246000907 ATP-grasp domain; Region: ATP-grasp; pfam02222 297246000908 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 297246000909 Nitrogen regulatory protein P-II; Region: P-II; cl00412 297246000910 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 297246000911 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 297246000912 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 297246000913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246000914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246000915 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 297246000916 dimerization interface [polypeptide binding]; other site 297246000917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246000918 ATP binding site [chemical binding]; other site 297246000919 Q-loop/lid; other site 297246000920 ABC transporter signature motif; other site 297246000921 Walker B; other site 297246000922 D-loop; other site 297246000923 H-loop/switch region; other site 297246000924 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 297246000925 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246000926 Outer membrane efflux protein; Region: OEP; pfam02321 297246000927 Outer membrane efflux protein; Region: OEP; pfam02321 297246000928 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 297246000929 hypothetical protein; Provisional; Region: PHA02764 297246000930 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 297246000931 heme binding pocket [chemical binding]; other site 297246000932 heme ligand [chemical binding]; other site 297246000933 hypothetical gene;hypothetical protein 297246000934 similar to unknown protein;hypothetical protein 297246000935 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 297246000936 classical (c) SDRs; Region: SDR_c; cd05233 297246000937 NAD(P) binding site [chemical binding]; other site 297246000938 active site 297246000939 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 297246000940 metabolite-proton symporter; Region: 2A0106; TIGR00883 297246000941 putative substrate translocation pore; other site 297246000942 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 297246000943 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 297246000944 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 297246000945 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 297246000946 D-pathway; other site 297246000947 Putative ubiquinol binding site [chemical binding]; other site 297246000948 Low-spin heme (heme b) binding site [chemical binding]; other site 297246000949 Putative water exit pathway; other site 297246000950 Binuclear center (heme o3/CuB) [ion binding]; other site 297246000951 K-pathway; other site 297246000952 Putative proton exit pathway; other site 297246000953 Ubiquinol oxidase subunit III subfamily. 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...; Region: Ubiquinol_oxidase_III; cd02863 297246000954 Subunit I/III interface [polypeptide binding]; other site 297246000955 Subunit III/IV interface [polypeptide binding]; other site 297246000956 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 297246000957 CHASE3 domain; Region: CHASE3; pfam05227 297246000958 PAS domain; Region: PAS_9; pfam13426 297246000959 GAF domain; Region: GAF; cl17456 297246000960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246000961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246000962 metal binding site [ion binding]; metal-binding site 297246000963 active site 297246000964 I-site; other site 297246000965 CHASE3 domain; Region: CHASE3; pfam05227 297246000966 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 297246000967 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246000968 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 297246000969 motif II; other site 297246000970 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 297246000971 metal binding site 2 [ion binding]; metal-binding site 297246000972 putative DNA binding helix; other site 297246000973 metal binding site 1 [ion binding]; metal-binding site 297246000974 dimer interface [polypeptide binding]; other site 297246000975 structural Zn2+ binding site [ion binding]; other site 297246000976 Dot/Icm substrate protein; Region: SidE; pfam12252 297246000977 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 297246000978 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 297246000979 TAP-like protein; Region: Abhydrolase_4; pfam08386 297246000980 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 297246000981 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 297246000982 tetramerization interface [polypeptide binding]; other site 297246000983 NAD(P) binding site [chemical binding]; other site 297246000984 catalytic residues [active] 297246000985 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 297246000986 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 297246000987 inhibitor-cofactor binding pocket; inhibition site 297246000988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246000989 catalytic residue [active] 297246000990 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 297246000991 glutaminase A; Region: Gln_ase; TIGR03814 297246000992 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 297246000993 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 297246000994 NAD binding site [chemical binding]; other site 297246000995 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 297246000996 putative NAD(P) binding site [chemical binding]; other site 297246000997 homodimer interface [polypeptide binding]; other site 297246000998 mercuric reductase; Validated; Region: PRK06370 297246000999 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 297246001000 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 297246001001 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 297246001002 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 297246001003 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 297246001004 ArsC family; Region: ArsC; pfam03960 297246001005 catalytic residues [active] 297246001006 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 297246001007 Fatty acid desaturase; Region: FA_desaturase; pfam00487 297246001008 Di-iron ligands [ion binding]; other site 297246001009 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246001010 helicase 45; Provisional; Region: PTZ00424 297246001011 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 297246001012 ATP binding site [chemical binding]; other site 297246001013 Mg++ binding site [ion binding]; other site 297246001014 motif III; other site 297246001015 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 297246001016 nucleotide binding region [chemical binding]; other site 297246001017 ATP-binding site [chemical binding]; other site 297246001018 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 297246001019 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 297246001020 hypothetical protein; Provisional; Region: PRK11212 297246001021 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 297246001022 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 297246001023 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 297246001024 HlyD family secretion protein; Region: HlyD; pfam00529 297246001025 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246001026 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246001027 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246001028 GIY-YIG motif/motif A; other site 297246001029 putative active site [active] 297246001030 putative metal binding site [ion binding]; other site 297246001031 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 297246001032 Fe-S cluster binding site [ion binding]; other site 297246001033 active site 297246001034 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 297246001035 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 297246001036 amidase catalytic site [active] 297246001037 Zn binding residues [ion binding]; other site 297246001038 substrate binding site [chemical binding]; other site 297246001039 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 297246001040 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 297246001041 Multicopper oxidase; Region: Cu-oxidase; pfam00394 297246001042 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 297246001043 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 297246001044 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 297246001045 oligomer interface [polypeptide binding]; other site 297246001046 metal binding site [ion binding]; metal-binding site 297246001047 metal binding site [ion binding]; metal-binding site 297246001048 putative Cl binding site [ion binding]; other site 297246001049 aspartate ring; other site 297246001050 hydrophobic gate; other site 297246001051 basic sphincter; other site 297246001052 periplasmic entrance; other site 297246001053 HD domain; Region: HD_3; pfam13023 297246001054 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 297246001055 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 297246001056 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 297246001057 active site 297246001058 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 297246001059 Isochorismatase family; Region: Isochorismatase; pfam00857 297246001060 catalytic triad [active] 297246001061 metal binding site [ion binding]; metal-binding site 297246001062 conserved cis-peptide bond; other site 297246001063 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 297246001064 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246001065 metal binding site [ion binding]; metal-binding site 297246001066 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 297246001067 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 297246001068 putative substrate translocation pore; other site 297246001069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246001070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246001071 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 297246001072 putative effector binding pocket; other site 297246001073 dimerization interface [polypeptide binding]; other site 297246001074 Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking; Region: RasGEF; cl02485 297246001075 Ras interaction site [polypeptide binding]; other site 297246001076 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 297246001077 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 297246001078 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 297246001079 active site 297246001080 phosphorylation site [posttranslational modification] 297246001081 intermolecular recognition site; other site 297246001082 dimerization interface [polypeptide binding]; other site 297246001083 PAS domain; Region: PAS; smart00091 297246001084 PAS fold; Region: PAS_7; pfam12860 297246001085 putative active site [active] 297246001086 heme pocket [chemical binding]; other site 297246001087 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246001088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246001089 metal binding site [ion binding]; metal-binding site 297246001090 active site 297246001091 I-site; other site 297246001092 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 297246001093 PAS fold; Region: PAS_3; pfam08447 297246001094 putative active site [active] 297246001095 heme pocket [chemical binding]; other site 297246001096 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 297246001097 ATP binding site [chemical binding]; other site 297246001098 Mg2+ binding site [ion binding]; other site 297246001099 G-X-G motif; other site 297246001100 FIST N domain; Region: FIST; pfam08495 297246001101 Uncharacterized conserved protein [Function unknown]; Region: COG3287 297246001102 FIST C domain; Region: FIST_C; pfam10442 297246001103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246001104 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 297246001105 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 297246001106 dimerization interface [polypeptide binding]; other site 297246001107 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246001108 amino acid transporter; Region: 2A0306; TIGR00909 297246001109 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 297246001110 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 297246001111 S-adenosylmethionine binding site [chemical binding]; other site 297246001112 formate dehydrogenase; Provisional; Region: PRK07574 297246001113 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 297246001114 dimerization interface [polypeptide binding]; other site 297246001115 ligand binding site [chemical binding]; other site 297246001116 NAD binding site [chemical binding]; other site 297246001117 catalytic site [active] 297246001118 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 297246001119 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 297246001120 putative NAD(P) binding site [chemical binding]; other site 297246001121 homodimer interface [polypeptide binding]; other site 297246001122 homotetramer interface [polypeptide binding]; other site 297246001123 active site 297246001124 elongation factor P; Validated; Region: PRK00529 297246001125 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 297246001126 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 297246001127 RNA binding site [nucleotide binding]; other site 297246001128 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 297246001129 RNA binding site [nucleotide binding]; other site 297246001130 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 297246001131 Radical SAM superfamily; Region: Radical_SAM; pfam04055 297246001132 FeS/SAM binding site; other site 297246001133 polyphosphate kinase; Provisional; Region: PRK05443 297246001134 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 297246001135 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 297246001136 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 297246001137 putative active site [active] 297246001138 catalytic site [active] 297246001139 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 297246001140 putative domain interface [polypeptide binding]; other site 297246001141 putative active site [active] 297246001142 catalytic site [active] 297246001143 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 297246001144 nucleophile elbow; other site 297246001145 Chromate transporter; Region: Chromate_transp; pfam02417 297246001146 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 297246001147 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 297246001148 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 297246001149 active site 297246001150 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 297246001151 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 297246001152 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 297246001153 Substrate binding site; other site 297246001154 metal-binding site 297246001155 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 297246001156 Phosphotransferase enzyme family; Region: APH; pfam01636 297246001157 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 297246001158 OstA-like protein; Region: OstA; cl00844 297246001159 Organic solvent tolerance protein; Region: OstA_C; pfam04453 297246001160 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 297246001161 SurA N-terminal domain; Region: SurA_N; pfam09312 297246001162 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 297246001163 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 297246001164 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 297246001165 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 297246001166 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 297246001167 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 297246001168 folate binding site [chemical binding]; other site 297246001169 NADP+ binding site [chemical binding]; other site 297246001170 Repeats found in Drosophila proteins; Region: DM9; smart00696 297246001171 Protein of unknown function (DUF3421); Region: DUF3421; pfam11901 297246001172 Repeats found in Drosophila proteins; Region: DM9; smart00696 297246001173 elongation factor Tu; Reviewed; Region: PRK00049 297246001174 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 297246001175 G1 box; other site 297246001176 GEF interaction site [polypeptide binding]; other site 297246001177 GTP/Mg2+ binding site [chemical binding]; other site 297246001178 Switch I region; other site 297246001179 G2 box; other site 297246001180 G3 box; other site 297246001181 Switch II region; other site 297246001182 G4 box; other site 297246001183 G5 box; other site 297246001184 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 297246001185 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 297246001186 Antibiotic Binding Site [chemical binding]; other site 297246001187 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 297246001188 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 297246001189 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 297246001190 putative homodimer interface [polypeptide binding]; other site 297246001191 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 297246001192 heterodimer interface [polypeptide binding]; other site 297246001193 homodimer interface [polypeptide binding]; other site 297246001194 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 297246001195 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 297246001196 23S rRNA interface [nucleotide binding]; other site 297246001197 L7/L12 interface [polypeptide binding]; other site 297246001198 putative thiostrepton binding site; other site 297246001199 L25 interface [polypeptide binding]; other site 297246001200 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 297246001201 mRNA/rRNA interface [nucleotide binding]; other site 297246001202 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 297246001203 23S rRNA interface [nucleotide binding]; other site 297246001204 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 297246001205 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 297246001206 peripheral dimer interface [polypeptide binding]; other site 297246001207 core dimer interface [polypeptide binding]; other site 297246001208 L10 interface [polypeptide binding]; other site 297246001209 L11 interface [polypeptide binding]; other site 297246001210 putative EF-Tu interaction site [polypeptide binding]; other site 297246001211 putative EF-G interaction site [polypeptide binding]; other site 297246001212 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 297246001213 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 297246001214 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 297246001215 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 297246001216 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 297246001217 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 297246001218 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 297246001219 RPB3 interaction site [polypeptide binding]; other site 297246001220 RPB1 interaction site [polypeptide binding]; other site 297246001221 RPB11 interaction site [polypeptide binding]; other site 297246001222 RPB10 interaction site [polypeptide binding]; other site 297246001223 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 297246001224 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 297246001225 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 297246001226 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 297246001227 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 297246001228 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 297246001229 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 297246001230 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 297246001231 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 297246001232 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 297246001233 DNA binding site [nucleotide binding] 297246001234 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 297246001235 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 297246001236 S17 interaction site [polypeptide binding]; other site 297246001237 S8 interaction site; other site 297246001238 16S rRNA interaction site [nucleotide binding]; other site 297246001239 streptomycin interaction site [chemical binding]; other site 297246001240 23S rRNA interaction site [nucleotide binding]; other site 297246001241 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 297246001242 30S ribosomal protein S7; Validated; Region: PRK05302 297246001243 elongation factor G; Reviewed; Region: PRK00007 297246001244 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 297246001245 G1 box; other site 297246001246 putative GEF interaction site [polypeptide binding]; other site 297246001247 GTP/Mg2+ binding site [chemical binding]; other site 297246001248 Switch I region; other site 297246001249 G2 box; other site 297246001250 G3 box; other site 297246001251 Switch II region; other site 297246001252 G4 box; other site 297246001253 G5 box; other site 297246001254 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 297246001255 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 297246001256 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 297246001257 elongation factor Tu; Reviewed; Region: PRK00049 297246001258 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 297246001259 G1 box; other site 297246001260 GEF interaction site [polypeptide binding]; other site 297246001261 GTP/Mg2+ binding site [chemical binding]; other site 297246001262 Switch I region; other site 297246001263 G2 box; other site 297246001264 G3 box; other site 297246001265 Switch II region; other site 297246001266 G4 box; other site 297246001267 G5 box; other site 297246001268 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 297246001269 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 297246001270 Antibiotic Binding Site [chemical binding]; other site 297246001271 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 297246001272 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 297246001273 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 297246001274 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 297246001275 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 297246001276 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 297246001277 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 297246001278 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 297246001279 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 297246001280 putative translocon binding site; other site 297246001281 protein-rRNA interface [nucleotide binding]; other site 297246001282 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 297246001283 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 297246001284 G-X-X-G motif; other site 297246001285 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 297246001286 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 297246001287 23S rRNA interface [nucleotide binding]; other site 297246001288 5S rRNA interface [nucleotide binding]; other site 297246001289 putative antibiotic binding site [chemical binding]; other site 297246001290 L25 interface [polypeptide binding]; other site 297246001291 L27 interface [polypeptide binding]; other site 297246001292 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 297246001293 putative translocon interaction site; other site 297246001294 23S rRNA interface [nucleotide binding]; other site 297246001295 signal recognition particle (SRP54) interaction site; other site 297246001296 L23 interface [polypeptide binding]; other site 297246001297 trigger factor interaction site; other site 297246001298 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 297246001299 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 297246001300 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 297246001301 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 297246001302 RNA binding site [nucleotide binding]; other site 297246001303 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 297246001304 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 297246001305 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 297246001306 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK06911 297246001307 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 297246001308 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 297246001309 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 297246001310 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 297246001311 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 297246001312 23S rRNA interface [nucleotide binding]; other site 297246001313 L21e interface [polypeptide binding]; other site 297246001314 5S rRNA interface [nucleotide binding]; other site 297246001315 L27 interface [polypeptide binding]; other site 297246001316 L5 interface [polypeptide binding]; other site 297246001317 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 297246001318 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 297246001319 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 297246001320 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 297246001321 23S rRNA binding site [nucleotide binding]; other site 297246001322 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 297246001323 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 297246001324 SecY translocase; Region: SecY; pfam00344 297246001325 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 297246001326 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 297246001327 30S ribosomal protein S13; Region: bact_S13; TIGR03631 297246001328 30S ribosomal protein S11; Validated; Region: PRK05309 297246001329 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 297246001330 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 297246001331 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 297246001332 RNA binding surface [nucleotide binding]; other site 297246001333 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 297246001334 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 297246001335 alphaNTD homodimer interface [polypeptide binding]; other site 297246001336 alphaNTD - beta interaction site [polypeptide binding]; other site 297246001337 alphaNTD - beta' interaction site [polypeptide binding]; other site 297246001338 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 297246001339 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 297246001340 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 297246001341 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 297246001342 dimer interface [polypeptide binding]; other site 297246001343 ssDNA binding site [nucleotide binding]; other site 297246001344 tetramer (dimer of dimers) interface [polypeptide binding]; other site 297246001345 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 297246001346 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246001347 putative substrate translocation pore; other site 297246001348 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 297246001349 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 297246001350 putative NAD(P) binding site [chemical binding]; other site 297246001351 active site 297246001352 Phosphopantetheine attachment site; Region: PP-binding; cl09936 297246001353 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 297246001354 active site 2 [active] 297246001355 active site 1 [active] 297246001356 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 297246001357 active site 2 [active] 297246001358 dimer interface [polypeptide binding]; other site 297246001359 active site 1 [active] 297246001360 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 297246001361 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 297246001362 dimer interface [polypeptide binding]; other site 297246001363 active site 297246001364 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 297246001365 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 297246001366 active site 297246001367 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 297246001368 putative acyl-acceptor binding pocket; other site 297246001369 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 297246001370 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 297246001371 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 297246001372 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 297246001373 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 297246001374 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 297246001375 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 297246001376 putative coenzyme Q binding site [chemical binding]; other site 297246001377 hypothetical protein; Validated; Region: PRK01777 297246001378 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 297246001379 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 297246001380 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 297246001381 metal binding site 2 [ion binding]; metal-binding site 297246001382 putative DNA binding helix; other site 297246001383 metal binding site 1 [ion binding]; metal-binding site 297246001384 dimer interface [polypeptide binding]; other site 297246001385 structural Zn2+ binding site [ion binding]; other site 297246001386 similar to choline dehydrogenase (N-terminal part);hypothetical protein 297246001387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246001388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246001389 metal binding site [ion binding]; metal-binding site 297246001390 active site 297246001391 I-site; other site 297246001392 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 297246001393 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 297246001394 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 297246001395 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 297246001396 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246001397 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 297246001398 CoenzymeA binding site [chemical binding]; other site 297246001399 subunit interaction site [polypeptide binding]; other site 297246001400 PHB binding site; other site 297246001401 BON domain; Region: BON; pfam04972 297246001402 BON domain; Region: BON; pfam04972 297246001403 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246001404 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 297246001405 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 297246001406 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 297246001407 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 297246001408 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 297246001409 heat shock protein HtpX; Provisional; Region: PRK02870 297246001410 inner membrane transport permease; Provisional; Region: PRK15066 297246001411 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 297246001412 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 297246001413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246001414 Walker A/P-loop; other site 297246001415 ATP binding site [chemical binding]; other site 297246001416 Q-loop/lid; other site 297246001417 ABC transporter signature motif; other site 297246001418 Walker B; other site 297246001419 D-loop; other site 297246001420 H-loop/switch region; other site 297246001421 hypothetical protein 297246001422 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 297246001423 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 297246001424 Protein of unknown function DUF45; Region: DUF45; pfam01863 297246001425 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 297246001426 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 297246001427 DNA binding site [nucleotide binding] 297246001428 active site 297246001429 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 297246001430 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 297246001431 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 297246001432 RimM N-terminal domain; Region: RimM; pfam01782 297246001433 PRC-barrel domain; Region: PRC; pfam05239 297246001434 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 297246001435 signal recognition particle protein; Provisional; Region: PRK10867 297246001436 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 297246001437 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 297246001438 P loop; other site 297246001439 GTP binding site [chemical binding]; other site 297246001440 Signal peptide binding domain; Region: SRP_SPB; pfam02978 297246001441 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246001442 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246001443 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246001444 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 297246001445 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 297246001446 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 297246001447 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 297246001448 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 297246001449 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 297246001450 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 297246001451 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 297246001452 UbiA prenyltransferase family; Region: UbiA; pfam01040 297246001453 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 297246001454 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 297246001455 Cu(I) binding site [ion binding]; other site 297246001456 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 297246001457 RimK-like ATP-grasp domain; Region: RimK; pfam08443 297246001458 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 297246001459 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 297246001460 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 297246001461 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 297246001462 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 297246001463 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 297246001464 putative active site [active] 297246001465 phosphogluconate dehydratase; Validated; Region: PRK09054 297246001466 6-phosphogluconate dehydratase; Region: edd; TIGR01196 297246001467 Glucokinase; Region: Glucokinase; pfam02685 297246001468 glucokinase, proteobacterial type; Region: glk; TIGR00749 297246001469 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 297246001470 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 297246001471 active site 297246001472 intersubunit interface [polypeptide binding]; other site 297246001473 catalytic residue [active] 297246001474 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 297246001475 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 297246001476 putative substrate translocation pore; other site 297246001477 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 297246001478 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 297246001479 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 297246001480 salt bridge; other site 297246001481 non-specific DNA binding site [nucleotide binding]; other site 297246001482 sequence-specific DNA binding site [nucleotide binding]; other site 297246001483 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 297246001484 ferrochelatase; Reviewed; Region: hemH; PRK00035 297246001485 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 297246001486 C-terminal domain interface [polypeptide binding]; other site 297246001487 active site 297246001488 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 297246001489 active site 297246001490 N-terminal domain interface [polypeptide binding]; other site 297246001491 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 297246001492 DNA-binding site [nucleotide binding]; DNA binding site 297246001493 RNA-binding motif; other site 297246001494 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 297246001495 HIT family signature motif; other site 297246001496 catalytic residue [active] 297246001497 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246001498 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 297246001499 active site 297246001500 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 297246001501 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 297246001502 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246001503 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246001504 Predicted membrane protein [Function unknown]; Region: COG1289 297246001505 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 297246001506 Predicted transcriptional regulators [Transcription]; Region: COG1733 297246001507 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 297246001508 Uncharacterized conserved protein [Function unknown]; Region: COG4278 297246001509 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246001510 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 297246001511 S-adenosylmethionine binding site [chemical binding]; other site 297246001512 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246001513 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246001514 Protein of unknown function (DUF3773); Region: DUF3773; pfam12608 297246001515 Dot/Icm secretion system protein (dot_icm_IcmQ); Region: Dot_icm_IcmQ; pfam09475 297246001516 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 297246001517 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 297246001518 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 297246001519 ligand binding site [chemical binding]; other site 297246001520 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246001521 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 297246001522 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 297246001523 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 297246001524 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 297246001525 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 297246001526 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 297246001527 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 297246001528 HNH nucleases; Region: HNHc; smart00507 297246001529 AAA-like domain; Region: AAA_10; pfam12846 297246001530 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 297246001531 metabolite-proton symporter; Region: 2A0106; TIGR00883 297246001532 putative substrate translocation pore; other site 297246001533 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 297246001534 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 297246001535 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 297246001536 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 297246001537 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 297246001538 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 297246001539 purine monophosphate binding site [chemical binding]; other site 297246001540 dimer interface [polypeptide binding]; other site 297246001541 putative catalytic residues [active] 297246001542 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 297246001543 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 297246001544 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 297246001545 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 297246001546 S-adenosylmethionine binding site [chemical binding]; other site 297246001547 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 297246001548 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 297246001549 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 297246001550 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 297246001551 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 297246001552 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 297246001553 carboxyltransferase (CT) interaction site; other site 297246001554 biotinylation site [posttranslational modification]; other site 297246001555 Dehydroquinase class II; Region: DHquinase_II; pfam01220 297246001556 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 297246001557 trimer interface [polypeptide binding]; other site 297246001558 active site 297246001559 dimer interface [polypeptide binding]; other site 297246001560 pyruvate carboxylase subunit B; Provisional; Region: PRK14042 297246001561 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 297246001562 active site 297246001563 catalytic residues [active] 297246001564 metal binding site [ion binding]; metal-binding site 297246001565 homodimer binding site [polypeptide binding]; other site 297246001566 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 297246001567 carboxyltransferase (CT) interaction site; other site 297246001568 biotinylation site [posttranslational modification]; other site 297246001569 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 297246001570 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 297246001571 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 297246001572 active site 297246001573 Zn binding site [ion binding]; other site 297246001574 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246001575 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 297246001576 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 297246001577 putative catalytic site [active] 297246001578 putative metal binding site [ion binding]; other site 297246001579 putative phosphate binding site [ion binding]; other site 297246001580 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 297246001581 active site 297246001582 intersubunit interface [polypeptide binding]; other site 297246001583 catalytic residue [active] 297246001584 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 297246001585 ferredoxin-NADP reductase; Provisional; Region: PRK10926 297246001586 FAD binding pocket [chemical binding]; other site 297246001587 FAD binding motif [chemical binding]; other site 297246001588 phosphate binding motif [ion binding]; other site 297246001589 beta-alpha-beta structure motif; other site 297246001590 NAD binding pocket [chemical binding]; other site 297246001591 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 297246001592 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 297246001593 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 297246001594 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 297246001595 dimerization domain swap beta strand [polypeptide binding]; other site 297246001596 regulatory protein interface [polypeptide binding]; other site 297246001597 active site 297246001598 regulatory phosphorylation site [posttranslational modification]; other site 297246001599 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 297246001600 30S subunit binding site; other site 297246001601 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 297246001602 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 297246001603 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 297246001604 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 297246001605 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 297246001606 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 297246001607 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 297246001608 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 297246001609 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 297246001610 oligomer interface [polypeptide binding]; other site 297246001611 active site 297246001612 metal binding site [ion binding]; metal-binding site 297246001613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246001614 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246001615 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 297246001616 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 297246001617 HflK protein; Region: hflK; TIGR01933 297246001618 FtsH protease regulator HflC; Provisional; Region: PRK11029 297246001619 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 297246001620 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 297246001621 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 297246001622 GDP-binding site [chemical binding]; other site 297246001623 ACT binding site; other site 297246001624 IMP binding site; other site 297246001625 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 297246001626 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 297246001627 Arginine repressor [Transcription]; Region: ArgR; COG1438 297246001628 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 297246001629 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246001630 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246001631 substrate binding pocket [chemical binding]; other site 297246001632 membrane-bound complex binding site; other site 297246001633 hinge residues; other site 297246001634 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 297246001635 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 297246001636 dimer interface [polypeptide binding]; other site 297246001637 conserved gate region; other site 297246001638 putative PBP binding loops; other site 297246001639 ABC-ATPase subunit interface; other site 297246001640 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 297246001641 ATP-binding cassette domain of the binding protein-dependent transport systems; Region: ABC_Class3; cd03229 297246001642 Walker A/P-loop; other site 297246001643 ATP binding site [chemical binding]; other site 297246001644 Q-loop/lid; other site 297246001645 ABC transporter signature motif; other site 297246001646 Walker B; other site 297246001647 D-loop; other site 297246001648 H-loop/switch region; other site 297246001649 argininosuccinate synthase; Provisional; Region: PRK13820 297246001650 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 297246001651 ANP binding site [chemical binding]; other site 297246001652 Substrate Binding Site II [chemical binding]; other site 297246001653 Substrate Binding Site I [chemical binding]; other site 297246001654 Lyase; Region: Lyase_1; pfam00206 297246001655 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 297246001656 active sites [active] 297246001657 tetramer interface [polypeptide binding]; other site 297246001658 ornithine carbamoyltransferase; Provisional; Region: PRK00779 297246001659 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 297246001660 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 297246001661 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 297246001662 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 297246001663 active site 297246001664 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 297246001665 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 297246001666 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 297246001667 C-terminal peptidase (prc); Region: prc; TIGR00225 297246001668 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 297246001669 protein binding site [polypeptide binding]; other site 297246001670 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 297246001671 Catalytic dyad [active] 297246001672 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 297246001673 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 297246001674 Peptidase family M23; Region: Peptidase_M23; pfam01551 297246001675 phosphoglyceromutase; Provisional; Region: PRK05434 297246001676 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 297246001677 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 297246001678 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 297246001679 catalytic residue [active] 297246001680 putative FPP diphosphate binding site; other site 297246001681 putative FPP binding hydrophobic cleft; other site 297246001682 dimer interface [polypeptide binding]; other site 297246001683 putative IPP diphosphate binding site; other site 297246001684 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 297246001685 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 297246001686 zinc metallopeptidase RseP; Provisional; Region: PRK10779 297246001687 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 297246001688 active site 297246001689 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 297246001690 protein binding site [polypeptide binding]; other site 297246001691 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 297246001692 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 297246001693 putative substrate binding region [chemical binding]; other site 297246001694 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 297246001695 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 297246001696 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 297246001697 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 297246001698 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 297246001699 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 297246001700 Surface antigen; Region: Bac_surface_Ag; pfam01103 297246001701 periplasmic chaperone; Provisional; Region: PRK10780 297246001702 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 297246001703 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 297246001704 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 297246001705 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 297246001706 trimer interface [polypeptide binding]; other site 297246001707 active site 297246001708 UDP-GlcNAc binding site [chemical binding]; other site 297246001709 lipid binding site [chemical binding]; lipid-binding site 297246001710 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 297246001711 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 297246001712 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 297246001713 active site 297246001714 camphor resistance protein CrcB; Provisional; Region: PRK14217 297246001715 seryl-tRNA synthetase; Provisional; Region: PRK05431 297246001716 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 297246001717 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 297246001718 dimer interface [polypeptide binding]; other site 297246001719 active site 297246001720 motif 1; other site 297246001721 motif 2; other site 297246001722 motif 3; other site 297246001723 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 297246001724 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 297246001725 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246001726 Methyltransferase domain; Region: Methyltransf_12; pfam08242 297246001727 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 297246001728 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 297246001729 active site 297246001730 catalytic tetrad [active] 297246001731 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 297246001732 S-adenosylmethionine binding site [chemical binding]; other site 297246001733 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246001734 hypothetical protein; Provisional; Region: PRK08233 297246001735 AAA domain; Region: AAA_18; pfam13238 297246001736 active site 297246001737 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 297246001738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246001739 Coenzyme A binding pocket [chemical binding]; other site 297246001740 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 297246001741 Phosphotransferase enzyme family; Region: APH; pfam01636 297246001742 active site 297246001743 ATP binding site [chemical binding]; other site 297246001744 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 297246001745 substrate binding site [chemical binding]; other site 297246001746 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 297246001747 dimer interface [polypeptide binding]; other site 297246001748 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246001749 Mn binding site [ion binding]; other site 297246001750 K binding site [ion binding]; other site 297246001751 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246001752 RDD family; Region: RDD; cl00746 297246001753 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 297246001754 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 297246001755 Iron-sulfur protein interface; other site 297246001756 proximal quinone binding site [chemical binding]; other site 297246001757 SdhD (CybS) interface [polypeptide binding]; other site 297246001758 proximal heme binding site [chemical binding]; other site 297246001759 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 297246001760 SdhC subunit interface [polypeptide binding]; other site 297246001761 proximal heme binding site [chemical binding]; other site 297246001762 cardiolipin binding site; other site 297246001763 Iron-sulfur protein interface; other site 297246001764 proximal quinone binding site [chemical binding]; other site 297246001765 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 297246001766 L-aspartate oxidase; Provisional; Region: PRK06175 297246001767 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 297246001768 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 297246001769 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 297246001770 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 297246001771 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 297246001772 TPP-binding site [chemical binding]; other site 297246001773 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 297246001774 dimer interface [polypeptide binding]; other site 297246001775 PYR/PP interface [polypeptide binding]; other site 297246001776 TPP binding site [chemical binding]; other site 297246001777 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 297246001778 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 297246001779 E3 interaction surface; other site 297246001780 lipoyl attachment site [posttranslational modification]; other site 297246001781 e3 binding domain; Region: E3_binding; pfam02817 297246001782 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 297246001783 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 297246001784 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 297246001785 CoA-ligase; Region: Ligase_CoA; pfam00549 297246001786 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 297246001787 CoA binding domain; Region: CoA_binding; smart00881 297246001788 CoA-ligase; Region: Ligase_CoA; pfam00549 297246001789 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 297246001790 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 297246001791 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 297246001792 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 297246001793 D-galactonate transporter; Region: 2A0114; TIGR00893 297246001794 putative substrate translocation pore; other site 297246001795 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 297246001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 297246001797 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 297246001798 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 297246001799 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 297246001800 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246001801 active site 297246001802 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 297246001803 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 297246001804 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 297246001805 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 297246001806 active site 297246001807 (T/H)XGH motif; other site 297246001808 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 297246001809 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 297246001810 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 297246001811 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 297246001812 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 297246001813 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 297246001814 ligand binding site [chemical binding]; other site 297246001815 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 297246001816 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 297246001817 putative acyl-acceptor binding pocket; other site 297246001818 multidrug efflux system protein; Provisional; Region: PRK11431 297246001819 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 297246001820 active site 297246001821 DNA polymerase IV; Validated; Region: PRK02406 297246001822 DNA binding site [nucleotide binding] 297246001823 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 297246001824 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 297246001825 DNA binding site [nucleotide binding] 297246001826 catalytic residue [active] 297246001827 H2TH interface [polypeptide binding]; other site 297246001828 putative catalytic residues [active] 297246001829 turnover-facilitating residue; other site 297246001830 intercalation triad [nucleotide binding]; other site 297246001831 8OG recognition residue [nucleotide binding]; other site 297246001832 putative reading head residues; other site 297246001833 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 297246001834 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 297246001835 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 297246001836 Fatty acid desaturase; Region: FA_desaturase; pfam00487 297246001837 Di-iron ligands [ion binding]; other site 297246001838 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246001839 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 297246001840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246001841 NAD(P) binding site [chemical binding]; other site 297246001842 active site 297246001843 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 297246001844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246001845 NAD(P) binding site [chemical binding]; other site 297246001846 active site 297246001847 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 297246001848 Phasin protein; Region: Phasin_2; cl11491 297246001849 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 297246001850 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 297246001851 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 297246001852 putative peptidase; Provisional; Region: PRK11649 297246001853 Peptidase family M23; Region: Peptidase_M23; pfam01551 297246001854 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 297246001855 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 297246001856 active site 297246001857 HIGH motif; other site 297246001858 dimer interface [polypeptide binding]; other site 297246001859 KMSKS motif; other site 297246001860 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 297246001861 RNA binding surface [nucleotide binding]; other site 297246001862 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 297246001863 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 297246001864 trimer interface [polypeptide binding]; other site 297246001865 putative metal binding site [ion binding]; other site 297246001866 glutathione reductase; Validated; Region: PRK06116 297246001867 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 297246001868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 297246001869 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 297246001870 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 297246001871 adenosine deaminase; Provisional; Region: PRK09358 297246001872 active site 297246001873 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 297246001874 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 297246001875 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 297246001876 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 297246001877 hypothetical protein; Validated; Region: PRK00228 297246001878 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 297246001879 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 297246001880 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 297246001881 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 297246001882 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 297246001883 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 297246001884 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 297246001885 Walker A motif; other site 297246001886 ATP binding site [chemical binding]; other site 297246001887 Walker B motif; other site 297246001888 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 297246001889 Membrane fusogenic activity; Region: BMFP; pfam04380 297246001890 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 297246001891 Nitrogen regulatory protein P-II; Region: P-II; smart00938 297246001892 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 297246001893 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 297246001894 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 297246001895 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 297246001896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246001897 catalytic residue [active] 297246001898 Uncharacterized conserved protein [Function unknown]; Region: COG0398 297246001899 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 297246001900 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 297246001901 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 297246001902 putative acyl-acceptor binding pocket; other site 297246001903 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 297246001904 acyl-activating enzyme (AAE) consensus motif; other site 297246001905 AMP binding site [chemical binding]; other site 297246001906 active site 297246001907 CoA binding site [chemical binding]; other site 297246001908 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 297246001909 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 297246001910 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 297246001911 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 297246001912 Transcriptional regulator; Region: Rrf2; pfam02082 297246001913 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 297246001914 putative ABC transporter; Region: ycf24; CHL00085 297246001915 FeS assembly ATPase SufC; Region: sufC; TIGR01978 297246001916 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 297246001917 Walker A/P-loop; other site 297246001918 ATP binding site [chemical binding]; other site 297246001919 Q-loop/lid; other site 297246001920 ABC transporter signature motif; other site 297246001921 Walker B; other site 297246001922 D-loop; other site 297246001923 H-loop/switch region; other site 297246001924 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 297246001925 FeS assembly protein SufD; Region: sufD; TIGR01981 297246001926 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 297246001927 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 297246001928 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 297246001929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246001930 catalytic residue [active] 297246001931 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 297246001932 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 297246001933 trimerization site [polypeptide binding]; other site 297246001934 active site 297246001935 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 297246001936 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 297246001937 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 297246001938 motif 1; other site 297246001939 dimer interface [polypeptide binding]; other site 297246001940 active site 297246001941 motif 2; other site 297246001942 motif 3; other site 297246001943 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 297246001944 S-adenosylmethionine binding site [chemical binding]; other site 297246001945 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 297246001946 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 297246001947 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 297246001948 putative substrate translocation pore; other site 297246001949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246001950 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 297246001951 Domain of unknown function DUF21; Region: DUF21; pfam01595 297246001952 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 297246001953 Transporter associated domain; Region: CorC_HlyC; smart01091 297246001954 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 297246001955 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 297246001956 putative NAD(P) binding site [chemical binding]; other site 297246001957 putative substrate binding site [chemical binding]; other site 297246001958 catalytic Zn binding site [ion binding]; other site 297246001959 structural Zn binding site [ion binding]; other site 297246001960 dimer interface [polypeptide binding]; other site 297246001961 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 297246001962 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 297246001963 active site 297246001964 catalytic residues [active] 297246001965 metal binding site [ion binding]; metal-binding site 297246001966 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 297246001967 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 297246001968 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 297246001969 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 297246001970 CoA binding domain; Region: CoA_binding_2; pfam13380 297246001971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 297246001972 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 297246001973 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 297246001974 Legionella pneumophila major outer membrane protein precursor; Region: Legionella_OMP; pfam05150 297246001975 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 297246001976 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 297246001977 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246001978 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 297246001979 Cupin domain; Region: Cupin_2; cl17218 297246001980 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 297246001981 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 297246001982 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 297246001983 Competence protein; Region: Competence; pfam03772 297246001984 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 297246001985 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 297246001986 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 297246001987 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 297246001988 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 297246001989 PilX N-terminal; Region: PilX_N; pfam14341 297246001990 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 297246001991 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 297246001992 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 297246001993 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 297246001994 Type II transport protein GspH; Region: GspH; pfam12019 297246001995 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 297246001996 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 297246001997 NodB motif; other site 297246001998 putative active site [active] 297246001999 putative catalytic site [active] 297246002000 putative Zn binding site [ion binding]; other site 297246002001 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 297246002002 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 297246002003 thymidine kinase; Provisional; Region: PRK04296 297246002004 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 297246002005 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246002006 putative substrate translocation pore; other site 297246002007 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 297246002008 putative substrate translocation pore; other site 297246002009 D-galactonate transporter; Region: 2A0114; TIGR00893 297246002010 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 297246002011 phosphopentomutase; Provisional; Region: PRK05362 297246002012 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 297246002013 active site 297246002014 HslU subunit interaction site [polypeptide binding]; other site 297246002015 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 297246002016 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 297246002017 Walker A motif; other site 297246002018 ATP binding site [chemical binding]; other site 297246002019 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 297246002020 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 297246002021 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 297246002022 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 297246002023 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 297246002024 metal ion-dependent adhesion site (MIDAS); other site 297246002025 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 297246002026 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 297246002027 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 297246002028 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 297246002029 putative active site [active] 297246002030 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 297246002031 putative active site [active] 297246002032 putative catalytic site [active] 297246002033 putative DNA binding site [nucleotide binding]; other site 297246002034 putative phosphate binding site [ion binding]; other site 297246002035 metal binding site A [ion binding]; metal-binding site 297246002036 putative AP binding site [nucleotide binding]; other site 297246002037 putative metal binding site B [ion binding]; other site 297246002038 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 297246002039 putative catalytic site [active] 297246002040 putative phosphate binding site [ion binding]; other site 297246002041 active site 297246002042 metal binding site A [ion binding]; metal-binding site 297246002043 DNA binding site [nucleotide binding] 297246002044 putative AP binding site [nucleotide binding]; other site 297246002045 putative metal binding site B [ion binding]; other site 297246002046 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 297246002047 Malic enzyme, N-terminal domain; Region: malic; pfam00390 297246002048 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 297246002049 putative NAD(P) binding site [chemical binding]; other site 297246002050 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 297246002051 putative substrate translocation pore; other site 297246002052 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246002053 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 297246002054 putative substrate translocation pore; other site 297246002055 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246002056 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 297246002057 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 297246002058 aromatic amino acid transport protein; Region: araaP; TIGR00837 297246002059 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 297246002060 aromatic amino acid transport protein; Region: araaP; TIGR00837 297246002061 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 297246002062 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 297246002063 ligand binding site [chemical binding]; other site 297246002064 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246002065 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 297246002066 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246002067 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 297246002068 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 297246002069 Walker A/P-loop; other site 297246002070 ATP binding site [chemical binding]; other site 297246002071 Q-loop/lid; other site 297246002072 ABC transporter signature motif; other site 297246002073 Walker B; other site 297246002074 D-loop; other site 297246002075 H-loop/switch region; other site 297246002076 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 297246002077 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 297246002078 Walker A/P-loop; other site 297246002079 ATP binding site [chemical binding]; other site 297246002080 Q-loop/lid; other site 297246002081 ABC transporter signature motif; other site 297246002082 Walker B; other site 297246002083 D-loop; other site 297246002084 H-loop/switch region; other site 297246002085 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 297246002086 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 297246002087 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246002088 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246002089 GIY-YIG motif/motif A; other site 297246002090 putative active site [active] 297246002091 putative metal binding site [ion binding]; other site 297246002092 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 297246002093 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 297246002094 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 297246002095 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 297246002096 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 297246002097 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 297246002098 N-acetyl-D-glucosamine binding site [chemical binding]; other site 297246002099 catalytic residue [active] 297246002100 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 297246002101 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 297246002102 substrate binding site [chemical binding]; other site 297246002103 hexamer interface [polypeptide binding]; other site 297246002104 metal binding site [ion binding]; metal-binding site 297246002105 DoxX; Region: DoxX; pfam07681 297246002106 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 297246002107 hypothetical protein; Provisional; Region: PRK05409 297246002108 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 297246002109 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 297246002110 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 297246002111 nucleophile elbow; other site 297246002112 DoxX; Region: DoxX; pfam07681 297246002113 Predicted membrane protein [Function unknown]; Region: COG2259 297246002114 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 297246002115 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 297246002116 acetoacetate decarboxylase; Provisional; Region: PRK02265 297246002117 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 297246002118 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 297246002119 cyclase homology domain; Region: CHD; cd07302 297246002120 nucleotidyl binding site; other site 297246002121 metal binding site [ion binding]; metal-binding site 297246002122 dimer interface [polypeptide binding]; other site 297246002123 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 297246002124 hypothetical protein; Provisional; Region: PRK05409 297246002125 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246002126 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246002127 substrate binding pocket [chemical binding]; other site 297246002128 membrane-bound complex binding site; other site 297246002129 hinge residues; other site 297246002130 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 297246002131 metal binding triad; other site 297246002132 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 297246002133 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 297246002134 metal binding triad; other site 297246002135 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246002136 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246002137 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 297246002138 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 297246002139 Walker A/P-loop; other site 297246002140 ATP binding site [chemical binding]; other site 297246002141 Q-loop/lid; other site 297246002142 ABC transporter signature motif; other site 297246002143 Walker B; other site 297246002144 D-loop; other site 297246002145 H-loop/switch region; other site 297246002146 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 297246002147 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 297246002148 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 297246002149 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 297246002150 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 297246002151 FeS/SAM binding site; other site 297246002152 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 297246002153 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 297246002154 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 297246002155 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 297246002156 DsbD alpha interface [polypeptide binding]; other site 297246002157 catalytic residues [active] 297246002158 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 297246002159 oligomerisation interface [polypeptide binding]; other site 297246002160 mobile loop; other site 297246002161 roof hairpin; other site 297246002162 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 297246002163 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 297246002164 ring oligomerisation interface [polypeptide binding]; other site 297246002165 ATP/Mg binding site [chemical binding]; other site 297246002166 stacking interactions; other site 297246002167 hinge regions; other site 297246002168 Ferritin-like domain; Region: Ferritin; pfam00210 297246002169 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 297246002170 dimerization interface [polypeptide binding]; other site 297246002171 DPS ferroxidase diiron center [ion binding]; other site 297246002172 ion pore; other site 297246002173 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 297246002174 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 297246002175 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 297246002176 Mg2+ binding site [ion binding]; other site 297246002177 G-X-G motif; other site 297246002178 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 297246002179 anchoring element; other site 297246002180 dimer interface [polypeptide binding]; other site 297246002181 ATP binding site [chemical binding]; other site 297246002182 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 297246002183 active site 297246002184 metal binding site [ion binding]; metal-binding site 297246002185 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 297246002186 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 297246002187 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 297246002188 Walker A/P-loop; other site 297246002189 ATP binding site [chemical binding]; other site 297246002190 Q-loop/lid; other site 297246002191 ABC transporter signature motif; other site 297246002192 Walker B; other site 297246002193 D-loop; other site 297246002194 H-loop/switch region; other site 297246002195 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 297246002196 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 297246002197 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 297246002198 Walker A/P-loop; other site 297246002199 ATP binding site [chemical binding]; other site 297246002200 Q-loop/lid; other site 297246002201 ABC transporter signature motif; other site 297246002202 Walker B; other site 297246002203 D-loop; other site 297246002204 H-loop/switch region; other site 297246002205 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 297246002206 prolyl-tRNA synthetase; Provisional; Region: PRK09194 297246002207 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 297246002208 dimer interface [polypeptide binding]; other site 297246002209 motif 1; other site 297246002210 active site 297246002211 motif 2; other site 297246002212 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 297246002213 putative deacylase active site [active] 297246002214 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 297246002215 active site 297246002216 motif 3; other site 297246002217 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 297246002218 anticodon binding site; other site 297246002219 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 297246002220 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246002221 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246002222 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246002223 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246002224 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246002225 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 297246002226 Sulfate transporter family; Region: Sulfate_transp; pfam00916 297246002227 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_cladeC; cd03378 297246002228 active site clefts [active] 297246002229 zinc binding site [ion binding]; other site 297246002230 dimer interface [polypeptide binding]; other site 297246002231 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 297246002232 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 297246002233 Ligand Binding Site [chemical binding]; other site 297246002234 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 297246002235 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 297246002236 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 297246002237 S-adenosylmethionine binding site [chemical binding]; other site 297246002238 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 297246002239 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 297246002240 substrate-cofactor binding pocket; other site 297246002241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246002242 catalytic residue [active] 297246002243 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 297246002244 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 297246002245 NAD(P) binding site [chemical binding]; other site 297246002246 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 297246002247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246002248 Walker A/P-loop; other site 297246002249 ATP binding site [chemical binding]; other site 297246002250 Q-loop/lid; other site 297246002251 ABC transporter signature motif; other site 297246002252 Walker B; other site 297246002253 D-loop; other site 297246002254 H-loop/switch region; other site 297246002255 ABC transporter; Region: ABC_tran_2; pfam12848 297246002256 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246002257 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246002258 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 297246002259 Predicted transporter component [General function prediction only]; Region: COG2391 297246002260 Sulphur transport; Region: Sulf_transp; pfam04143 297246002261 Predicted transporter component [General function prediction only]; Region: COG2391 297246002262 Sulphur transport; Region: Sulf_transp; pfam04143 297246002263 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 297246002264 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246002265 formimidoylglutamase; Provisional; Region: PRK13775 297246002266 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 297246002267 putative active site [active] 297246002268 putative metal binding site [ion binding]; other site 297246002269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246002270 short chain dehydrogenase; Provisional; Region: PRK06924 297246002271 NAD(P) binding site [chemical binding]; other site 297246002272 active site 297246002273 imidazolonepropionase; Validated; Region: PRK09356 297246002274 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 297246002275 active site 297246002276 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 297246002277 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 297246002278 Predicted membrane protein [Function unknown]; Region: COG1297 297246002279 putative oligopeptide transporter, OPT family; Region: TIGR00733 297246002280 similar to integrase;hypothetical protein 297246002281 similar to transposase, partial;hypothetical protein 297246002282 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 297246002283 Similar to transposase (IS5 family);hypothetical protein 297246002284 similar to transposase, partial;hypothetical protein 297246002285 similar to tranposase, partial;hypothetical protein 297246002286 similar to transposase;hypothetical protein 297246002287 Similar to transposase, partial;hypothetical protein 297246002288 similar to tranposase;hypothetical protein 297246002289 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 297246002290 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 297246002291 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 297246002292 Autotransporter beta-domain; Region: Autotransporter; pfam03797 297246002293 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 297246002294 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 297246002295 dimer interface [polypeptide binding]; other site 297246002296 phosphorylation site [posttranslational modification] 297246002297 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 297246002298 ATP binding site [chemical binding]; other site 297246002299 Mg2+ binding site [ion binding]; other site 297246002300 G-X-G motif; other site 297246002301 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 297246002302 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 297246002303 active site 297246002304 phosphorylation site [posttranslational modification] 297246002305 intermolecular recognition site; other site 297246002306 dimerization interface [polypeptide binding]; other site 297246002307 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 297246002308 DNA binding site [nucleotide binding] 297246002309 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 297246002310 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 297246002311 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 297246002312 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 297246002313 HIGH motif; other site 297246002314 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 297246002315 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 297246002316 active site 297246002317 KMSKS motif; other site 297246002318 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 297246002319 tRNA binding surface [nucleotide binding]; other site 297246002320 anticodon binding site; other site 297246002321 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 297246002322 multidrug efflux protein; Reviewed; Region: PRK09579 297246002323 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 297246002324 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246002325 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246002326 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246002327 BON domain; Region: BON; pfam04972 297246002328 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 297246002329 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 297246002330 dimer interface [polypeptide binding]; other site 297246002331 active site 297246002332 glycine-pyridoxal phosphate binding site [chemical binding]; other site 297246002333 folate binding site [chemical binding]; other site 297246002334 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 297246002335 ATP cone domain; Region: ATP-cone; pfam03477 297246002336 transcription antitermination factor NusB; Region: nusB; TIGR01951 297246002337 putative RNA binding site [nucleotide binding]; other site 297246002338 thiamine monophosphate kinase; Provisional; Region: PRK05731 297246002339 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 297246002340 ATP binding site [chemical binding]; other site 297246002341 dimerization interface [polypeptide binding]; other site 297246002342 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 297246002343 tetramer interfaces [polypeptide binding]; other site 297246002344 binuclear metal-binding site [ion binding]; other site 297246002345 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 297246002346 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 297246002347 NAD synthetase; Provisional; Region: PRK13981 297246002348 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 297246002349 multimer interface [polypeptide binding]; other site 297246002350 active site 297246002351 catalytic triad [active] 297246002352 protein interface 1 [polypeptide binding]; other site 297246002353 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 297246002354 homodimer interface [polypeptide binding]; other site 297246002355 NAD binding pocket [chemical binding]; other site 297246002356 ATP binding pocket [chemical binding]; other site 297246002357 Mg binding site [ion binding]; other site 297246002358 active-site loop [active] 297246002359 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 297246002360 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 297246002361 ATP binding site [chemical binding]; other site 297246002362 putative Mg++ binding site [ion binding]; other site 297246002363 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 297246002364 nucleotide binding region [chemical binding]; other site 297246002365 ATP-binding site [chemical binding]; other site 297246002366 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 297246002367 replicative DNA helicase; Region: DnaB; TIGR00665 297246002368 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 297246002369 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 297246002370 Walker A motif; other site 297246002371 ATP binding site [chemical binding]; other site 297246002372 Walker B motif; other site 297246002373 DNA binding loops [nucleotide binding] 297246002374 alanine racemase; Reviewed; Region: alr; PRK00053 297246002375 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 297246002376 active site 297246002377 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 297246002378 substrate binding site [chemical binding]; other site 297246002379 catalytic residues [active] 297246002380 dimer interface [polypeptide binding]; other site 297246002381 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 297246002382 FOG: CBS domain [General function prediction only]; Region: COG0517 297246002383 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 297246002384 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 297246002385 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 297246002386 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 297246002387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246002388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246002389 metal binding site [ion binding]; metal-binding site 297246002390 active site 297246002391 I-site; other site 297246002392 lipoyl synthase; Provisional; Region: PRK05481 297246002393 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 297246002394 FeS/SAM binding site; other site 297246002395 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 297246002396 GIY-YIG motif/motif A; other site 297246002397 putative active site [active] 297246002398 putative metal binding site [ion binding]; other site 297246002399 POT family; Region: PTR2; cl17359 297246002400 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 297246002401 Methyltransferase domain; Region: Methyltransf_11; pfam08241 297246002402 S-adenosylmethionine binding site [chemical binding]; other site 297246002403 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_III; cd01996 297246002404 Ligand Binding Site [chemical binding]; other site 297246002405 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 297246002406 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 297246002407 substrate binding site [chemical binding]; other site 297246002408 glutamase interaction surface [polypeptide binding]; other site 297246002409 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 297246002410 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 297246002411 putative active site [active] 297246002412 oxyanion strand; other site 297246002413 catalytic triad [active] 297246002414 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 297246002415 ligand binding site; other site 297246002416 tetramer interface; other site 297246002417 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 297246002418 NeuB family; Region: NeuB; pfam03102 297246002419 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 297246002420 NeuB binding interface [polypeptide binding]; other site 297246002421 putative substrate binding site [chemical binding]; other site 297246002422 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 297246002423 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 297246002424 active site 297246002425 homodimer interface [polypeptide binding]; other site 297246002426 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 297246002427 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 297246002428 putative trimer interface [polypeptide binding]; other site 297246002429 putative CoA binding site [chemical binding]; other site 297246002430 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 297246002431 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 297246002432 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 297246002433 inhibitor-cofactor binding pocket; inhibition site 297246002434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246002435 catalytic residue [active] 297246002436 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 297246002437 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 297246002438 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 297246002439 NADP binding site [chemical binding]; other site 297246002440 active site 297246002441 putative substrate binding site [chemical binding]; other site 297246002442 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 297246002443 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 297246002444 NAD binding site [chemical binding]; other site 297246002445 substrate binding site [chemical binding]; other site 297246002446 homodimer interface [polypeptide binding]; other site 297246002447 active site 297246002448 Phosphoglucose isomerase; Region: PGI; pfam00342 297246002449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246002450 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 297246002451 active site 297246002452 dimer interface [polypeptide binding]; other site 297246002453 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 297246002454 dimer interface [polypeptide binding]; other site 297246002455 active site 297246002456 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 297246002457 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 297246002458 substrate binding site; other site 297246002459 tetramer interface; other site 297246002460 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 297246002461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246002462 NAD(P) binding site [chemical binding]; other site 297246002463 active site 297246002464 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 297246002465 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 297246002466 Mg++ binding site [ion binding]; other site 297246002467 putative catalytic motif [active] 297246002468 putative substrate binding site [chemical binding]; other site 297246002469 Similar to N-terminal part of Legionella hypothetical protein;hypothetical protein 297246002470 Similar to central part of Legionella hypothetical protein;hypothetical protein 297246002471 Similar to C-terminal part of Legionella hypothetical protein;hypothetical protein 297246002472 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 297246002473 binding surface 297246002474 TPR motif; other site 297246002475 Putative methyltransferase; Region: Methyltransf_4; cl17290 297246002476 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 297246002477 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246002478 substrate binding site [chemical binding]; other site 297246002479 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 297246002480 NeuB family; Region: NeuB; pfam03102 297246002481 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 297246002482 NeuB binding interface [polypeptide binding]; other site 297246002483 putative substrate binding site [chemical binding]; other site 297246002484 Methyltransferase domain; Region: Methyltransf_31; pfam13847 297246002485 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 297246002486 S-adenosylmethionine binding site [chemical binding]; other site 297246002487 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 297246002488 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 297246002489 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 297246002490 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 297246002491 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 297246002492 Walker A/P-loop; other site 297246002493 ATP binding site [chemical binding]; other site 297246002494 Q-loop/lid; other site 297246002495 ABC transporter signature motif; other site 297246002496 Walker B; other site 297246002497 D-loop; other site 297246002498 H-loop/switch region; other site 297246002499 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 297246002500 putative carbohydrate binding site [chemical binding]; other site 297246002501 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 297246002502 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 297246002503 Probable Catalytic site; other site 297246002504 metal-binding site 297246002505 Acyltransferase family; Region: Acyl_transf_3; pfam01757 297246002506 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 297246002507 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 297246002508 Probable Catalytic site; other site 297246002509 metal-binding site 297246002510 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 297246002511 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 297246002512 Probable Catalytic site; other site 297246002513 metal-binding site 297246002514 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 297246002515 carbon storage regulator; Provisional; Region: PRK01712 297246002516 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 297246002517 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 297246002518 Biotin operon repressor [Transcription]; Region: BirA; COG1654 297246002519 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 297246002520 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 297246002521 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 297246002522 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 297246002523 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 297246002524 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 297246002525 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 297246002526 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 297246002527 Ligand Binding Site [chemical binding]; other site 297246002528 TilS substrate binding domain; Region: TilS; pfam09179 297246002529 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 297246002530 Transposase IS200 like; Region: Y1_Tnp; cl00848 297246002531 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 297246002532 active site 297246002533 oxyanion hole [active] 297246002534 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 297246002535 catalytic triad [active] 297246002536 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 297246002537 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 297246002538 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 297246002539 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 297246002540 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 297246002541 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 297246002542 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 297246002543 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 297246002544 muropeptide transporter; Reviewed; Region: ampG; PRK11902 297246002545 putative substrate translocation pore; other site 297246002546 Transposase; Region: HTH_Tnp_1; pfam01527 297246002547 similar to transposase, partial;hypothetical protein 297246002548 similar to transposase, partial;hypothetical protein 297246002549 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 297246002550 Quinolinate synthetase A protein; Region: NadA; pfam02445 297246002551 L-aspartate oxidase; Provisional; Region: PRK09077 297246002552 L-aspartate oxidase; Provisional; Region: PRK06175 297246002553 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 297246002554 adenylosuccinate lyase; Provisional; Region: PRK09285 297246002555 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 297246002556 tetramer interface [polypeptide binding]; other site 297246002557 active site 297246002558 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 297246002559 putative transporter; Provisional; Region: PRK11660 297246002560 Sulfate transporter family; Region: Sulfate_transp; pfam00916 297246002561 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 297246002562 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 297246002563 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 297246002564 active site 297246002565 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 297246002566 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 297246002567 active site 297246002568 phosphoenolpyruvate synthase; Validated; Region: PRK06464 297246002569 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 297246002570 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 297246002571 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 297246002572 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 297246002573 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 297246002574 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 297246002575 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 297246002576 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 297246002577 dimerization interface [polypeptide binding]; other site 297246002578 active site 297246002579 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 297246002580 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 297246002581 active site 297246002582 homodimer interface [polypeptide binding]; other site 297246002583 hypothetical protein; Provisional; Region: PRK08201 297246002584 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 297246002585 metal binding site [ion binding]; metal-binding site 297246002586 putative dimer interface [polypeptide binding]; other site 297246002587 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 297246002588 rod shape-determining protein MreB; Provisional; Region: PRK13927 297246002589 MreB and similar proteins; Region: MreB_like; cd10225 297246002590 nucleotide binding site [chemical binding]; other site 297246002591 Mg binding site [ion binding]; other site 297246002592 putative protofilament interaction site [polypeptide binding]; other site 297246002593 RodZ interaction site [polypeptide binding]; other site 297246002594 rod shape-determining protein MreC; Provisional; Region: PRK13922 297246002595 rod shape-determining protein MreC; Region: MreC; pfam04085 297246002596 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 297246002597 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 297246002598 pseudouridine synthase; Region: TIGR00093 297246002599 active site 297246002600 isocitrate dehydrogenase; Validated; Region: PRK07362 297246002601 isocitrate dehydrogenase; Reviewed; Region: PRK07006 297246002602 Uncharacterized conserved protein [Function unknown]; Region: COG2127 297246002603 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 297246002604 Clp amino terminal domain; Region: Clp_N; pfam02861 297246002605 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 297246002606 Walker A motif; other site 297246002607 ATP binding site [chemical binding]; other site 297246002608 Walker B motif; other site 297246002609 arginine finger; other site 297246002610 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 297246002611 Walker A motif; other site 297246002612 ATP binding site [chemical binding]; other site 297246002613 Walker B motif; other site 297246002614 arginine finger; other site 297246002615 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 297246002616 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246002617 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246002618 GIY-YIG motif/motif A; other site 297246002619 putative active site [active] 297246002620 putative metal binding site [ion binding]; other site 297246002621 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 297246002622 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 297246002623 putative metal binding site; other site 297246002624 O-Antigen ligase; Region: Wzy_C; cl04850 297246002625 Rhomboid family; Region: Rhomboid; cl11446 297246002626 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 297246002627 Peptidase family M23; Region: Peptidase_M23; pfam01551 297246002628 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 297246002629 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 297246002630 generic binding surface II; other site 297246002631 generic binding surface I; other site 297246002632 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 297246002633 Sporulation related domain; Region: SPOR; pfam05036 297246002634 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 297246002635 biofilm formation regulator HmsP; Provisional; Region: PRK11829 297246002636 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 297246002637 dimerization interface [polypeptide binding]; other site 297246002638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246002639 metal binding site [ion binding]; metal-binding site 297246002640 active site 297246002641 I-site; other site 297246002642 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 297246002643 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 297246002644 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 297246002645 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 297246002646 hypothetical protein; Provisional; Region: PRK06194 297246002647 classical (c) SDRs; Region: SDR_c; cd05233 297246002648 NAD(P) binding site [chemical binding]; other site 297246002649 active site 297246002650 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 297246002651 active site 297246002652 ribulose/triose binding site [chemical binding]; other site 297246002653 phosphate binding site [ion binding]; other site 297246002654 substrate (anthranilate) binding pocket [chemical binding]; other site 297246002655 product (indole) binding pocket [chemical binding]; other site 297246002656 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 297246002657 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 297246002658 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 297246002659 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 297246002660 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 297246002661 glutamine binding [chemical binding]; other site 297246002662 catalytic triad [active] 297246002663 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 297246002664 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 297246002665 Walker A/P-loop; other site 297246002666 ATP binding site [chemical binding]; other site 297246002667 Q-loop/lid; other site 297246002668 ABC transporter signature motif; other site 297246002669 Walker B; other site 297246002670 D-loop; other site 297246002671 H-loop/switch region; other site 297246002672 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 297246002673 OstA-like protein; Region: OstA; pfam03968 297246002674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 297246002675 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 297246002676 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 297246002677 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 297246002678 active site 297246002679 motif I; other site 297246002680 motif II; other site 297246002681 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 297246002682 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 297246002683 putative active site [active] 297246002684 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 297246002685 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 297246002686 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 297246002687 Walker A/P-loop; other site 297246002688 ATP binding site [chemical binding]; other site 297246002689 Q-loop/lid; other site 297246002690 ABC transporter signature motif; other site 297246002691 Walker B; other site 297246002692 D-loop; other site 297246002693 H-loop/switch region; other site 297246002694 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 297246002695 Permease; Region: Permease; cl00510 297246002696 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 297246002697 mce related protein; Region: MCE; pfam02470 297246002698 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 297246002699 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 297246002700 anti sigma factor interaction site; other site 297246002701 regulatory phosphorylation site [posttranslational modification]; other site 297246002702 BolA-like protein; Region: BolA; cl00386 297246002703 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 297246002704 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 297246002705 hinge; other site 297246002706 active site 297246002707 Uncharacterized conserved protein [Function unknown]; Region: COG0327 297246002708 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 297246002709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 297246002710 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 297246002711 Walker A/P-loop; other site 297246002712 ATP binding site [chemical binding]; other site 297246002713 Q-loop/lid; other site 297246002714 ABC transporter signature motif; other site 297246002715 Walker B; other site 297246002716 D-loop; other site 297246002717 H-loop/switch region; other site 297246002718 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 297246002719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 297246002720 FtsX-like permease family; Region: FtsX; pfam02687 297246002721 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246002722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246002723 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246002724 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 297246002725 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 297246002726 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 297246002727 Walker A motif; other site 297246002728 ATP binding site [chemical binding]; other site 297246002729 Walker B motif; other site 297246002730 arginine finger; other site 297246002731 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 297246002732 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 297246002733 putative inner membrane peptidase; Provisional; Region: PRK11778 297246002734 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 297246002735 tandem repeat interface [polypeptide binding]; other site 297246002736 oligomer interface [polypeptide binding]; other site 297246002737 active site residues [active] 297246002738 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13540 297246002739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246002740 Walker A/P-loop; other site 297246002741 ATP binding site [chemical binding]; other site 297246002742 Q-loop/lid; other site 297246002743 ABC transporter signature motif; other site 297246002744 Walker B; other site 297246002745 D-loop; other site 297246002746 H-loop/switch region; other site 297246002747 CcmB protein; Region: CcmB; cl17444 297246002748 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 297246002749 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 297246002750 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 297246002751 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 297246002752 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 297246002753 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 297246002754 catalytic residues [active] 297246002755 central insert; other site 297246002756 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 297246002757 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 297246002758 binding surface 297246002759 TPR motif; other site 297246002760 Dodecin; Region: Dodecin; pfam07311 297246002761 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 297246002762 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 297246002763 active site 297246002764 DNA binding site [nucleotide binding] 297246002765 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 297246002766 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 297246002767 ATP binding site [chemical binding]; other site 297246002768 putative Mg++ binding site [ion binding]; other site 297246002769 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 297246002770 nucleotide binding region [chemical binding]; other site 297246002771 ATP-binding site [chemical binding]; other site 297246002772 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 297246002773 HRDC domain; Region: HRDC; pfam00570 297246002774 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 297246002775 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 297246002776 active site 297246002777 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 297246002778 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 297246002779 substrate binding site [chemical binding]; other site 297246002780 oxyanion hole (OAH) forming residues; other site 297246002781 trimer interface [polypeptide binding]; other site 297246002782 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 297246002783 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 297246002784 substrate binding site [chemical binding]; other site 297246002785 oxyanion hole (OAH) forming residues; other site 297246002786 trimer interface [polypeptide binding]; other site 297246002787 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 297246002788 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 297246002789 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 297246002790 G1 box; other site 297246002791 putative GEF interaction site [polypeptide binding]; other site 297246002792 GTP/Mg2+ binding site [chemical binding]; other site 297246002793 Switch I region; other site 297246002794 G2 box; other site 297246002795 G3 box; other site 297246002796 Switch II region; other site 297246002797 G4 box; other site 297246002798 G5 box; other site 297246002799 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 297246002800 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 297246002801 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 297246002802 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 297246002803 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 297246002804 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 297246002805 ligand binding site [chemical binding]; other site 297246002806 homodimer interface [polypeptide binding]; other site 297246002807 NAD(P) binding site [chemical binding]; other site 297246002808 trimer interface B [polypeptide binding]; other site 297246002809 trimer interface A [polypeptide binding]; other site 297246002810 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 297246002811 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 297246002812 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 297246002813 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246002814 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246002815 metal binding site [ion binding]; metal-binding site 297246002816 active site 297246002817 I-site; other site 297246002818 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 297246002819 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 297246002820 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 297246002821 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 297246002822 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 297246002823 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 297246002824 metal binding site [ion binding]; metal-binding site 297246002825 dimer interface [polypeptide binding]; other site 297246002826 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 297246002827 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 297246002828 trimer interface [polypeptide binding]; other site 297246002829 active site 297246002830 substrate binding site [chemical binding]; other site 297246002831 CoA binding site [chemical binding]; other site 297246002832 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 297246002833 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 297246002834 putative acyl-acceptor binding pocket; other site 297246002835 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 297246002836 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 297246002837 homodimer interface [polypeptide binding]; other site 297246002838 substrate-cofactor binding pocket; other site 297246002839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246002840 catalytic residue [active] 297246002841 PAS fold; Region: PAS_7; pfam12860 297246002842 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 297246002843 PAS domain; Region: PAS_9; pfam13426 297246002844 putative active site [active] 297246002845 heme pocket [chemical binding]; other site 297246002846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246002847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246002848 metal binding site [ion binding]; metal-binding site 297246002849 active site 297246002850 I-site; other site 297246002851 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 297246002852 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 297246002853 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 297246002854 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 297246002855 FAD binding domain; Region: FAD_binding_4; pfam01565 297246002856 Cytokinin dehydrogenase 1, FAD and cytokinin binding; Region: Cytokin-bind; pfam09265 297246002857 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 297246002858 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246002859 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 297246002860 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 297246002861 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 297246002862 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 297246002863 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 297246002864 minor groove reading motif; other site 297246002865 helix-hairpin-helix signature motif; other site 297246002866 substrate binding pocket [chemical binding]; other site 297246002867 active site 297246002868 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 297246002869 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 297246002870 DNA binding and oxoG recognition site [nucleotide binding] 297246002871 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 297246002872 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 297246002873 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 297246002874 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 297246002875 protein binding site [polypeptide binding]; other site 297246002876 Isochorismatase family; Region: Isochorismatase; pfam00857 297246002877 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 297246002878 catalytic triad [active] 297246002879 dimer interface [polypeptide binding]; other site 297246002880 conserved cis-peptide bond; other site 297246002881 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 297246002882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246002883 NAD(P) binding site [chemical binding]; other site 297246002884 active site 297246002885 FlgN protein; Region: FlgN; pfam05130 297246002886 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 297246002887 SAF-like; Region: SAF_2; pfam13144 297246002888 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 297246002889 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 297246002890 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246002891 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 297246002892 nucleotide binding site [chemical binding]; other site 297246002893 Type III pantothenate kinase; Region: Pan_kinase; cl17198 297246002894 cell division protein MraZ; Reviewed; Region: PRK00326 297246002895 MraZ protein; Region: MraZ; pfam02381 297246002896 MraZ protein; Region: MraZ; pfam02381 297246002897 MraW methylase family; Region: Methyltransf_5; cl17771 297246002898 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 297246002899 Cell division protein FtsL; Region: FtsL; pfam04999 297246002900 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 297246002901 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 297246002902 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 297246002903 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 297246002904 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 297246002905 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 297246002906 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 297246002907 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 297246002908 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 297246002909 ligand binding site [chemical binding]; other site 297246002910 NAD binding site [chemical binding]; other site 297246002911 catalytic site [active] 297246002912 homodimer interface [polypeptide binding]; other site 297246002913 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 297246002914 Peptidase family M50; Region: Peptidase_M50; pfam02163 297246002915 active site 297246002916 putative substrate binding region [chemical binding]; other site 297246002917 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 297246002918 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 297246002919 active site 297246002920 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 297246002921 Ligand binding site [chemical binding]; other site 297246002922 Electron transfer flavoprotein domain; Region: ETF; pfam01012 297246002923 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 297246002924 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 297246002925 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 297246002926 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 297246002927 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 297246002928 hexamer interface [polypeptide binding]; other site 297246002929 ligand binding site [chemical binding]; other site 297246002930 putative active site [active] 297246002931 NAD(P) binding site [chemical binding]; other site 297246002932 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 297246002933 Transglycosylase; Region: Transgly; pfam00912 297246002934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 297246002935 Cell division protein FtsA; Region: FtsA; cl17206 297246002936 Competence protein A; Region: Competence_A; pfam11104 297246002937 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 297246002938 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 297246002939 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 297246002940 Pilus assembly protein, PilO; Region: PilO; pfam04350 297246002941 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 297246002942 Pilus assembly protein, PilP; Region: PilP; pfam04351 297246002943 AMIN domain; Region: AMIN; pfam11741 297246002944 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 297246002945 Secretin and TonB N terminus short domain; Region: STN; smart00965 297246002946 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 297246002947 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 297246002948 shikimate kinase; Reviewed; Region: aroK; PRK00131 297246002949 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 297246002950 ADP binding site [chemical binding]; other site 297246002951 magnesium binding site [ion binding]; other site 297246002952 putative shikimate binding site; other site 297246002953 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 297246002954 active site 297246002955 dimer interface [polypeptide binding]; other site 297246002956 metal binding site [ion binding]; metal-binding site 297246002957 AAA domain; Region: AAA_22; pfam13401 297246002958 Sporulation related domain; Region: SPOR; pfam05036 297246002959 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 297246002960 Ligand Binding Site [chemical binding]; other site 297246002961 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 297246002962 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 297246002963 active site 297246002964 Riboflavin kinase; Region: Flavokinase; smart00904 297246002965 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 297246002966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 297246002967 active site 297246002968 HIGH motif; other site 297246002969 nucleotide binding site [chemical binding]; other site 297246002970 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 297246002971 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 297246002972 active site 297246002973 KMSKS motif; other site 297246002974 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 297246002975 tRNA binding surface [nucleotide binding]; other site 297246002976 anticodon binding site; other site 297246002977 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 297246002978 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 297246002979 lipoprotein signal peptidase; Provisional; Region: PRK14787 297246002980 Class I aldolases; Region: Aldolase_Class_I; cl17187 297246002981 catalytic residue [active] 297246002982 GTPase Era; Reviewed; Region: era; PRK00089 297246002983 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 297246002984 G1 box; other site 297246002985 GTP/Mg2+ binding site [chemical binding]; other site 297246002986 Switch I region; other site 297246002987 G2 box; other site 297246002988 Switch II region; other site 297246002989 G3 box; other site 297246002990 G4 box; other site 297246002991 G5 box; other site 297246002992 KH domain; Region: KH_2; pfam07650 297246002993 Recombination protein O N terminal; Region: RecO_N; pfam11967 297246002994 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 297246002995 Recombination protein O C terminal; Region: RecO_C; pfam02565 297246002996 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 297246002997 Leucine-rich repeats; other site 297246002998 Substrate binding site [chemical binding]; other site 297246002999 Leucine rich repeat; Region: LRR_8; pfam13855 297246003000 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 297246003001 active site 297246003002 hydrophilic channel; other site 297246003003 dimerization interface [polypeptide binding]; other site 297246003004 catalytic residues [active] 297246003005 active site lid [active] 297246003006 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 297246003007 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 297246003008 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 297246003009 dimer interface [polypeptide binding]; other site 297246003010 PYR/PP interface [polypeptide binding]; other site 297246003011 TPP binding site [chemical binding]; other site 297246003012 substrate binding site [chemical binding]; other site 297246003013 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 297246003014 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 297246003015 TPP-binding site [chemical binding]; other site 297246003016 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 297246003017 YccA-like proteins; Region: YccA_like; cd10433 297246003018 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 297246003019 nitrilase; Region: PLN02798 297246003020 putative active site [active] 297246003021 catalytic triad [active] 297246003022 dimer interface [polypeptide binding]; other site 297246003023 protease TldD; Provisional; Region: tldD; PRK10735 297246003024 hypothetical protein; Provisional; Region: PRK10279 297246003025 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 297246003026 active site 297246003027 nucleophile elbow; other site 297246003028 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 297246003029 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 297246003030 acyl-activating enzyme (AAE) consensus motif; other site 297246003031 putative AMP binding site [chemical binding]; other site 297246003032 putative active site [active] 297246003033 putative CoA binding site [chemical binding]; other site 297246003034 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 297246003035 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 297246003036 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 297246003037 ATP binding site [chemical binding]; other site 297246003038 putative Mg++ binding site [ion binding]; other site 297246003039 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 297246003040 nucleotide binding region [chemical binding]; other site 297246003041 ATP-binding site [chemical binding]; other site 297246003042 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 297246003043 RmuC family; Region: RmuC; pfam02646 297246003044 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 297246003045 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 297246003046 nucleotide binding pocket [chemical binding]; other site 297246003047 K-X-D-G motif; other site 297246003048 catalytic site [active] 297246003049 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 297246003050 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 297246003051 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 297246003052 Dimer interface [polypeptide binding]; other site 297246003053 BRCT sequence motif; other site 297246003054 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 297246003055 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 297246003056 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 297246003057 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 297246003058 dimer interface [polypeptide binding]; other site 297246003059 conserved gate region; other site 297246003060 putative PBP binding loops; other site 297246003061 ABC-ATPase subunit interface; other site 297246003062 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 297246003063 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 297246003064 dimer interface [polypeptide binding]; other site 297246003065 conserved gate region; other site 297246003066 putative PBP binding loops; other site 297246003067 ABC-ATPase subunit interface; other site 297246003068 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 297246003069 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 297246003070 putative active site [active] 297246003071 putative PHP Thumb interface [polypeptide binding]; other site 297246003072 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 297246003073 generic binding surface II; other site 297246003074 generic binding surface I; other site 297246003075 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 297246003076 UbiA prenyltransferase family; Region: UbiA; pfam01040 297246003077 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 297246003078 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 297246003079 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 297246003080 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 297246003081 NAD(P) binding site [chemical binding]; other site 297246003082 homodimer interface [polypeptide binding]; other site 297246003083 substrate binding site [chemical binding]; other site 297246003084 active site 297246003085 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 297246003086 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 297246003087 nucleotide binding site [chemical binding]; other site 297246003088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 297246003089 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246003090 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 297246003091 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 297246003092 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 297246003093 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 297246003094 Catalytic site [active] 297246003095 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 297246003096 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 297246003097 active site 297246003098 DNA binding site [nucleotide binding] 297246003099 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 297246003100 Antirestriction protein (ArdA); Region: ArdA; pfam07275 297246003101 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 297246003102 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 297246003103 dimer interface [polypeptide binding]; other site 297246003104 ssDNA binding site [nucleotide binding]; other site 297246003105 tetramer (dimer of dimers) interface [polypeptide binding]; other site 297246003106 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 297246003107 Integrase; Region: Integrase_1; pfam12835 297246003108 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 297246003109 similar to unknown protein;hypothetical protein 297246003110 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 297246003111 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 297246003112 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 297246003113 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 297246003114 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 297246003115 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 297246003116 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 297246003117 Domain of unknown function DUF87; Region: DUF87; pfam01935 297246003118 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 297246003119 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 297246003120 basic region leucin zipper; Region: BRLZ; smart00338 297246003121 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 297246003122 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 297246003123 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 297246003124 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 297246003125 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 297246003126 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 297246003127 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 297246003128 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 297246003129 Global regulator protein family; Region: CsrA; pfam02599 297246003130 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 297246003131 non-specific DNA binding site [nucleotide binding]; other site 297246003132 salt bridge; other site 297246003133 sequence-specific DNA binding site [nucleotide binding]; other site 297246003134 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 297246003135 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 297246003136 cofactor binding site; other site 297246003137 DNA binding site [nucleotide binding] 297246003138 substrate interaction site [chemical binding]; other site 297246003139 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 297246003140 additional DNA contacts [nucleotide binding]; other site 297246003141 mismatch recognition site; other site 297246003142 active site 297246003143 zinc binding site [ion binding]; other site 297246003144 DNA intercalation site [nucleotide binding]; other site 297246003145 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 297246003146 putative substrate translocation pore; other site 297246003147 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 297246003148 active site 297246003149 catalytic residues [active] 297246003150 metal binding site [ion binding]; metal-binding site 297246003151 non-specific DNA binding site [nucleotide binding]; other site 297246003152 salt bridge; other site 297246003153 Helix-turn-helix; Region: HTH_3; pfam01381 297246003154 sequence-specific DNA binding site [nucleotide binding]; other site 297246003155 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 297246003156 integrase; Provisional; Region: PRK09692 297246003157 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 297246003158 active site 297246003159 Int/Topo IB signature motif; other site 297246003160 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246003161 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246003162 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 297246003163 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 297246003164 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246003165 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 297246003166 S-adenosylmethionine binding site [chemical binding]; other site 297246003167 Fic family protein [Function unknown]; Region: COG3177 297246003168 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 297246003169 Fic/DOC family; Region: Fic; pfam02661 297246003170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246003171 Coenzyme A binding pocket [chemical binding]; other site 297246003172 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 297246003173 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 297246003174 motif II; other site 297246003175 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 297246003176 Similar to transposase (IS5 family);hypothetical protein 297246003177 Similar to transposase (IS5 family);hypothetical protein 297246003178 hypothetical protein 297246003179 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246003180 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246003181 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246003182 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246003183 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246003184 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246003185 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246003186 Phosphotransferase enzyme family; Region: APH; pfam01636 297246003187 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246003188 substrate binding site [chemical binding]; other site 297246003189 methionine sulfoxide reductase B; Provisional; Region: PRK00222 297246003190 SelR domain; Region: SelR; pfam01641 297246003191 Predicted membrane protein [Function unknown]; Region: COG4325 297246003192 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 297246003193 EamA-like transporter family; Region: EamA; cl17759 297246003194 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246003195 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 297246003196 PAS domain; Region: PAS_9; pfam13426 297246003197 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 297246003198 PAS domain; Region: PAS_9; pfam13426 297246003199 putative active site [active] 297246003200 heme pocket [chemical binding]; other site 297246003201 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246003202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246003203 metal binding site [ion binding]; metal-binding site 297246003204 active site 297246003205 I-site; other site 297246003206 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 297246003207 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 297246003208 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 297246003209 tetramer interface [polypeptide binding]; other site 297246003210 dimer interface [polypeptide binding]; other site 297246003211 circadian clock protein KaiC; Reviewed; Region: PRK09302 297246003212 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 297246003213 Walker A motif; other site 297246003214 ATP binding site [chemical binding]; other site 297246003215 Walker B motif; other site 297246003216 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 297246003217 Walker A motif; other site 297246003218 ATP binding site [chemical binding]; other site 297246003219 Walker B motif; other site 297246003220 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 297246003221 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 297246003222 active site 297246003223 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246003224 Coenzyme A binding pocket [chemical binding]; other site 297246003225 Beta-lactamase; Region: Beta-lactamase; pfam00144 297246003226 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 297246003227 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 297246003228 catalytic core [active] 297246003229 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 297246003230 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 297246003231 N-acetyl-D-glucosamine binding site [chemical binding]; other site 297246003232 catalytic residue [active] 297246003233 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246003234 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 297246003235 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246003236 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246003237 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246003238 substrate binding pocket [chemical binding]; other site 297246003239 membrane-bound complex binding site; other site 297246003240 hinge residues; other site 297246003241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246003242 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246003243 substrate binding pocket [chemical binding]; other site 297246003244 membrane-bound complex binding site; other site 297246003245 hinge residues; other site 297246003246 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 297246003247 Soluble P-type ATPase [General function prediction only]; Region: COG4087 297246003248 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 297246003249 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 297246003250 acyl-activating enzyme (AAE) consensus motif; other site 297246003251 AMP binding site [chemical binding]; other site 297246003252 active site 297246003253 CoA binding site [chemical binding]; other site 297246003254 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 297246003255 nucleoside/Zn binding site; other site 297246003256 dimer interface [polypeptide binding]; other site 297246003257 catalytic motif [active] 297246003258 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 297246003259 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 297246003260 dimerization interface [polypeptide binding]; other site 297246003261 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 297246003262 cyclase homology domain; Region: CHD; cd07302 297246003263 nucleotidyl binding site; other site 297246003264 metal binding site [ion binding]; metal-binding site 297246003265 dimer interface [polypeptide binding]; other site 297246003266 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 297246003267 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 297246003268 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 297246003269 S-adenosylmethionine binding site [chemical binding]; other site 297246003270 Nitronate monooxygenase; Region: NMO; pfam03060 297246003271 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 297246003272 FMN binding site [chemical binding]; other site 297246003273 substrate binding site [chemical binding]; other site 297246003274 putative catalytic residue [active] 297246003275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 297246003276 COQ9; Region: COQ9; pfam08511 297246003277 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 297246003278 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 297246003279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 297246003280 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 297246003281 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 297246003282 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 297246003283 dimer interface [polypeptide binding]; other site 297246003284 conserved gate region; other site 297246003285 putative PBP binding loops; other site 297246003286 ABC-ATPase subunit interface; other site 297246003287 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 297246003288 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 297246003289 Walker A/P-loop; other site 297246003290 ATP binding site [chemical binding]; other site 297246003291 Q-loop/lid; other site 297246003292 ABC transporter signature motif; other site 297246003293 Walker B; other site 297246003294 D-loop; other site 297246003295 H-loop/switch region; other site 297246003296 TOBE domain; Region: TOBE_2; pfam08402 297246003297 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246003298 GIY-YIG motif/motif A; other site 297246003299 putative active site [active] 297246003300 putative metal binding site [ion binding]; other site 297246003301 short chain dehydrogenase; Provisional; Region: PRK08219 297246003302 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 297246003303 NADP binding site [chemical binding]; other site 297246003304 active site 297246003305 steroid binding site; other site 297246003306 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 297246003307 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 297246003308 active site 297246003309 Zn binding site [ion binding]; other site 297246003310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246003311 Coenzyme A binding pocket [chemical binding]; other site 297246003312 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 297246003313 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 297246003314 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 297246003315 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 297246003316 DNA binding site [nucleotide binding] 297246003317 active site 297246003318 probable polyamine oxidase; Region: PLN02268 297246003319 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 297246003320 pyruvate decarboxylase; Region: PLN02573 297246003321 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 297246003322 dimer interface [polypeptide binding]; other site 297246003323 PYR/PP interface [polypeptide binding]; other site 297246003324 TPP binding site [chemical binding]; other site 297246003325 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 297246003326 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 297246003327 TPP-binding site [chemical binding]; other site 297246003328 dimer interface [polypeptide binding]; other site 297246003329 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 297246003330 Peptidase family M28; Region: Peptidase_M28; pfam04389 297246003331 metal binding site [ion binding]; metal-binding site 297246003332 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 297246003333 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246003334 nucleophilic elbow; other site 297246003335 catalytic triad; other site 297246003336 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246003337 active site 297246003338 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 297246003339 metabolite-proton symporter; Region: 2A0106; TIGR00883 297246003340 putative substrate translocation pore; other site 297246003341 acetylornithine deacetylase; Provisional; Region: PRK07522 297246003342 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 297246003343 metal binding site [ion binding]; metal-binding site 297246003344 putative dimer interface [polypeptide binding]; other site 297246003345 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 297246003346 7kD viral coat protein; Region: 7kD_coat; pfam02495 297246003347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 297246003348 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 297246003349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246003350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246003351 metal binding site [ion binding]; metal-binding site 297246003352 active site 297246003353 I-site; other site 297246003354 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 297246003355 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 297246003356 putative ligand binding pocket/active site [active] 297246003357 putative metal binding site [ion binding]; other site 297246003358 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 297246003359 AMMECR1; Region: AMMECR1; pfam01871 297246003360 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 297246003361 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 297246003362 FeS/SAM binding site; other site 297246003363 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246003364 Sel1-like repeats; Region: SEL1; smart00671 297246003365 Sel1-like repeats; Region: SEL1; smart00671 297246003366 Sel1-like repeats; Region: SEL1; smart00671 297246003367 Sel1-like repeats; Region: SEL1; smart00671 297246003368 Sel1-like repeats; Region: SEL1; smart00671 297246003369 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246003370 Sel1-like repeats; Region: SEL1; smart00671 297246003371 Sel1-like repeats; Region: SEL1; smart00671 297246003372 Sel1-like repeats; Region: SEL1; smart00671 297246003373 Sel1-like repeats; Region: SEL1; smart00671 297246003374 Sel1-like repeats; Region: SEL1; smart00671 297246003375 Sel1-like repeats; Region: SEL1; smart00671 297246003376 Sel1-like repeats; Region: SEL1; smart00671 297246003377 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 297246003378 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 297246003379 dimer interface [polypeptide binding]; other site 297246003380 phosphorylation site [posttranslational modification] 297246003381 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 297246003382 ATP binding site [chemical binding]; other site 297246003383 Mg2+ binding site [ion binding]; other site 297246003384 G-X-G motif; other site 297246003385 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 297246003386 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 297246003387 active site 297246003388 phosphorylation site [posttranslational modification] 297246003389 intermolecular recognition site; other site 297246003390 dimerization interface [polypeptide binding]; other site 297246003391 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 297246003392 Walker A motif; other site 297246003393 ATP binding site [chemical binding]; other site 297246003394 Walker B motif; other site 297246003395 arginine finger; other site 297246003396 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 297246003397 AsnC family; Region: AsnC_trans_reg; pfam01037 297246003398 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246003399 Peptidase family M48; Region: Peptidase_M48; pfam01435 297246003400 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 297246003401 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 297246003402 catalytic motif [active] 297246003403 Zn binding site [ion binding]; other site 297246003404 RibD C-terminal domain; Region: RibD_C; cl17279 297246003405 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 297246003406 Lumazine binding domain; Region: Lum_binding; pfam00677 297246003407 Lumazine binding domain; Region: Lum_binding; pfam00677 297246003408 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 297246003409 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 297246003410 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 297246003411 dimerization interface [polypeptide binding]; other site 297246003412 active site 297246003413 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 297246003414 homopentamer interface [polypeptide binding]; other site 297246003415 active site 297246003416 CTP synthetase; Validated; Region: pyrG; PRK05380 297246003417 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 297246003418 Catalytic site [active] 297246003419 active site 297246003420 UTP binding site [chemical binding]; other site 297246003421 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 297246003422 active site 297246003423 putative oxyanion hole; other site 297246003424 catalytic triad [active] 297246003425 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 297246003426 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 297246003427 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 297246003428 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 297246003429 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 297246003430 Putative exonuclease, RdgC; Region: RdgC; pfam04381 297246003431 K+ potassium transporter; Region: K_trans; pfam02705 297246003432 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 297246003433 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 297246003434 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 297246003435 putative RNA binding site [nucleotide binding]; other site 297246003436 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 297246003437 S-adenosylmethionine binding site [chemical binding]; other site 297246003438 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 297246003439 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 297246003440 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 297246003441 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 297246003442 conserved cys residue [active] 297246003443 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 297246003444 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 297246003445 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 297246003446 metal binding site [ion binding]; metal-binding site 297246003447 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 297246003448 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 297246003449 substrate binding site [chemical binding]; other site 297246003450 glutamase interaction surface [polypeptide binding]; other site 297246003451 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 297246003452 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 297246003453 catalytic residues [active] 297246003454 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 297246003455 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 297246003456 putative active site [active] 297246003457 oxyanion strand; other site 297246003458 catalytic triad [active] 297246003459 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 297246003460 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 297246003461 active site 297246003462 motif I; other site 297246003463 motif II; other site 297246003464 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 297246003465 putative active site pocket [active] 297246003466 4-fold oligomerization interface [polypeptide binding]; other site 297246003467 metal binding residues [ion binding]; metal-binding site 297246003468 3-fold/trimer interface [polypeptide binding]; other site 297246003469 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 297246003470 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 297246003471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246003472 homodimer interface [polypeptide binding]; other site 297246003473 catalytic residue [active] 297246003474 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 297246003475 histidinol dehydrogenase; Region: hisD; TIGR00069 297246003476 NAD binding site [chemical binding]; other site 297246003477 dimerization interface [polypeptide binding]; other site 297246003478 product binding site; other site 297246003479 substrate binding site [chemical binding]; other site 297246003480 zinc binding site [ion binding]; other site 297246003481 catalytic residues [active] 297246003482 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 297246003483 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 297246003484 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 297246003485 Trp repressor protein; Region: Trp_repressor; cl17266 297246003486 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 297246003487 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 297246003488 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 297246003489 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 297246003490 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246003491 active site 297246003492 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 297246003493 DNA-binding site [nucleotide binding]; DNA binding site 297246003494 RNA-binding motif; other site 297246003495 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 297246003496 30S subunit binding site; other site 297246003497 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 297246003498 putative deacylase active site [active] 297246003499 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 297246003500 MarR family; Region: MarR_2; pfam12802 297246003501 MarR family; Region: MarR_2; cl17246 297246003502 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 297246003503 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246003504 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246003505 LysE type translocator; Region: LysE; cl00565 297246003506 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 297246003507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246003508 Coenzyme A binding pocket [chemical binding]; other site 297246003509 Predicted ATPase [General function prediction only]; Region: COG3911 297246003510 AAA domain; Region: AAA_28; pfam13521 297246003511 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 297246003512 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 297246003513 thiocyanate hydrolase, gamma subunit; Region: thiocyan_alph; TIGR03887 297246003514 Ribosomally synthesized peptide prototyped by Frankia Franean1_4349; Region: Frankia_peptide; pfam14407 297246003515 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 297246003516 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 297246003517 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 297246003518 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246003519 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 297246003520 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 297246003521 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12619 297246003522 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 297246003523 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12628 297246003524 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 297246003525 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 297246003526 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 297246003527 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 297246003528 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 297246003529 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 297246003530 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 297246003531 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 297246003532 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 297246003533 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 297246003534 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 297246003535 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 297246003536 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 297246003537 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12701 297246003538 Flagellar L-ring protein; Region: FlgH; pfam02107 297246003539 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 297246003540 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 297246003541 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12710 297246003542 Rod binding protein; Region: Rod-binding; cl01626 297246003543 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 297246003544 flagellar hook-associated protein FlgK; Provisional; Region: flgK; PRK12715 297246003545 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 297246003546 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 297246003547 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 297246003548 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 297246003549 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 297246003550 active site 297246003551 nucleophile elbow; other site 297246003552 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 297246003553 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 297246003554 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 297246003555 transmembrane helices; other site 297246003556 TrkA-C domain; Region: TrkA_C; pfam02080 297246003557 TrkA-C domain; Region: TrkA_C; pfam02080 297246003558 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 297246003559 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 297246003560 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 297246003561 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 297246003562 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 297246003563 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246003564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246003565 Walker A/P-loop; other site 297246003566 ATP binding site [chemical binding]; other site 297246003567 Q-loop/lid; other site 297246003568 ABC transporter signature motif; other site 297246003569 Walker B; other site 297246003570 D-loop; other site 297246003571 H-loop/switch region; other site 297246003572 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 297246003573 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 297246003574 malate dehydrogenase; Provisional; Region: PRK13529 297246003575 Malic enzyme, N-terminal domain; Region: malic; pfam00390 297246003576 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 297246003577 NAD(P) binding site [chemical binding]; other site 297246003578 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 297246003579 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246003580 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 297246003581 Peptidase family M23; Region: Peptidase_M23; pfam01551 297246003582 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 297246003583 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 297246003584 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 297246003585 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 297246003586 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 297246003587 DNA binding residues [nucleotide binding] 297246003588 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 297246003589 hypothetical protein; Validated; Region: PRK00110 297246003590 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 297246003591 active site 297246003592 putative DNA-binding cleft [nucleotide binding]; other site 297246003593 dimer interface [polypeptide binding]; other site 297246003594 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 297246003595 RuvA N terminal domain; Region: RuvA_N; pfam01330 297246003596 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 297246003597 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 297246003598 sensor protein QseC; Provisional; Region: PRK10337 297246003599 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 297246003600 dimer interface [polypeptide binding]; other site 297246003601 phosphorylation site [posttranslational modification] 297246003602 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 297246003603 ATP binding site [chemical binding]; other site 297246003604 Mg2+ binding site [ion binding]; other site 297246003605 G-X-G motif; other site 297246003606 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 297246003607 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 297246003608 active site 297246003609 phosphorylation site [posttranslational modification] 297246003610 intermolecular recognition site; other site 297246003611 dimerization interface [polypeptide binding]; other site 297246003612 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 297246003613 DNA binding site [nucleotide binding] 297246003614 intracellular septation protein A; Reviewed; Region: PRK00259 297246003615 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 297246003616 N-acetyl-D-glucosamine binding site [chemical binding]; other site 297246003617 catalytic residue [active] 297246003618 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246003619 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246003620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246003621 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 297246003622 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 297246003623 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 297246003624 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 297246003625 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 297246003626 homodimer interface [polypeptide binding]; other site 297246003627 NADP binding site [chemical binding]; other site 297246003628 substrate binding site [chemical binding]; other site 297246003629 FimV N-terminal domain; Region: FimV_core; TIGR03505 297246003630 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 297246003631 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 297246003632 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 297246003633 NADH(P)-binding; Region: NAD_binding_10; pfam13460 297246003634 putative NAD(P) binding site [chemical binding]; other site 297246003635 active site 297246003636 DoxX-like family; Region: DoxX_3; pfam13781 297246003637 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 297246003638 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 297246003639 dimerization interface 3.5A [polypeptide binding]; other site 297246003640 active site 297246003641 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 297246003642 active site 297246003643 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 297246003644 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 297246003645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246003646 catalytic residue [active] 297246003647 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 297246003648 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 297246003649 substrate binding site [chemical binding]; other site 297246003650 active site 297246003651 catalytic residues [active] 297246003652 heterodimer interface [polypeptide binding]; other site 297246003653 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 297246003654 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 297246003655 active site 297246003656 HIGH motif; other site 297246003657 nucleotide binding site [chemical binding]; other site 297246003658 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 297246003659 KMSKS motif; other site 297246003660 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 297246003661 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 297246003662 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 297246003663 active site 297246003664 HIGH motif; other site 297246003665 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 297246003666 KMSKS motif; other site 297246003667 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 297246003668 tRNA binding surface [nucleotide binding]; other site 297246003669 anticodon binding site; other site 297246003670 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 297246003671 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 297246003672 Sulfatase; Region: Sulfatase; pfam00884 297246003673 type II secretion system protein E; Region: type_II_gspE; TIGR02533 297246003674 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 297246003675 Walker A motif; other site 297246003676 ATP binding site [chemical binding]; other site 297246003677 Walker B motif; other site 297246003678 Sporulation related domain; Region: SPOR; pfam05036 297246003679 type II secretion system protein D; Region: type_II_gspD; TIGR02517 297246003680 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 297246003681 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 297246003682 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 297246003683 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 297246003684 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 297246003685 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 297246003686 Cache domain; Region: Cache_1; pfam02743 297246003687 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 297246003688 cyclase homology domain; Region: CHD; cd07302 297246003689 nucleotidyl binding site; other site 297246003690 metal binding site [ion binding]; metal-binding site 297246003691 dimer interface [polypeptide binding]; other site 297246003692 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 297246003693 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 297246003694 putative substrate translocation pore; other site 297246003695 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 297246003696 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246003697 putative substrate translocation pore; other site 297246003698 IucA / IucC family; Region: IucA_IucC; pfam04183 297246003699 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 297246003700 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 297246003701 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 297246003702 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 297246003703 Sporulation related domain; Region: SPOR; pfam05036 297246003704 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 297246003705 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 297246003706 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 297246003707 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 297246003708 protein binding site [polypeptide binding]; other site 297246003709 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 297246003710 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 297246003711 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 297246003712 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 297246003713 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 297246003714 RNA binding surface [nucleotide binding]; other site 297246003715 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 297246003716 active site 297246003717 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 297246003718 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 297246003719 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 297246003720 FeS/SAM binding site; other site 297246003721 TRAM domain; Region: TRAM; pfam01938 297246003722 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 297246003723 putative substrate translocation pore; other site 297246003724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246003725 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246003726 Flagellar protein FliS; Region: FliS; cl00654 297246003727 flagellar capping protein; Provisional; Region: PRK12765 297246003728 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 297246003729 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 297246003730 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 297246003731 flagellin; Provisional; Region: PRK12806 297246003732 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 297246003733 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 297246003734 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 297246003735 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 297246003736 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 297246003737 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 297246003738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 297246003739 Sporulation related domain; Region: SPOR; pfam05036 297246003740 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 297246003741 Colicin V production protein; Region: Colicin_V; pfam02674 297246003742 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 297246003743 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 297246003744 active site 297246003745 (T/H)XGH motif; other site 297246003746 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 297246003747 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 297246003748 Lipopolysaccharide-assembly; Region: LptE; cl01125 297246003749 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 297246003750 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 297246003751 HIGH motif; other site 297246003752 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 297246003753 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 297246003754 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 297246003755 active site 297246003756 KMSKS motif; other site 297246003757 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 297246003758 tRNA binding surface [nucleotide binding]; other site 297246003759 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 297246003760 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 297246003761 putative active site [active] 297246003762 catalytic triad [active] 297246003763 putative dimer interface [polypeptide binding]; other site 297246003764 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 297246003765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246003766 aldehyde dehydrogenase family 7 member; Region: PLN02315 297246003767 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 297246003768 tetrameric interface [polypeptide binding]; other site 297246003769 NAD binding site [chemical binding]; other site 297246003770 catalytic residues [active] 297246003771 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 297246003772 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 297246003773 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 297246003774 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 297246003775 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 297246003776 substrate binding site [chemical binding]; other site 297246003777 oxyanion hole (OAH) forming residues; other site 297246003778 trimer interface [polypeptide binding]; other site 297246003779 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 297246003780 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 297246003781 dimer interface [polypeptide binding]; other site 297246003782 active site 297246003783 DNA-directed RNA polymerase subunit A''; Validated; Region: PRK04309 297246003784 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246003785 Sel1-like repeats; Region: SEL1; smart00671 297246003786 Sel1-like repeats; Region: SEL1; smart00671 297246003787 Sel1-like repeats; Region: SEL1; smart00671 297246003788 Sel1-like repeats; Region: SEL1; smart00671 297246003789 Sel1-like repeats; Region: SEL1; smart00671 297246003790 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 297246003791 PAS domain; Region: PAS_9; pfam13426 297246003792 putative active site [active] 297246003793 heme pocket [chemical binding]; other site 297246003794 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246003795 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246003796 metal binding site [ion binding]; metal-binding site 297246003797 active site 297246003798 I-site; other site 297246003799 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 297246003800 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 297246003801 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 297246003802 type II secretion system protein J; Region: gspJ; TIGR01711 297246003803 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 297246003804 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 297246003805 Type II transport protein GspH; Region: GspH; pfam12019 297246003806 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 297246003807 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 297246003808 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 297246003809 type II secretion system protein F; Region: GspF; TIGR02120 297246003810 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 297246003811 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 297246003812 glutamine synthetase; Provisional; Region: glnA; PRK09469 297246003813 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 297246003814 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 297246003815 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 297246003816 hypothetical protein; Validated; Region: PRK02101 297246003817 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 297246003818 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 297246003819 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246003820 catalytic residue [active] 297246003821 heat shock protein 90; Provisional; Region: PRK05218 297246003822 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 297246003823 ATP binding site [chemical binding]; other site 297246003824 Mg2+ binding site [ion binding]; other site 297246003825 G-X-G motif; other site 297246003826 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 297246003827 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 297246003828 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 297246003829 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 297246003830 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 297246003831 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 297246003832 RNA/DNA hybrid binding site [nucleotide binding]; other site 297246003833 active site 297246003834 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 297246003835 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 297246003836 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 297246003837 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 297246003838 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 297246003839 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 297246003840 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 297246003841 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 297246003842 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 297246003843 urocanate hydratase; Provisional; Region: PRK05414 297246003844 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 297246003845 active sites [active] 297246003846 tetramer interface [polypeptide binding]; other site 297246003847 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 297246003848 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 297246003849 NAD(P) binding site [chemical binding]; other site 297246003850 catalytic residues [active] 297246003851 short chain dehydrogenase; Provisional; Region: PRK08278 297246003852 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 297246003853 NAD(P) binding site [chemical binding]; other site 297246003854 homodimer interface [polypeptide binding]; other site 297246003855 active site 297246003856 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 297246003857 RNA/DNA hybrid binding site [nucleotide binding]; other site 297246003858 active site 297246003859 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 297246003860 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 297246003861 active site 297246003862 catalytic site [active] 297246003863 substrate binding site [chemical binding]; other site 297246003864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 297246003865 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246003866 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 297246003867 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 297246003868 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 297246003869 Ligand Binding Site [chemical binding]; other site 297246003870 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 297246003871 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 297246003872 putative phosphate acyltransferase; Provisional; Region: PRK05331 297246003873 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 297246003874 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 297246003875 dimer interface [polypeptide binding]; other site 297246003876 active site 297246003877 CoA binding pocket [chemical binding]; other site 297246003878 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 297246003879 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 297246003880 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 297246003881 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 297246003882 NAD(P) binding site [chemical binding]; other site 297246003883 homotetramer interface [polypeptide binding]; other site 297246003884 homodimer interface [polypeptide binding]; other site 297246003885 active site 297246003886 acyl carrier protein; Provisional; Region: acpP; PRK00982 297246003887 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 297246003888 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 297246003889 dimer interface [polypeptide binding]; other site 297246003890 active site 297246003891 YceG-like family; Region: YceG; pfam02618 297246003892 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 297246003893 dimerization interface [polypeptide binding]; other site 297246003894 thymidylate kinase; Validated; Region: tmk; PRK00698 297246003895 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 297246003896 TMP-binding site; other site 297246003897 ATP-binding site [chemical binding]; other site 297246003898 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 297246003899 DNA polymerase III subunit delta'; Validated; Region: PRK08485 297246003900 PilZ domain; Region: PilZ; cl01260 297246003901 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 297246003902 active site 297246003903 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 297246003904 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 297246003905 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246003906 putative substrate translocation pore; other site 297246003907 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 297246003908 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 297246003909 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 297246003910 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 297246003911 Ligand binding site; other site 297246003912 Putative Catalytic site; other site 297246003913 DXD motif; other site 297246003914 Predicted membrane protein [Function unknown]; Region: COG2246 297246003915 GtrA-like protein; Region: GtrA; pfam04138 297246003916 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 297246003917 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 297246003918 Phosphotransferase enzyme family; Region: APH; pfam01636 297246003919 active site 297246003920 ATP binding site [chemical binding]; other site 297246003921 substrate binding site [chemical binding]; other site 297246003922 dimer interface [polypeptide binding]; other site 297246003923 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 297246003924 active site 297246003925 catalytic site [active] 297246003926 substrate binding site [chemical binding]; other site 297246003927 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 297246003928 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 297246003929 N-acetyl-D-glucosamine binding site [chemical binding]; other site 297246003930 catalytic residue [active] 297246003931 adenylate kinase; Reviewed; Region: adk; PRK00279 297246003932 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 297246003933 AMP-binding site [chemical binding]; other site 297246003934 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 297246003935 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 297246003936 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 297246003937 catalytic residues [active] 297246003938 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 297246003939 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 297246003940 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 297246003941 N- and C-terminal domain interface [polypeptide binding]; other site 297246003942 active site 297246003943 MgATP binding site [chemical binding]; other site 297246003944 catalytic site [active] 297246003945 metal binding site [ion binding]; metal-binding site 297246003946 glycerol binding site [chemical binding]; other site 297246003947 homotetramer interface [polypeptide binding]; other site 297246003948 homodimer interface [polypeptide binding]; other site 297246003949 FBP binding site [chemical binding]; other site 297246003950 protein IIAGlc interface [polypeptide binding]; other site 297246003951 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 297246003952 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 297246003953 dimer interface [polypeptide binding]; other site 297246003954 active site 297246003955 citrylCoA binding site [chemical binding]; other site 297246003956 NADH binding [chemical binding]; other site 297246003957 cationic pore residues; other site 297246003958 oxalacetate/citrate binding site [chemical binding]; other site 297246003959 coenzyme A binding site [chemical binding]; other site 297246003960 catalytic triad [active] 297246003961 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 297246003962 DNA gyrase subunit A; Validated; Region: PRK05560 297246003963 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 297246003964 CAP-like domain; other site 297246003965 active site 297246003966 primary dimer interface [polypeptide binding]; other site 297246003967 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 297246003968 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 297246003969 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 297246003970 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 297246003971 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 297246003972 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 297246003973 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 297246003974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246003975 catalytic residue [active] 297246003976 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 297246003977 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 297246003978 hinge; other site 297246003979 active site 297246003980 cytidylate kinase; Provisional; Region: cmk; PRK00023 297246003981 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 297246003982 CMP-binding site; other site 297246003983 The sites determining sugar specificity; other site 297246003984 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 297246003985 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 297246003986 RNA binding site [nucleotide binding]; other site 297246003987 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 297246003988 RNA binding site [nucleotide binding]; other site 297246003989 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 297246003990 RNA binding site [nucleotide binding]; other site 297246003991 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 297246003992 RNA binding site [nucleotide binding]; other site 297246003993 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 297246003994 RNA binding site [nucleotide binding]; other site 297246003995 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 297246003996 RNA binding site [nucleotide binding]; other site 297246003997 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 297246003998 tetratricopeptide repeat protein; Provisional; Region: PRK11788 297246003999 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 297246004000 TPR motif; other site 297246004001 binding surface 297246004002 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 297246004003 binding surface 297246004004 TPR motif; other site 297246004005 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 297246004006 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 297246004007 inhibitor-cofactor binding pocket; inhibition site 297246004008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246004009 catalytic residue [active] 297246004010 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 297246004011 active site 297246004012 dimer interface [polypeptide binding]; other site 297246004013 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 297246004014 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 297246004015 active site 297246004016 nucleophile elbow; other site 297246004017 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 297246004018 classical (c) SDRs; Region: SDR_c; cd05233 297246004019 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 297246004020 NAD(P) binding site [chemical binding]; other site 297246004021 active site 297246004022 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 297246004023 Chorismate lyase; Region: Chor_lyase; cl01230 297246004024 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 297246004025 UbiA prenyltransferase family; Region: UbiA; pfam01040 297246004026 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 297246004027 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 297246004028 FAD binding domain; Region: FAD_binding_4; pfam01565 297246004029 Berberine and berberine like; Region: BBE; pfam08031 297246004030 Class I aldolases; Region: Aldolase_Class_I; cl17187 297246004031 catalytic residue [active] 297246004032 purine nucleoside phosphorylase; Provisional; Region: PRK08202 297246004033 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 297246004034 active site 297246004035 catalytic motif [active] 297246004036 Zn binding site [ion binding]; other site 297246004037 two-component sensor protein; Provisional; Region: cpxA; PRK09470 297246004038 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 297246004039 dimerization interface [polypeptide binding]; other site 297246004040 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 297246004041 dimer interface [polypeptide binding]; other site 297246004042 phosphorylation site [posttranslational modification] 297246004043 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 297246004044 ATP binding site [chemical binding]; other site 297246004045 Mg2+ binding site [ion binding]; other site 297246004046 G-X-G motif; other site 297246004047 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 297246004048 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 297246004049 active site 297246004050 phosphorylation site [posttranslational modification] 297246004051 intermolecular recognition site; other site 297246004052 dimerization interface [polypeptide binding]; other site 297246004053 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 297246004054 DNA binding site [nucleotide binding] 297246004055 FOG: CBS domain [General function prediction only]; Region: COG0517 297246004056 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 297246004057 Transporter associated domain; Region: CorC_HlyC; smart01091 297246004058 metal-binding heat shock protein; Provisional; Region: PRK00016 297246004059 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 297246004060 PhoH-like protein; Region: PhoH; pfam02562 297246004061 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 297246004062 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 297246004063 active site 297246004064 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 297246004065 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 297246004066 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 297246004067 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 297246004068 active site 297246004069 HIGH motif; other site 297246004070 dimer interface [polypeptide binding]; other site 297246004071 KMSKS motif; other site 297246004072 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 297246004073 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 297246004074 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 297246004075 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 297246004076 RNA binding surface [nucleotide binding]; other site 297246004077 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 297246004078 probable active site [active] 297246004079 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 297246004080 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 297246004081 DNA binding residues [nucleotide binding] 297246004082 dimerization interface [polypeptide binding]; other site 297246004083 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 297246004084 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 297246004085 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 297246004086 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 297246004087 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 297246004088 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 297246004089 substrate binding site [chemical binding]; other site 297246004090 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246004091 putative transporter; Provisional; Region: PRK10504 297246004092 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 297246004093 putative substrate translocation pore; other site 297246004094 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 297246004095 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 297246004096 TRAM domain; Region: TRAM; pfam01938 297246004097 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 297246004098 S-adenosylmethionine binding site [chemical binding]; other site 297246004099 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 297246004100 HD domain; Region: HD_4; pfam13328 297246004101 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 297246004102 synthetase active site [active] 297246004103 NTP binding site [chemical binding]; other site 297246004104 metal binding site [ion binding]; metal-binding site 297246004105 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 297246004106 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 297246004107 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 297246004108 aminotransferase; Validated; Region: PRK08175 297246004109 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 297246004110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246004111 homodimer interface [polypeptide binding]; other site 297246004112 catalytic residue [active] 297246004113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 297246004114 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 297246004115 DHH family; Region: DHH; pfam01368 297246004116 DHHA1 domain; Region: DHHA1; pfam02272 297246004117 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 297246004118 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 297246004119 FMN binding site [chemical binding]; other site 297246004120 active site 297246004121 catalytic residues [active] 297246004122 substrate binding site [chemical binding]; other site 297246004123 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13104 297246004124 DEAD/DEAH box helicase; Region: DEAD; pfam00270 297246004125 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 297246004126 SEC-C motif; Region: SEC-C; pfam02810 297246004127 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 297246004128 active site 297246004129 8-oxo-dGMP binding site [chemical binding]; other site 297246004130 nudix motif; other site 297246004131 metal binding site [ion binding]; metal-binding site 297246004132 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 297246004133 hypothetical protein; Provisional; Region: PRK05287 297246004134 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 297246004135 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 297246004136 CoA-binding site [chemical binding]; other site 297246004137 ATP-binding [chemical binding]; other site 297246004138 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 297246004139 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 297246004140 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 297246004141 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 297246004142 inhibitor-cofactor binding pocket; inhibition site 297246004143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246004144 catalytic residue [active] 297246004145 biotin synthase; Region: bioB; TIGR00433 297246004146 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 297246004147 FeS/SAM binding site; other site 297246004148 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 297246004149 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 297246004150 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 297246004151 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246004152 catalytic residue [active] 297246004153 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 297246004154 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 297246004155 AAA domain; Region: AAA_26; pfam13500 297246004156 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 297246004157 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 297246004158 Uncharacterized conserved protein [Function unknown]; Region: COG2928 297246004159 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 297246004160 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 297246004161 dimer interface [polypeptide binding]; other site 297246004162 anticodon binding site; other site 297246004163 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 297246004164 homodimer interface [polypeptide binding]; other site 297246004165 motif 1; other site 297246004166 active site 297246004167 motif 2; other site 297246004168 GAD domain; Region: GAD; pfam02938 297246004169 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 297246004170 motif 3; other site 297246004171 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 297246004172 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 297246004173 Mechanosensitive ion channel; Region: MS_channel; pfam00924 297246004174 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 297246004175 putative DNA-binding cleft [nucleotide binding]; other site 297246004176 putative DNA clevage site; other site 297246004177 molecular lever; other site 297246004178 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 297246004179 Catalytic domain of Protein Kinases; Region: PKc; cd00180 297246004180 active site 297246004181 ATP binding site [chemical binding]; other site 297246004182 substrate binding site [chemical binding]; other site 297246004183 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 297246004184 substrate binding site [chemical binding]; other site 297246004185 activation loop (A-loop); other site 297246004186 activation loop (A-loop); other site 297246004187 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 297246004188 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 297246004189 putative DNA binding site [nucleotide binding]; other site 297246004190 putative Zn2+ binding site [ion binding]; other site 297246004191 AsnC family; Region: AsnC_trans_reg; pfam01037 297246004192 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246004193 Coenzyme A binding pocket [chemical binding]; other site 297246004194 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 297246004195 GAF domain; Region: GAF; pfam01590 297246004196 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 297246004197 cyclase homology domain; Region: CHD; cd07302 297246004198 nucleotidyl binding site; other site 297246004199 metal binding site [ion binding]; metal-binding site 297246004200 dimer interface [polypeptide binding]; other site 297246004201 Phosphotransferase enzyme family; Region: APH; pfam01636 297246004202 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246004203 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 297246004204 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 297246004205 putative active site pocket [active] 297246004206 dimerization interface [polypeptide binding]; other site 297246004207 putative catalytic residue [active] 297246004208 Dot/Icm substrate protein; Region: SidE; pfam12252 297246004209 aminopeptidase N; Provisional; Region: pepN; PRK14015 297246004210 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 297246004211 Zn binding site [ion binding]; other site 297246004212 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 297246004213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246004214 NAD(P) binding site [chemical binding]; other site 297246004215 active site 297246004216 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 297246004217 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246004218 Coenzyme A binding pocket [chemical binding]; other site 297246004219 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 297246004220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 297246004221 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 297246004222 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 297246004223 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 297246004224 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 297246004225 E3 interaction surface; other site 297246004226 lipoyl attachment site [posttranslational modification]; other site 297246004227 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 297246004228 E3 interaction surface; other site 297246004229 lipoyl attachment site [posttranslational modification]; other site 297246004230 e3 binding domain; Region: E3_binding; pfam02817 297246004231 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 297246004232 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 297246004233 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 297246004234 dimer interface [polypeptide binding]; other site 297246004235 TPP-binding site [chemical binding]; other site 297246004236 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 297246004237 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 297246004238 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 297246004239 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 297246004240 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 297246004241 Sporulation related domain; Region: SPOR; pfam05036 297246004242 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 297246004243 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 297246004244 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 297246004245 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 297246004246 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 297246004247 homodimer interface [polypeptide binding]; other site 297246004248 substrate-cofactor binding pocket; other site 297246004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246004250 catalytic residue [active] 297246004251 Protein of unknown function (DUF493); Region: DUF493; pfam04359 297246004252 lipoate-protein ligase B; Provisional; Region: PRK14342 297246004253 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 297246004254 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 297246004255 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 297246004256 active site 297246004257 LssY C-terminus; Region: LssY_C; pfam14067 297246004258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 297246004259 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 297246004260 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 297246004261 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246004262 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 297246004263 Walker A/P-loop; other site 297246004264 ATP binding site [chemical binding]; other site 297246004265 Q-loop/lid; other site 297246004266 ABC transporter signature motif; other site 297246004267 Walker B; other site 297246004268 D-loop; other site 297246004269 H-loop/switch region; other site 297246004270 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 297246004271 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246004272 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246004273 PAS domain S-box; Region: sensory_box; TIGR00229 297246004274 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246004275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246004276 metal binding site [ion binding]; metal-binding site 297246004277 active site 297246004278 I-site; other site 297246004279 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 297246004280 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246004281 active site 297246004282 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 297246004283 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 297246004284 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 297246004285 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 297246004286 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 297246004287 Walker A motif; other site 297246004288 ATP binding site [chemical binding]; other site 297246004289 Walker B motif; other site 297246004290 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 297246004291 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 297246004292 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 297246004293 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 297246004294 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 297246004295 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 297246004296 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 297246004297 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 297246004298 ligand binding site [chemical binding]; other site 297246004299 CAAX protease self-immunity; Region: Abi; pfam02517 297246004300 PEP synthetase regulatory protein; Provisional; Region: PRK05339 297246004301 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 297246004302 2-methylcitrate dehydratase; Region: prpD; TIGR02330 297246004303 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 297246004304 dimer interface [polypeptide binding]; other site 297246004305 Citrate synthase; Region: Citrate_synt; pfam00285 297246004306 active site 297246004307 citrylCoA binding site [chemical binding]; other site 297246004308 oxalacetate/citrate binding site [chemical binding]; other site 297246004309 coenzyme A binding site [chemical binding]; other site 297246004310 catalytic triad [active] 297246004311 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 297246004312 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 297246004313 Uncharacterized conserved protein [Function unknown]; Region: COG4121 297246004314 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 297246004315 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 297246004316 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 297246004317 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 297246004318 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 297246004319 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 297246004320 inhibitor-cofactor binding pocket; inhibition site 297246004321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246004322 catalytic residue [active] 297246004323 Rubredoxin [Energy production and conversion]; Region: COG1773 297246004324 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 297246004325 iron binding site [ion binding]; other site 297246004326 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 297246004327 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 297246004328 poly(A) polymerase; Region: pcnB; TIGR01942 297246004329 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 297246004330 active site 297246004331 NTP binding site [chemical binding]; other site 297246004332 metal binding triad [ion binding]; metal-binding site 297246004333 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 297246004334 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 297246004335 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 297246004336 catalytic center binding site [active] 297246004337 ATP binding site [chemical binding]; other site 297246004338 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 297246004339 Ligand Binding Site [chemical binding]; other site 297246004340 GTP-binding protein Der; Reviewed; Region: PRK00093 297246004341 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 297246004342 G1 box; other site 297246004343 GTP/Mg2+ binding site [chemical binding]; other site 297246004344 Switch I region; other site 297246004345 G2 box; other site 297246004346 Switch II region; other site 297246004347 G3 box; other site 297246004348 G4 box; other site 297246004349 G5 box; other site 297246004350 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 297246004351 G1 box; other site 297246004352 GTP/Mg2+ binding site [chemical binding]; other site 297246004353 Switch I region; other site 297246004354 G2 box; other site 297246004355 G3 box; other site 297246004356 Switch II region; other site 297246004357 G4 box; other site 297246004358 G5 box; other site 297246004359 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 297246004360 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 297246004361 Trp docking motif [polypeptide binding]; other site 297246004362 active site 297246004363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 297246004364 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 297246004365 histidyl-tRNA synthetase; Region: hisS; TIGR00442 297246004366 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 297246004367 dimer interface [polypeptide binding]; other site 297246004368 motif 1; other site 297246004369 active site 297246004370 motif 2; other site 297246004371 motif 3; other site 297246004372 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 297246004373 anticodon binding site; other site 297246004374 Helix-turn-helix domain; Region: HTH_25; pfam13413 297246004375 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 297246004376 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 297246004377 binding surface 297246004378 TPR motif; other site 297246004379 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 297246004380 binding surface 297246004381 TPR motif; other site 297246004382 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 297246004383 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 297246004384 FeS/SAM binding site; other site 297246004385 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 297246004386 active site 297246004387 multimer interface [polypeptide binding]; other site 297246004388 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 297246004389 active site 297246004390 dinuclear metal binding site [ion binding]; other site 297246004391 dimerization interface [polypeptide binding]; other site 297246004392 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 297246004393 putative active site [active] 297246004394 putative metal binding site [ion binding]; other site 297246004395 septum formation inhibitor; Reviewed; Region: minC; PRK00339 297246004396 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 297246004397 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 297246004398 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 297246004399 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 297246004400 acyl-activating enzyme (AAE) consensus motif; other site 297246004401 putative AMP binding site [chemical binding]; other site 297246004402 putative active site [active] 297246004403 putative CoA binding site [chemical binding]; other site 297246004404 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 297246004405 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 297246004406 substrate binding pocket [chemical binding]; other site 297246004407 membrane-bound complex binding site; other site 297246004408 hinge residues; other site 297246004409 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 297246004410 putative active site [active] 297246004411 putative CoA binding site [chemical binding]; other site 297246004412 nudix motif; other site 297246004413 metal binding site [ion binding]; metal-binding site 297246004414 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 297246004415 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 297246004416 chorismate binding enzyme; Region: Chorismate_bind; cl10555 297246004417 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 297246004418 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 297246004419 TPP-binding site [chemical binding]; other site 297246004420 tetramer interface [polypeptide binding]; other site 297246004421 heterodimer interface [polypeptide binding]; other site 297246004422 phosphorylation loop region [posttranslational modification] 297246004423 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 297246004424 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 297246004425 alpha subunit interface [polypeptide binding]; other site 297246004426 TPP binding site [chemical binding]; other site 297246004427 heterodimer interface [polypeptide binding]; other site 297246004428 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 297246004429 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 297246004430 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 297246004431 E3 interaction surface; other site 297246004432 lipoyl attachment site [posttranslational modification]; other site 297246004433 e3 binding domain; Region: E3_binding; pfam02817 297246004434 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 297246004435 Mechanosensitive ion channel; Region: MS_channel; pfam00924 297246004436 Uncharacterized conserved protein [Function unknown]; Region: COG0398 297246004437 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 297246004438 mercuric reductase; Validated; Region: PRK06370 297246004439 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 297246004440 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 297246004441 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_3; cd02434 297246004442 NMT1/THI5 like; Region: NMT1; pfam09084 297246004443 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 297246004444 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 297246004445 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 297246004446 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 297246004447 thiS-thiF/thiG interaction site; other site 297246004448 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 297246004449 ThiS interaction site; other site 297246004450 putative active site [active] 297246004451 tetramer interface [polypeptide binding]; other site 297246004452 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 297246004453 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 297246004454 dimer interface [polypeptide binding]; other site 297246004455 substrate binding site [chemical binding]; other site 297246004456 ATP binding site [chemical binding]; other site 297246004457 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 297246004458 thiamine phosphate binding site [chemical binding]; other site 297246004459 active site 297246004460 pyrophosphate binding site [ion binding]; other site 297246004461 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 297246004462 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 297246004463 ATP binding site [chemical binding]; other site 297246004464 substrate interface [chemical binding]; other site 297246004465 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 297246004466 active site residue [active] 297246004467 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 297246004468 active site 297246004469 Zn binding site [ion binding]; other site 297246004470 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 297246004471 TolB amino-terminal domain; Region: TolB_N; pfam04052 297246004472 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 297246004473 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 297246004474 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 297246004475 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 297246004476 TolA protein; Region: tolA_full; TIGR02794 297246004477 TolA protein; Region: tolA_full; TIGR02794 297246004478 TonB C terminal; Region: TonB_2; pfam13103 297246004479 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 297246004480 TolR protein; Region: tolR; TIGR02801 297246004481 TolQ protein; Region: tolQ; TIGR02796 297246004482 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 297246004483 active site 297246004484 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 297246004485 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 297246004486 Walker A motif; other site 297246004487 ATP binding site [chemical binding]; other site 297246004488 Walker B motif; other site 297246004489 arginine finger; other site 297246004490 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 297246004491 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 297246004492 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 297246004493 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 297246004494 DNA binding residues [nucleotide binding] 297246004495 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 297246004496 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 297246004497 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 297246004498 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 297246004499 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 297246004500 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 297246004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 297246004502 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246004503 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 297246004504 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 297246004505 NAD(P) binding site [chemical binding]; other site 297246004506 catalytic residues [active] 297246004507 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 297246004508 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 297246004509 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 297246004510 putative catalytic residue [active] 297246004511 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 297246004512 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 297246004513 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 297246004514 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 297246004515 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 297246004516 Global regulator protein family; Region: CsrA; pfam02599 297246004517 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 297246004518 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246004519 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 297246004520 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 297246004521 substrate binding site [chemical binding]; other site 297246004522 oxyanion hole (OAH) forming residues; other site 297246004523 trimer interface [polypeptide binding]; other site 297246004524 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 297246004525 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 297246004526 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 297246004527 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 297246004528 dimer interface [polypeptide binding]; other site 297246004529 active site 297246004530 C-terminal domain of eIF4-gamma/eIF5/eIF2b-epsilon; Region: W2; cl17013 297246004531 Helix-turn-helix domain; Region: HTH_28; pfam13518 297246004532 Winged helix-turn helix; Region: HTH_29; pfam13551 297246004533 Homeodomain-like domain; Region: HTH_32; pfam13565 297246004534 Integrase core domain; Region: rve; pfam00665 297246004535 hypothetical protein 297246004536 hypothetical protein 297246004537 similar to transposase;hypothetical protein 297246004538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 297246004539 Helix-turn-helix domain; Region: HTH_38; pfam13936 297246004540 Integrase core domain; Region: rve; pfam00665 297246004541 transposase/IS protein; Provisional; Region: PRK09183 297246004542 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 297246004543 Walker A motif; other site 297246004544 ATP binding site [chemical binding]; other site 297246004545 Walker B motif; other site 297246004546 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 297246004547 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 297246004548 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246004549 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 297246004550 Leucine-rich repeats; other site 297246004551 Substrate binding site [chemical binding]; other site 297246004552 RES domain; Region: RES; smart00953 297246004553 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 297246004554 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 297246004555 S-adenosylmethionine binding site [chemical binding]; other site 297246004556 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 297246004557 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 297246004558 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_21; cd04680 297246004559 nudix motif; other site 297246004560 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 297246004561 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 297246004562 putative catalytic cysteine [active] 297246004563 gamma-glutamyl kinase; Provisional; Region: PRK05429 297246004564 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 297246004565 nucleotide binding site [chemical binding]; other site 297246004566 homotetrameric interface [polypeptide binding]; other site 297246004567 putative phosphate binding site [ion binding]; other site 297246004568 putative allosteric binding site; other site 297246004569 PUA domain; Region: PUA; pfam01472 297246004570 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246004571 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 297246004572 Coenzyme A binding pocket [chemical binding]; other site 297246004573 Phosphotransferase enzyme family; Region: APH; pfam01636 297246004574 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 297246004575 active site 297246004576 ATP binding site [chemical binding]; other site 297246004577 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 297246004578 putative active site [active] 297246004579 Similar to transposase (IS5 family);hypothetical protein 297246004580 Similar to transposase (IS5 family);hypothetical protein 297246004581 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 297246004582 DNA binding residues [nucleotide binding] 297246004583 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 297246004584 dimer interface [polypeptide binding]; other site 297246004585 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 297246004586 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 297246004587 active site 297246004588 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 297246004589 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 297246004590 DNA binding residues [nucleotide binding] 297246004591 dimer interface [polypeptide binding]; other site 297246004592 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 297246004593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246004594 Coenzyme A binding pocket [chemical binding]; other site 297246004595 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 297246004596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246004597 Coenzyme A binding pocket [chemical binding]; other site 297246004598 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246004599 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 297246004600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246004601 Walker A/P-loop; other site 297246004602 ATP binding site [chemical binding]; other site 297246004603 Q-loop/lid; other site 297246004604 ABC transporter signature motif; other site 297246004605 Walker B; other site 297246004606 D-loop; other site 297246004607 H-loop/switch region; other site 297246004608 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 297246004609 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246004610 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 297246004611 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246004612 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 297246004613 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 297246004614 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 297246004615 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 297246004616 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 297246004617 Penicillinase repressor; Region: Pencillinase_R; pfam03965 297246004618 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 297246004619 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 297246004620 Permutation of conserved domain; other site 297246004621 active site 297246004622 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 297246004623 putative hydrolase; Provisional; Region: PRK10985 297246004624 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 297246004625 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246004626 Soluble P-type ATPase [General function prediction only]; Region: COG4087 297246004627 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 297246004628 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 297246004629 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 297246004630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246004631 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 297246004632 NAD(P) binding site [chemical binding]; other site 297246004633 active site 297246004634 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 297246004635 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 297246004636 dimer interface [polypeptide binding]; other site 297246004637 active site 297246004638 CoA binding pocket [chemical binding]; other site 297246004639 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 297246004640 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 297246004641 putative ADP-binding pocket [chemical binding]; other site 297246004642 PAP2 superfamily C-terminal; Region: PAP2_C; pfam14360 297246004643 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 297246004644 FAD binding domain; Region: FAD_binding_4; pfam01565 297246004645 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 297246004646 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 297246004647 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 297246004648 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 297246004649 active site 297246004650 catalytic site [active] 297246004651 tetramer interface [polypeptide binding]; other site 297246004652 enterobactin exporter EntS; Provisional; Region: PRK10489 297246004653 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 297246004654 putative substrate translocation pore; other site 297246004655 Predicted membrane protein [Function unknown]; Region: COG2119 297246004656 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 297246004657 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 297246004658 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 297246004659 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 297246004660 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 297246004661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 297246004662 C-terminal part of L. pneumophila sidB protein;hypothetical protein 297246004663 Similar to N-terminal part of sidB protein;hypothetical protein 297246004664 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 297246004665 threonine synthase; Validated; Region: PRK09225 297246004666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246004667 catalytic residue [active] 297246004668 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 297246004669 Dot/Icm substrate protein; Region: SidE; pfam12252 297246004670 YceI-like domain; Region: YceI; pfam04264 297246004671 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 297246004672 YceI-like domain; Region: YceI; smart00867 297246004673 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 297246004674 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 297246004675 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 297246004676 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 297246004677 dimer interface [polypeptide binding]; other site 297246004678 PYR/PP interface [polypeptide binding]; other site 297246004679 TPP binding site [chemical binding]; other site 297246004680 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 297246004681 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 297246004682 TPP-binding site; other site 297246004683 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 297246004684 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 297246004685 substrate binding site [chemical binding]; other site 297246004686 ATP binding site [chemical binding]; other site 297246004687 KduI/IolB family; Region: KduI; pfam04962 297246004688 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 297246004689 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 297246004690 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 297246004691 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 297246004692 putative substrate translocation pore; other site 297246004693 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 297246004694 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 297246004695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 297246004696 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 297246004697 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 297246004698 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 297246004699 active site 297246004700 Zn binding site [ion binding]; other site 297246004701 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246004702 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 297246004703 Amidinotransferase; Region: Amidinotransf; cl12043 297246004704 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 297246004705 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 297246004706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 297246004707 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246004708 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 297246004709 putative substrate translocation pore; other site 297246004710 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 297246004711 Transglycosylase; Region: Transgly; pfam00912 297246004712 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 297246004713 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 297246004714 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 297246004715 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 297246004716 MG2 domain; Region: A2M_N; pfam01835 297246004717 Alpha-2-macroglobulin family; Region: A2M; pfam00207 297246004718 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 297246004719 surface patch; other site 297246004720 thioester region; other site 297246004721 specificity defining residues; other site 297246004722 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 297246004723 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 297246004724 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 297246004725 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 297246004726 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 297246004727 active site 297246004728 catalytic site [active] 297246004729 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 297246004730 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 297246004731 active site 297246004732 substrate binding site [chemical binding]; other site 297246004733 cosubstrate binding site; other site 297246004734 catalytic site [active] 297246004735 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 297246004736 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 297246004737 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246004738 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 297246004739 amidophosphoribosyltransferase; Provisional; Region: PRK09246 297246004740 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 297246004741 active site 297246004742 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246004743 active site 297246004744 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 297246004745 ATP binding site [chemical binding]; other site 297246004746 active site 297246004747 substrate binding site [chemical binding]; other site 297246004748 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 297246004749 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 297246004750 putative active site [active] 297246004751 catalytic triad [active] 297246004752 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 297246004753 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 297246004754 dimerization interface [polypeptide binding]; other site 297246004755 putative ATP binding site [chemical binding]; other site 297246004756 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 297246004757 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 297246004758 dimerization interface [polypeptide binding]; other site 297246004759 ATP binding site [chemical binding]; other site 297246004760 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 297246004761 dimerization interface [polypeptide binding]; other site 297246004762 ATP binding site [chemical binding]; other site 297246004763 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 297246004764 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 297246004765 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 297246004766 DsbD alpha interface [polypeptide binding]; other site 297246004767 catalytic residues [active] 297246004768 short chain dehydrogenase; Provisional; Region: PRK05993 297246004769 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 297246004770 NADP binding site [chemical binding]; other site 297246004771 active site 297246004772 steroid binding site; other site 297246004773 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 297246004774 aconitate hydratase; Validated; Region: PRK09277 297246004775 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 297246004776 substrate binding site [chemical binding]; other site 297246004777 ligand binding site [chemical binding]; other site 297246004778 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 297246004779 substrate binding site [chemical binding]; other site 297246004780 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 297246004781 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 297246004782 Proline dehydrogenase; Region: Pro_dh; pfam01619 297246004783 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 297246004784 Glutamate binding site [chemical binding]; other site 297246004785 NAD binding site [chemical binding]; other site 297246004786 catalytic residues [active] 297246004787 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 297246004788 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 297246004789 ProQ/FINO family; Region: ProQ; pfam04352 297246004790 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 297246004791 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 297246004792 S-adenosylmethionine binding site [chemical binding]; other site 297246004793 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 297246004794 ligand binding site [chemical binding]; other site 297246004795 active site 297246004796 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 297246004797 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 297246004798 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 297246004799 active site 297246004800 DNA binding site [nucleotide binding] 297246004801 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 297246004802 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 297246004803 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 297246004804 Catalytic site [active] 297246004805 hypothetical protein; Provisional; Region: PRK07338 297246004806 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 297246004807 metal binding site [ion binding]; metal-binding site 297246004808 dimer interface [polypeptide binding]; other site 297246004809 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 297246004810 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 297246004811 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 297246004812 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 297246004813 NAD(P) binding site [chemical binding]; other site 297246004814 catalytic residues [active] 297246004815 succinylarginine dihydrolase; Provisional; Region: PRK13281 297246004816 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 297246004817 Cytochrome c; Region: Cytochrom_C; cl11414 297246004818 ribosome recycling factor; Reviewed; Region: frr; PRK00083 297246004819 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 297246004820 hinge region; other site 297246004821 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 297246004822 putative nucleotide binding site [chemical binding]; other site 297246004823 uridine monophosphate binding site [chemical binding]; other site 297246004824 homohexameric interface [polypeptide binding]; other site 297246004825 elongation factor Ts; Provisional; Region: tsf; PRK09377 297246004826 UBA/TS-N domain; Region: UBA; pfam00627 297246004827 Elongation factor TS; Region: EF_TS; pfam00889 297246004828 Elongation factor TS; Region: EF_TS; pfam00889 297246004829 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 297246004830 rRNA interaction site [nucleotide binding]; other site 297246004831 S8 interaction site; other site 297246004832 putative laminin-1 binding site; other site 297246004833 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 297246004834 dimer interface [polypeptide binding]; other site 297246004835 SET domain; Region: SET; pfam00856 297246004836 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246004837 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246004838 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 297246004839 active site 297246004840 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 297246004841 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 297246004842 metal binding triad; other site 297246004843 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 297246004844 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 297246004845 Zn2+ binding site [ion binding]; other site 297246004846 Mg2+ binding site [ion binding]; other site 297246004847 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 297246004848 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 297246004849 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 297246004850 nucleoside/Zn binding site; other site 297246004851 dimer interface [polypeptide binding]; other site 297246004852 catalytic motif [active] 297246004853 GMP synthase; Reviewed; Region: guaA; PRK00074 297246004854 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 297246004855 AMP/PPi binding site [chemical binding]; other site 297246004856 candidate oxyanion hole; other site 297246004857 catalytic triad [active] 297246004858 potential glutamine specificity residues [chemical binding]; other site 297246004859 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 297246004860 ATP Binding subdomain [chemical binding]; other site 297246004861 Ligand Binding sites [chemical binding]; other site 297246004862 Dimerization subdomain; other site 297246004863 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 297246004864 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 297246004865 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 297246004866 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 297246004867 active site 297246004868 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 297246004869 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 297246004870 Switch I; other site 297246004871 Switch II; other site 297246004872 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 297246004873 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 297246004874 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 297246004875 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 297246004876 active site 297246004877 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 297246004878 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246004879 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 297246004880 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 297246004881 Walker A/P-loop; other site 297246004882 ATP binding site [chemical binding]; other site 297246004883 Q-loop/lid; other site 297246004884 ABC transporter signature motif; other site 297246004885 Walker B; other site 297246004886 D-loop; other site 297246004887 H-loop/switch region; other site 297246004888 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 297246004889 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 297246004890 dimer interface [polypeptide binding]; other site 297246004891 conserved gate region; other site 297246004892 putative PBP binding loops; other site 297246004893 ABC-ATPase subunit interface; other site 297246004894 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 297246004895 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 297246004896 dimer interface [polypeptide binding]; other site 297246004897 conserved gate region; other site 297246004898 putative PBP binding loops; other site 297246004899 ABC-ATPase subunit interface; other site 297246004900 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 297246004901 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 297246004902 NAD(P) binding site [chemical binding]; other site 297246004903 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 297246004904 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 297246004905 Cl- selectivity filter; other site 297246004906 Cl- binding residues [ion binding]; other site 297246004907 pore gating glutamate residue; other site 297246004908 dimer interface [polypeptide binding]; other site 297246004909 H+/Cl- coupling transport residue; other site 297246004910 anthranilate synthase; Provisional; Region: PRK13566 297246004911 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 297246004912 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 297246004913 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 297246004914 glutamine binding [chemical binding]; other site 297246004915 catalytic triad [active] 297246004916 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 297246004917 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 297246004918 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 297246004919 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 297246004920 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 297246004921 GatB domain; Region: GatB_Yqey; smart00845 297246004922 Autotransporter beta-domain; Region: Autotransporter; smart00869 297246004923 CHASE2 domain; Region: CHASE2; pfam05226 297246004924 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 297246004925 cyclase homology domain; Region: CHD; cd07302 297246004926 nucleotidyl binding site; other site 297246004927 metal binding site [ion binding]; metal-binding site 297246004928 dimer interface [polypeptide binding]; other site 297246004929 FecR protein; Region: FecR; pfam04773 297246004930 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 297246004931 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 297246004932 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 297246004933 trimerization site [polypeptide binding]; other site 297246004934 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 297246004935 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 297246004936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246004937 catalytic residue [active] 297246004938 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 297246004939 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 297246004940 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 297246004941 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 297246004942 active site 297246004943 dimerization interface [polypeptide binding]; other site 297246004944 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 297246004945 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 297246004946 tandem repeat interface [polypeptide binding]; other site 297246004947 oligomer interface [polypeptide binding]; other site 297246004948 active site residues [active] 297246004949 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 297246004950 Clp amino terminal domain; Region: Clp_N; pfam02861 297246004951 Clp amino terminal domain; Region: Clp_N; pfam02861 297246004952 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 297246004953 Walker A motif; other site 297246004954 ATP binding site [chemical binding]; other site 297246004955 Walker B motif; other site 297246004956 arginine finger; other site 297246004957 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; cl00148 297246004958 primary dimer interface [polypeptide binding]; other site 297246004959 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 297246004960 Walker A motif; other site 297246004961 ATP binding site [chemical binding]; other site 297246004962 Walker B motif; other site 297246004963 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 297246004964 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 297246004965 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 297246004966 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 297246004967 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 297246004968 TIGR02099 family protein; Region: TIGR02099 297246004969 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 297246004970 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 297246004971 Flagellar FliJ protein; Region: FliJ; pfam02050 297246004972 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 297246004973 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 297246004974 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 297246004975 Walker A motif/ATP binding site; other site 297246004976 Walker B motif; other site 297246004977 Flagellar assembly protein FliH; Region: FliH; pfam02108 297246004978 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 297246004979 FliG C-terminal domain; Region: FliG_C; pfam01706 297246004980 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 297246004981 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 297246004982 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 297246004983 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 297246004984 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 297246004985 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 297246004986 active site 297246004987 phosphorylation site [posttranslational modification] 297246004988 intermolecular recognition site; other site 297246004989 dimerization interface [polypeptide binding]; other site 297246004990 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 297246004991 Walker A motif; other site 297246004992 ATP binding site [chemical binding]; other site 297246004993 Walker B motif; other site 297246004994 arginine finger; other site 297246004995 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 297246004996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 297246004997 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 297246004998 putative active site [active] 297246004999 heme pocket [chemical binding]; other site 297246005000 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 297246005001 dimer interface [polypeptide binding]; other site 297246005002 phosphorylation site [posttranslational modification] 297246005003 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 297246005004 ATP binding site [chemical binding]; other site 297246005005 G-X-G motif; other site 297246005006 recombination factor protein RarA; Reviewed; Region: PRK13342 297246005007 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 297246005008 Walker A motif; other site 297246005009 ATP binding site [chemical binding]; other site 297246005010 Walker B motif; other site 297246005011 arginine finger; other site 297246005012 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 297246005013 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 297246005014 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 297246005015 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 297246005016 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 297246005017 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 297246005018 thioredoxin reductase; Provisional; Region: PRK10262 297246005019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 297246005020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 297246005021 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 297246005022 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 297246005023 active site residue [active] 297246005024 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 297246005025 rRNA binding site [nucleotide binding]; other site 297246005026 predicted 30S ribosome binding site; other site 297246005027 peptidase PmbA; Provisional; Region: PRK11040 297246005028 Predicted periplasmic protein [Function unknown]; Region: COG3698 297246005029 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 297246005030 Cupin-like domain; Region: Cupin_8; pfam13621 297246005031 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 297246005032 ATP cone domain; Region: ATP-cone; pfam03477 297246005033 ATP cone domain; Region: ATP-cone; pfam03477 297246005034 Class I ribonucleotide reductase; Region: RNR_I; cd01679 297246005035 active site 297246005036 dimer interface [polypeptide binding]; other site 297246005037 catalytic residues [active] 297246005038 effector binding site; other site 297246005039 R2 peptide binding site; other site 297246005040 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 297246005041 dimer interface [polypeptide binding]; other site 297246005042 putative radical transfer pathway; other site 297246005043 diiron center [ion binding]; other site 297246005044 tyrosyl radical; other site 297246005045 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 297246005046 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 297246005047 dimer interface [polypeptide binding]; other site 297246005048 putative anticodon binding site; other site 297246005049 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 297246005050 motif 1; other site 297246005051 active site 297246005052 motif 2; other site 297246005053 motif 3; other site 297246005054 peptide chain release factor 2; Validated; Region: prfB; PRK00578 297246005055 This domain is found in peptide chain release factors; Region: PCRF; smart00937 297246005056 RF-1 domain; Region: RF-1; pfam00472 297246005057 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 297246005058 flagellar motor protein MotD; Reviewed; Region: PRK09038 297246005059 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 297246005060 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 297246005061 ligand binding site [chemical binding]; other site 297246005062 flagellar motor protein; Reviewed; Region: motC; PRK09109 297246005063 flagellar motor protein MotA; Validated; Region: PRK08124 297246005064 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 297246005065 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 297246005066 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 297246005067 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 297246005068 DNA binding residues [nucleotide binding] 297246005069 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 297246005070 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 297246005071 P-loop; other site 297246005072 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 297246005073 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 297246005074 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 297246005075 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 297246005076 FHIPEP family; Region: FHIPEP; pfam00771 297246005077 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 297246005078 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 297246005079 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 297246005080 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 297246005081 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 297246005082 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 297246005083 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 297246005084 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 297246005085 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 297246005086 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 297246005087 FAD binding domain; Region: FAD_binding_4; pfam01565 297246005088 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 297246005089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246005090 NAD(P) binding site [chemical binding]; other site 297246005091 active site 297246005092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246005093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246005094 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 297246005095 dimerization interface [polypeptide binding]; other site 297246005096 RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when...; Region: RhoGAP; cl02570 297246005097 GTPase interaction site; other site 297246005098 catalytic residue [active] 297246005099 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 297246005100 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 297246005101 motif 1; other site 297246005102 active site 297246005103 motif 2; other site 297246005104 motif 3; other site 297246005105 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 297246005106 recombination regulator RecX; Reviewed; Region: recX; PRK00117 297246005107 recombinase A; Provisional; Region: recA; PRK09354 297246005108 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 297246005109 hexamer interface [polypeptide binding]; other site 297246005110 Walker A motif; other site 297246005111 ATP binding site [chemical binding]; other site 297246005112 Walker B motif; other site 297246005113 Competence-damaged protein; Region: CinA; pfam02464 297246005114 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 297246005115 MutS domain I; Region: MutS_I; pfam01624 297246005116 MutS domain II; Region: MutS_II; pfam05188 297246005117 MutS domain III; Region: MutS_III; pfam05192 297246005118 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 297246005119 Walker A/P-loop; other site 297246005120 ATP binding site [chemical binding]; other site 297246005121 Q-loop/lid; other site 297246005122 ABC transporter signature motif; other site 297246005123 Walker B; other site 297246005124 D-loop; other site 297246005125 H-loop/switch region; other site 297246005126 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 297246005127 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 297246005128 Surface antigen; Region: Bac_surface_Ag; pfam01103 297246005129 Family of unknown function (DUF490); Region: DUF490; pfam04357 297246005130 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 297246005131 dimer interface [polypeptide binding]; other site 297246005132 active site 297246005133 Schiff base residues; other site 297246005134 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 297246005135 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional; Region: PRK08961 297246005136 AAK_AK-DapDC: Amino Acid Kinase Superfamily (AAK), AK-DapDC; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the bifunctional enzyme AK - DAP decarboxylase (DapDC) found in some bacteria. Aspartokinase is the first enzyme in the...; Region: AAK_AK-DapDC; cd04259 297246005137 putative catalytic residues [active] 297246005138 putative nucleotide binding site [chemical binding]; other site 297246005139 putative aspartate binding site [chemical binding]; other site 297246005140 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein; Region: ACT_AKiii-DAPDC_1; cd04935 297246005141 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC); Region: ACT_AKiii-DAPDC_2; cd04920 297246005142 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase; Region: PLPDE_III_Bif_AspK_DapDC; cd06840 297246005143 active site 297246005144 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 297246005145 substrate binding site [chemical binding]; other site 297246005146 catalytic residues [active] 297246005147 dimer interface [polypeptide binding]; other site 297246005148 Part of AAA domain; Region: AAA_19; pfam13245 297246005149 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 297246005150 Family description; Region: UvrD_C_2; pfam13538 297246005151 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 297246005152 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 297246005153 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 297246005154 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 297246005155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246005156 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 297246005157 dimerization interface [polypeptide binding]; other site 297246005158 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 297246005159 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246005160 putative substrate translocation pore; other site 297246005161 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 297246005162 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 297246005163 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 297246005164 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246005165 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 297246005166 Walker A/P-loop; other site 297246005167 ATP binding site [chemical binding]; other site 297246005168 Q-loop/lid; other site 297246005169 ABC transporter signature motif; other site 297246005170 Walker B; other site 297246005171 D-loop; other site 297246005172 H-loop/switch region; other site 297246005173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246005174 Coenzyme A binding pocket [chemical binding]; other site 297246005175 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 297246005176 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 297246005177 quinone interaction residues [chemical binding]; other site 297246005178 active site 297246005179 catalytic residues [active] 297246005180 FMN binding site [chemical binding]; other site 297246005181 substrate binding site [chemical binding]; other site 297246005182 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 297246005183 isovaleryl-CoA dehydrogenase; Region: PLN02519 297246005184 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 297246005185 substrate binding site [chemical binding]; other site 297246005186 FAD binding site [chemical binding]; other site 297246005187 catalytic base [active] 297246005188 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 297246005189 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 297246005190 dimer interface [polypeptide binding]; other site 297246005191 active site 297246005192 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 297246005193 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 297246005194 enoyl-CoA hydratase; Provisional; Region: PRK05995 297246005195 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 297246005196 substrate binding site [chemical binding]; other site 297246005197 oxyanion hole (OAH) forming residues; other site 297246005198 trimer interface [polypeptide binding]; other site 297246005199 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 297246005200 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 297246005201 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 297246005202 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 297246005203 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 297246005204 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 297246005205 carboxyltransferase (CT) interaction site; other site 297246005206 biotinylation site [posttranslational modification]; other site 297246005207 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 297246005208 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 297246005209 active site 297246005210 catalytic residues [active] 297246005211 metal binding site [ion binding]; metal-binding site 297246005212 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 297246005213 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 297246005214 acyl-activating enzyme (AAE) consensus motif; other site 297246005215 putative AMP binding site [chemical binding]; other site 297246005216 putative active site [active] 297246005217 putative CoA binding site [chemical binding]; other site 297246005218 VirK protein; Region: VirK; pfam06903 297246005219 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 297246005220 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 297246005221 Walker A/P-loop; other site 297246005222 ATP binding site [chemical binding]; other site 297246005223 Q-loop/lid; other site 297246005224 ABC transporter signature motif; other site 297246005225 Walker B; other site 297246005226 D-loop; other site 297246005227 H-loop/switch region; other site 297246005228 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 297246005229 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 297246005230 dimer interface [polypeptide binding]; other site 297246005231 conserved gate region; other site 297246005232 ABC-ATPase subunit interface; other site 297246005233 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 297246005234 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 297246005235 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 297246005236 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 297246005237 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 297246005238 active site 297246005239 motif I; other site 297246005240 motif II; other site 297246005241 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 297246005242 DALR anticodon binding domain; Region: DALR_1; pfam05746 297246005243 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 297246005244 dimer interface [polypeptide binding]; other site 297246005245 motif 1; other site 297246005246 active site 297246005247 motif 2; other site 297246005248 motif 3; other site 297246005249 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 297246005250 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 297246005251 catalytic residues [active] 297246005252 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 297246005253 Part of AAA domain; Region: AAA_19; pfam13245 297246005254 Family description; Region: UvrD_C_2; pfam13538 297246005255 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 297246005256 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 297246005257 putative active site [active] 297246005258 dimerization interface [polypeptide binding]; other site 297246005259 putative tRNAtyr binding site [nucleotide binding]; other site 297246005260 VacJ like lipoprotein; Region: VacJ; cl01073 297246005261 glutathione synthetase; Provisional; Region: PRK05246 297246005262 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 297246005263 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 297246005264 Glutamate-cysteine ligase; Region: GshA; pfam08886 297246005265 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 297246005266 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246005267 GIY-YIG motif/motif A; other site 297246005268 putative active site [active] 297246005269 putative metal binding site [ion binding]; other site 297246005270 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246005271 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 297246005272 EamA-like transporter family; Region: EamA; pfam00892 297246005273 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 297246005274 active site residue [active] 297246005275 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 297246005276 PglZ domain; Region: PglZ; pfam08665 297246005277 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 297246005278 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 297246005279 Sugar specificity; other site 297246005280 Pyrimidine base specificity; other site 297246005281 ATP-binding site [chemical binding]; other site 297246005282 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 297246005283 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 297246005284 NAD binding site [chemical binding]; other site 297246005285 homotetramer interface [polypeptide binding]; other site 297246005286 homodimer interface [polypeptide binding]; other site 297246005287 substrate binding site [chemical binding]; other site 297246005288 active site 297246005289 periplasmic folding chaperone; Provisional; Region: PRK10788 297246005290 SurA N-terminal domain; Region: SurA_N_3; cl07813 297246005291 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 297246005292 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 297246005293 IHF dimer interface [polypeptide binding]; other site 297246005294 IHF - DNA interface [nucleotide binding]; other site 297246005295 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 297246005296 Found in ATP-dependent protease La (LON); Region: LON; smart00464 297246005297 Found in ATP-dependent protease La (LON); Region: LON; smart00464 297246005298 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 297246005299 Walker A motif; other site 297246005300 ATP binding site [chemical binding]; other site 297246005301 Walker B motif; other site 297246005302 arginine finger; other site 297246005303 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 297246005304 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 297246005305 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 297246005306 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 297246005307 Walker A motif; other site 297246005308 ATP binding site [chemical binding]; other site 297246005309 Walker B motif; other site 297246005310 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 297246005311 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 297246005312 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 297246005313 oligomer interface [polypeptide binding]; other site 297246005314 active site residues [active] 297246005315 trigger factor; Provisional; Region: tig; PRK01490 297246005316 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 297246005317 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 297246005318 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 297246005319 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 297246005320 Int/Topo IB signature motif; other site 297246005321 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 297246005322 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246005323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246005324 ABC transporter; Region: ABC_tran_2; pfam12848 297246005325 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246005326 ribonuclease III; Reviewed; Region: rnc; PRK00102 297246005327 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 297246005328 dimerization interface [polypeptide binding]; other site 297246005329 active site 297246005330 metal binding site [ion binding]; metal-binding site 297246005331 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 297246005332 dsRNA binding site [nucleotide binding]; other site 297246005333 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 297246005334 signal peptidase I; Provisional; Region: PRK10861 297246005335 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 297246005336 Catalytic site [active] 297246005337 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 297246005338 GTP-binding protein LepA; Provisional; Region: PRK05433 297246005339 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 297246005340 G1 box; other site 297246005341 putative GEF interaction site [polypeptide binding]; other site 297246005342 GTP/Mg2+ binding site [chemical binding]; other site 297246005343 Switch I region; other site 297246005344 G2 box; other site 297246005345 G3 box; other site 297246005346 Switch II region; other site 297246005347 G4 box; other site 297246005348 G5 box; other site 297246005349 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 297246005350 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 297246005351 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 297246005352 Transglycosylase SLT domain; Region: SLT_2; pfam13406 297246005353 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 297246005354 N-acetyl-D-glucosamine binding site [chemical binding]; other site 297246005355 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 297246005356 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 297246005357 GspL periplasmic domain; Region: GspL_C; cl14909 297246005358 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 297246005359 Sporulation related domain; Region: SPOR; cl10051 297246005360 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 297246005361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 297246005362 Zn2+ binding site [ion binding]; other site 297246005363 Mg2+ binding site [ion binding]; other site 297246005364 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 297246005365 DNA repair protein RecN; Region: recN; TIGR00634 297246005366 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 297246005367 Trehalase; Region: Trehalase; cl17346 297246005368 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 297246005369 dimer interface [polypeptide binding]; other site 297246005370 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246005371 active site 297246005372 metal binding site [ion binding]; metal-binding site 297246005373 glutathione binding site [chemical binding]; other site 297246005374 hypothetical protein; Provisional; Region: PRK05208 297246005375 JNK_SAPK-associated protein-1; Region: Jnk-SapK_ap_N; pfam09744 297246005376 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 297246005377 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246005378 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246005379 GIY-YIG motif/motif A; other site 297246005380 putative active site [active] 297246005381 putative metal binding site [ion binding]; other site 297246005382 acylphosphatase; Provisional; Region: PRK14451 297246005383 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 297246005384 PLD-like domain; Region: PLDc_2; pfam13091 297246005385 putative active site [active] 297246005386 catalytic site [active] 297246005387 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 297246005388 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 297246005389 substrate binding pocket [chemical binding]; other site 297246005390 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 297246005391 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 297246005392 Leucine-rich repeats; other site 297246005393 Substrate binding site [chemical binding]; other site 297246005394 Leucine rich repeat; Region: LRR_8; pfam13855 297246005395 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 297246005396 D-galactonate transporter; Region: 2A0114; TIGR00893 297246005397 putative substrate translocation pore; other site 297246005398 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 297246005399 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 297246005400 putative ion selectivity filter; other site 297246005401 putative pore gating glutamate residue; other site 297246005402 Transposase domain (DUF772); Region: DUF772; pfam05598 297246005403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 297246005404 SEC-C motif; Region: SEC-C; pfam02810 297246005405 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 297246005406 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 297246005407 TrkA-N domain; Region: TrkA_N; pfam02254 297246005408 Similar to hypothetical protein;hypothetical protein 297246005409 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 297246005410 putative active site [active] 297246005411 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 297246005412 MoxR-like ATPases [General function prediction only]; Region: COG0714 297246005413 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 297246005414 Walker A motif; other site 297246005415 ATP binding site [chemical binding]; other site 297246005416 Walker B motif; other site 297246005417 arginine finger; other site 297246005418 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 297246005419 Protein of unknown function DUF58; Region: DUF58; pfam01882 297246005420 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 297246005421 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 297246005422 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 297246005423 Uncharacterized conserved protein [Function unknown]; Region: COG2850 297246005424 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246005425 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 297246005426 EamA-like transporter family; Region: EamA; pfam00892 297246005427 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 297246005428 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 297246005429 nucleotide binding site [chemical binding]; other site 297246005430 Protein of unknown function, DUF462; Region: DUF462; pfam04315 297246005431 glutathionine S-transferase; Provisional; Region: PRK10542 297246005432 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 297246005433 C-terminal domain interface [polypeptide binding]; other site 297246005434 GSH binding site (G-site) [chemical binding]; other site 297246005435 dimer interface [polypeptide binding]; other site 297246005436 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 297246005437 N-terminal domain interface [polypeptide binding]; other site 297246005438 dimer interface [polypeptide binding]; other site 297246005439 substrate binding pocket (H-site) [chemical binding]; other site 297246005440 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 297246005441 Beta-lactamase; Region: Beta-lactamase; pfam00144 297246005442 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 297246005443 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 297246005444 HIGH motif; other site 297246005445 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 297246005446 active site 297246005447 KMSKS motif; other site 297246005448 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 297246005449 HAMP domain; Region: HAMP; pfam00672 297246005450 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 297246005451 dimer interface [polypeptide binding]; other site 297246005452 phosphorylation site [posttranslational modification] 297246005453 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 297246005454 ATP binding site [chemical binding]; other site 297246005455 Mg2+ binding site [ion binding]; other site 297246005456 G-X-G motif; other site 297246005457 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 297246005458 active site 297246005459 phosphorylation site [posttranslational modification] 297246005460 intermolecular recognition site; other site 297246005461 dimerization interface [polypeptide binding]; other site 297246005462 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 297246005463 putative binding surface; other site 297246005464 active site 297246005465 6-phosphofructokinase; Provisional; Region: PRK14072 297246005466 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 297246005467 active site 297246005468 ADP/pyrophosphate binding site [chemical binding]; other site 297246005469 dimerization interface [polypeptide binding]; other site 297246005470 allosteric effector site; other site 297246005471 fructose-1,6-bisphosphate binding site; other site 297246005472 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 297246005473 Pilin (bacterial filament); Region: Pilin; pfam00114 297246005474 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 297246005475 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 297246005476 Pilin (bacterial filament); Region: Pilin; pfam00114 297246005477 BolA-like protein; Region: BolA; cl00386 297246005478 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 297246005479 Calcium-activated chloride channel; Region: Anoctamin; pfam04547 297246005480 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 297246005481 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 297246005482 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 297246005483 Ligand binding site; other site 297246005484 oligomer interface; other site 297246005485 Uncharacterized conserved protein [Function unknown]; Region: COG2835 297246005486 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 297246005487 Glycoprotease family; Region: Peptidase_M22; pfam00814 297246005488 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 297246005489 DEAD/DEAH box helicase; Region: DEAD; pfam00270 297246005490 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 297246005491 Ferredoxin [Energy production and conversion]; Region: COG1146 297246005492 4Fe-4S binding domain; Region: Fer4; cl02805 297246005493 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 297246005494 HipA-like N-terminal domain; Region: HipA_N; pfam07805 297246005495 PilZ domain; Region: PilZ; pfam07238 297246005496 oxidative damage protection protein; Provisional; Region: PRK05408 297246005497 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 297246005498 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005499 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005500 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005501 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005502 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005503 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005504 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005505 similar to N-terminal part of transposase (IS91 family);hypothetical protein 297246005506 hypothetical protein 297246005507 hypothetical protein 297246005508 Helix-turn-helix domain; Region: HTH_17; pfam12728 297246005509 AAA domain; Region: AAA_14; pfam13173 297246005510 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 297246005511 HipA N-terminal domain; Region: Couple_hipA; pfam13657 297246005512 HipA-like N-terminal domain; Region: HipA_N; pfam07805 297246005513 HipA-like C-terminal domain; Region: HipA_C; pfam07804 297246005514 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 297246005515 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 297246005516 non-specific DNA binding site [nucleotide binding]; other site 297246005517 salt bridge; other site 297246005518 sequence-specific DNA binding site [nucleotide binding]; other site 297246005519 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 297246005520 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 297246005521 S-adenosylmethionine binding site [chemical binding]; other site 297246005522 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 297246005523 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 297246005524 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 297246005525 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 297246005526 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 297246005527 active site 297246005528 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 297246005529 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 297246005530 acyl-activating enzyme (AAE) consensus motif; other site 297246005531 AMP binding site [chemical binding]; other site 297246005532 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 297246005533 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 297246005534 active site 297246005535 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 297246005536 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 297246005537 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 297246005538 Phosphopantetheine attachment site; Region: PP-binding; cl09936 297246005539 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 297246005540 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 297246005541 active site 297246005542 nucleophile elbow; other site 297246005543 Patatin phospholipase; Region: DUF3734; pfam12536 297246005544 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 297246005545 PAS fold; Region: PAS_4; pfam08448 297246005546 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 297246005547 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 297246005548 DNA binding residues [nucleotide binding] 297246005549 dimerization interface [polypeptide binding]; other site 297246005550 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor...; Region: Sec7; cd00171 297246005551 active site/putative ARF binding site [active] 297246005552 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 297246005553 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 297246005554 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 297246005555 active site 297246005556 metal binding site [ion binding]; metal-binding site 297246005557 DctM-like transporters; Region: DctM; pfam06808 297246005558 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 297246005559 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 297246005560 active site 297246005561 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 297246005562 Leucine-rich repeats; other site 297246005563 Substrate binding site [chemical binding]; other site 297246005564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246005565 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 297246005566 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246005567 GIY-YIG motif/motif A; other site 297246005568 putative active site [active] 297246005569 putative metal binding site [ion binding]; other site 297246005570 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246005571 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 297246005572 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 297246005573 active site 297246005574 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 297246005575 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 297246005576 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 297246005577 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 297246005578 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 297246005579 C-terminal domain interface [polypeptide binding]; other site 297246005580 GSH binding site (G-site) [chemical binding]; other site 297246005581 dimer interface [polypeptide binding]; other site 297246005582 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 297246005583 N-terminal domain interface [polypeptide binding]; other site 297246005584 dimer interface [polypeptide binding]; other site 297246005585 substrate binding pocket (H-site) [chemical binding]; other site 297246005586 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 297246005587 Legionella pneumophila major outer membrane protein precursor; Region: Legionella_OMP; pfam05150 297246005588 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 297246005589 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 297246005590 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 297246005591 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 297246005592 intracellular protease, PfpI family; Region: PfpI; TIGR01382 297246005593 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 297246005594 conserved cys residue [active] 297246005595 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 297246005596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 297246005597 TPR repeat; Region: TPR_11; pfam13414 297246005598 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 297246005599 binding surface 297246005600 TPR motif; other site 297246005601 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 297246005602 guanine deaminase; Provisional; Region: PRK09228 297246005603 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 297246005604 active site 297246005605 Toprim domain; Region: Toprim_3; pfam13362 297246005606 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 297246005607 catalytic core [active] 297246005608 RibD C-terminal domain; Region: RibD_C; cl17279 297246005609 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 297246005610 MAPEG family; Region: MAPEG; cl09190 297246005611 YhhN-like protein; Region: YhhN; pfam07947 297246005612 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 297246005613 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 297246005614 NodB motif; other site 297246005615 putative active site [active] 297246005616 putative catalytic site [active] 297246005617 putative Zn binding site [ion binding]; other site 297246005618 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 297246005619 MltA specific insert domain; Region: MltA; pfam03562 297246005620 3D domain; Region: 3D; pfam06725 297246005621 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 297246005622 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 297246005623 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 297246005624 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 297246005625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246005626 homodimer interface [polypeptide binding]; other site 297246005627 catalytic residue [active] 297246005628 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 297246005629 aromatic arch; other site 297246005630 DCoH dimer interaction site [polypeptide binding]; other site 297246005631 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 297246005632 DCoH tetramer interaction site [polypeptide binding]; other site 297246005633 substrate binding site [chemical binding]; other site 297246005634 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 297246005635 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 297246005636 Protein export membrane protein; Region: SecD_SecF; pfam02355 297246005637 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 297246005638 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 297246005639 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 297246005640 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 297246005641 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 297246005642 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 297246005643 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 297246005644 ABC transporter ATPase component; Reviewed; Region: PRK11147 297246005645 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246005646 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246005647 ABC transporter; Region: ABC_tran_2; pfam12848 297246005648 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 297246005649 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 297246005650 catalytic motif [active] 297246005651 Catalytic residue [active] 297246005652 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 297246005653 homotrimer interaction site [polypeptide binding]; other site 297246005654 putative active site [active] 297246005655 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 297246005656 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 297246005657 Zn2+ binding site [ion binding]; other site 297246005658 Mg2+ binding site [ion binding]; other site 297246005659 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 297246005660 synthetase active site [active] 297246005661 NTP binding site [chemical binding]; other site 297246005662 metal binding site [ion binding]; metal-binding site 297246005663 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 297246005664 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 297246005665 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 297246005666 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 297246005667 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 297246005668 catalytic site [active] 297246005669 G-X2-G-X-G-K; other site 297246005670 hypothetical protein; Provisional; Region: PRK11820 297246005671 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 297246005672 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 297246005673 ribonuclease PH; Reviewed; Region: rph; PRK00173 297246005674 Ribonuclease PH; Region: RNase_PH_bact; cd11362 297246005675 hexamer interface [polypeptide binding]; other site 297246005676 active site 297246005677 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 297246005678 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 297246005679 Walker A motif; other site 297246005680 ATP binding site [chemical binding]; other site 297246005681 Walker B motif; other site 297246005682 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 297246005683 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 297246005684 catalytic residue [active] 297246005685 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 297246005686 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 297246005687 YGGT family; Region: YGGT; pfam02325 297246005688 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 297246005689 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 297246005690 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 297246005691 active site 297246005692 catalytic residues [active] 297246005693 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 297246005694 Helix-turn-helix domain; Region: HTH_18; pfam12833 297246005695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 297246005696 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 297246005697 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 297246005698 homotetramer interface [polypeptide binding]; other site 297246005699 ligand binding site [chemical binding]; other site 297246005700 catalytic site [active] 297246005701 NAD binding site [chemical binding]; other site 297246005702 S-adenosylmethionine synthetase; Validated; Region: PRK05250 297246005703 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 297246005704 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 297246005705 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 297246005706 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 297246005707 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 297246005708 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 297246005709 catalytic site [active] 297246005710 subunit interface [polypeptide binding]; other site 297246005711 chaperone protein DnaJ; Provisional; Region: PRK10767 297246005712 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 297246005713 HSP70 interaction site [polypeptide binding]; other site 297246005714 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 297246005715 substrate binding site [polypeptide binding]; other site 297246005716 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 297246005717 Zn binding sites [ion binding]; other site 297246005718 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 297246005719 dimer interface [polypeptide binding]; other site 297246005720 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 297246005721 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 297246005722 nucleotide binding site [chemical binding]; other site 297246005723 GrpE; Region: GrpE; pfam01025 297246005724 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 297246005725 dimer interface [polypeptide binding]; other site 297246005726 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 297246005727 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 297246005728 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 297246005729 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 297246005730 substrate binding site [chemical binding]; other site 297246005731 active site 297246005732 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 297246005733 homooctamer interface [polypeptide binding]; other site 297246005734 active site 297246005735 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 297246005736 Sporulation related domain; Region: SPOR; pfam05036 297246005737 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 297246005738 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 297246005739 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 297246005740 active site 297246005741 HIGH motif; other site 297246005742 nucleotide binding site [chemical binding]; other site 297246005743 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 297246005744 KMSK motif region; other site 297246005745 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 297246005746 tRNA binding surface [nucleotide binding]; other site 297246005747 anticodon binding site; other site 297246005748 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 297246005749 Domain of unknown function DUF20; Region: UPF0118; pfam01594 297246005750 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 297246005751 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 297246005752 generic binding surface II; other site 297246005753 ssDNA binding site; other site 297246005754 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 297246005755 ATP binding site [chemical binding]; other site 297246005756 putative Mg++ binding site [ion binding]; other site 297246005757 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 297246005758 nucleotide binding region [chemical binding]; other site 297246005759 ATP-binding site [chemical binding]; other site 297246005760 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 297246005761 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 297246005762 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 297246005763 ZIP Zinc transporter; Region: Zip; pfam02535 297246005764 Maf-like protein; Region: Maf; pfam02545 297246005765 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 297246005766 active site 297246005767 dimer interface [polypeptide binding]; other site 297246005768 enolase; Provisional; Region: eno; PRK00077 297246005769 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 297246005770 dimer interface [polypeptide binding]; other site 297246005771 metal binding site [ion binding]; metal-binding site 297246005772 substrate binding pocket [chemical binding]; other site 297246005773 Septum formation initiator; Region: DivIC; cl17659 297246005774 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 297246005775 mevalonate kinase; Region: mevalon_kin; TIGR00549 297246005776 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 297246005777 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 297246005778 diphosphomevalonate decarboxylase; Region: PLN02407 297246005779 diphosphomevalonate decarboxylase; Region: PLN02407 297246005780 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 297246005781 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 297246005782 FeS/SAM binding site; other site 297246005783 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 297246005784 binding surface 297246005785 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 297246005786 TPR motif; other site 297246005787 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 297246005788 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 297246005789 ligand binding site [chemical binding]; other site 297246005790 Protein of unknown function (DUF330); Region: DUF330; cl01135 297246005791 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 297246005792 mce related protein; Region: MCE; pfam02470 297246005793 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 297246005794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246005795 Walker A/P-loop; other site 297246005796 ATP binding site [chemical binding]; other site 297246005797 Q-loop/lid; other site 297246005798 ABC transporter signature motif; other site 297246005799 Walker B; other site 297246005800 D-loop; other site 297246005801 H-loop/switch region; other site 297246005802 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 297246005803 Permease; Region: Permease; pfam02405 297246005804 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 297246005805 active site 297246005806 ATP binding site [chemical binding]; other site 297246005807 substrate binding site [chemical binding]; other site 297246005808 activation loop (A-loop); other site 297246005809 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 297246005810 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 297246005811 homotetramer interface [polypeptide binding]; other site 297246005812 FMN binding site [chemical binding]; other site 297246005813 homodimer contacts [polypeptide binding]; other site 297246005814 putative active site [active] 297246005815 putative substrate binding site [chemical binding]; other site 297246005816 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 297246005817 homodimer interface [polypeptide binding]; other site 297246005818 catalytic residues [active] 297246005819 NAD binding site [chemical binding]; other site 297246005820 substrate binding pocket [chemical binding]; other site 297246005821 flexible flap; other site 297246005822 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 297246005823 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 297246005824 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246005825 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 297246005826 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 297246005827 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 297246005828 Similar to transposase (ISL3 family);hypothetical protein 297246005829 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 297246005830 DNA-binding site [nucleotide binding]; DNA binding site 297246005831 RNA-binding motif; other site 297246005832 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 297246005833 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 297246005834 ATP binding site [chemical binding]; other site 297246005835 Mg++ binding site [ion binding]; other site 297246005836 motif III; other site 297246005837 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 297246005838 nucleotide binding region [chemical binding]; other site 297246005839 ATP-binding site [chemical binding]; other site 297246005840 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 297246005841 putative RNA binding site [nucleotide binding]; other site 297246005842 Cation efflux family; Region: Cation_efflux; cl00316 297246005843 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 297246005844 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 297246005845 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246005846 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 297246005847 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 297246005848 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 297246005849 Similar to transposase (IS5 family);hypothetical protein 297246005850 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246005851 GIY-YIG motif/motif A; other site 297246005852 putative active site [active] 297246005853 putative metal binding site [ion binding]; other site 297246005854 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246005855 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 297246005856 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246005857 GIY-YIG motif/motif A; other site 297246005858 putative active site [active] 297246005859 putative metal binding site [ion binding]; other site 297246005860 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246005861 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 297246005862 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246005863 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005864 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005865 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005866 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246005867 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005868 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005869 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246005871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246005872 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 297246005873 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246005874 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005875 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005876 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005877 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005878 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005879 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246005880 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005881 Dot/Icm substrate protein; Region: SidE; pfam12252 297246005882 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 297246005883 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 297246005884 ligand binding site [chemical binding]; other site 297246005885 K+ potassium transporter; Region: K_trans; pfam02705 297246005886 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005887 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246005888 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 297246005889 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246005890 PAS domain S-box; Region: sensory_box; TIGR00229 297246005891 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 297246005892 putative active site [active] 297246005893 heme pocket [chemical binding]; other site 297246005894 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246005895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246005896 metal binding site [ion binding]; metal-binding site 297246005897 active site 297246005898 I-site; other site 297246005899 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 297246005900 metabolite-proton symporter; Region: 2A0106; TIGR00883 297246005901 putative substrate translocation pore; other site 297246005902 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 297246005903 Protein export membrane protein; Region: SecD_SecF; cl14618 297246005904 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 297246005905 carboxyltransferase (CT) interaction site; other site 297246005906 biotinylation site [posttranslational modification]; other site 297246005907 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246005908 Outer membrane efflux protein; Region: OEP; pfam02321 297246005909 Outer membrane efflux protein; Region: OEP; pfam02321 297246005910 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 297246005911 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 297246005912 active site 297246005913 ATP binding site [chemical binding]; other site 297246005914 substrate binding site [chemical binding]; other site 297246005915 activation loop (A-loop); other site 297246005916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246005917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246005918 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 297246005919 dimerization interface [polypeptide binding]; other site 297246005920 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 297246005921 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 297246005922 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 297246005923 Predicted transcriptional regulators [Transcription]; Region: COG1733 297246005924 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 297246005925 classical (c) SDRs; Region: SDR_c; cd05233 297246005926 NAD(P) binding site [chemical binding]; other site 297246005927 active site 297246005928 F-box-like; Region: F-box-like; pfam12937 297246005929 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 297246005930 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246005931 Response regulator receiver domain; Region: Response_reg; pfam00072 297246005932 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 297246005933 active site 297246005934 phosphorylation site [posttranslational modification] 297246005935 intermolecular recognition site; other site 297246005936 dimerization interface [polypeptide binding]; other site 297246005937 PAS domain; Region: PAS; smart00091 297246005938 PAS fold; Region: PAS_4; pfam08448 297246005939 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 297246005940 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 297246005941 dimer interface [polypeptide binding]; other site 297246005942 phosphorylation site [posttranslational modification] 297246005943 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 297246005944 ATP binding site [chemical binding]; other site 297246005945 Mg2+ binding site [ion binding]; other site 297246005946 G-X-G motif; other site 297246005947 Response regulator receiver domain; Region: Response_reg; pfam00072 297246005948 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 297246005949 active site 297246005950 phosphorylation site [posttranslational modification] 297246005951 intermolecular recognition site; other site 297246005952 dimerization interface [polypeptide binding]; other site 297246005953 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 297246005954 dimer interface [polypeptide binding]; other site 297246005955 phosphorylation site [posttranslational modification] 297246005956 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 297246005957 ATP binding site [chemical binding]; other site 297246005958 Mg2+ binding site [ion binding]; other site 297246005959 G-X-G motif; other site 297246005960 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 297246005961 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 297246005962 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 297246005963 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246005964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246005965 Walker A/P-loop; other site 297246005966 ATP binding site [chemical binding]; other site 297246005967 Q-loop/lid; other site 297246005968 ABC transporter signature motif; other site 297246005969 Walker B; other site 297246005970 D-loop; other site 297246005971 H-loop/switch region; other site 297246005972 Dot/Icm substrate protein; Region: SidE; pfam12252 297246005973 Dot/Icm substrate protein; Region: SidE; pfam12252 297246005974 Dot/Icm substrate protein; Region: SidE; pfam12252 297246005975 Dot/Icm substrate protein; Region: SidE; pfam12252 297246005976 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 297246005977 S-adenosylmethionine binding site [chemical binding]; other site 297246005978 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 297246005979 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 297246005980 S-adenosylmethionine binding site [chemical binding]; other site 297246005981 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 297246005982 Predicted transcriptional regulator [Transcription]; Region: COG2378 297246005983 HTH domain; Region: HTH_11; pfam08279 297246005984 WYL domain; Region: WYL; pfam13280 297246005985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 297246005986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246005987 Coenzyme A binding pocket [chemical binding]; other site 297246005988 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_11; cd07261 297246005989 putative dimer interface [polypeptide binding]; other site 297246005990 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246005991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246005992 Coenzyme A binding pocket [chemical binding]; other site 297246005993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246005994 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 297246005995 Coenzyme A binding pocket [chemical binding]; other site 297246005996 S-adenosylhomocysteine hydrolase [Coenzyme metabolism]; Region: SAM1; COG0499 297246005997 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 297246005998 NAD binding site [chemical binding]; other site 297246005999 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 297246006000 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 297246006001 non-specific DNA binding site [nucleotide binding]; other site 297246006002 salt bridge; other site 297246006003 sequence-specific DNA binding site [nucleotide binding]; other site 297246006004 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 297246006005 active site 297246006006 metal binding site [ion binding]; metal-binding site 297246006007 interdomain interaction site; other site 297246006008 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 297246006009 Walker A motif; other site 297246006010 ATP binding site [chemical binding]; other site 297246006011 AAA domain; Region: AAA_25; pfam13481 297246006012 Walker B motif; other site 297246006013 Helix-turn-helix domain; Region: HTH_39; pfam14090 297246006014 integrase; Provisional; Region: int; PHA02601 297246006015 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 297246006016 active site 297246006017 DNA binding site [nucleotide binding] 297246006018 Int/Topo IB signature motif; other site 297246006019 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 297246006020 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 297246006021 active site 297246006022 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 297246006023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246006024 catalytic residue [active] 297246006025 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246006026 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246006027 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246006028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 297246006029 N-terminal formyl transferase catalytic core domain of NRPS_like proteins, one of the proteins involved in the synthesis of Oxazolomycin; Region: FMT_core_NRPS_like; cd08649 297246006030 putative active site [active] 297246006031 putative substrate binding site [chemical binding]; other site 297246006032 putative cosubstrate binding site; other site 297246006033 catalytic site [active] 297246006034 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 297246006035 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 297246006036 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 297246006037 acyl-activating enzyme (AAE) consensus motif; other site 297246006038 AMP binding site [chemical binding]; other site 297246006039 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 297246006040 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 297246006041 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 297246006042 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 297246006043 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 297246006044 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 297246006045 dimer interface [polypeptide binding]; other site 297246006046 phosphorylation site [posttranslational modification] 297246006047 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 297246006048 ATP binding site [chemical binding]; other site 297246006049 Mg2+ binding site [ion binding]; other site 297246006050 G-X-G motif; other site 297246006051 Response regulator receiver domain; Region: Response_reg; pfam00072 297246006052 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 297246006053 active site 297246006054 phosphorylation site [posttranslational modification] 297246006055 intermolecular recognition site; other site 297246006056 dimerization interface [polypeptide binding]; other site 297246006057 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 297246006058 putative binding surface; other site 297246006059 active site 297246006060 PAS fold; Region: PAS_4; pfam08448 297246006061 Response regulator receiver domain; Region: Response_reg; pfam00072 297246006062 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 297246006063 active site 297246006064 phosphorylation site [posttranslational modification] 297246006065 intermolecular recognition site; other site 297246006066 dimerization interface [polypeptide binding]; other site 297246006067 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 297246006068 Methyltransferase domain; Region: Methyltransf_31; pfam13847 297246006069 S-adenosylmethionine binding site [chemical binding]; other site 297246006070 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 297246006071 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 297246006072 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 297246006073 active site 297246006074 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 297246006075 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 297246006076 active site 297246006077 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 297246006078 KR domain; Region: KR; pfam08659 297246006079 NADP binding site [chemical binding]; other site 297246006080 active site 297246006081 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 297246006082 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 297246006083 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 297246006084 active site 297246006085 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 297246006086 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 297246006087 KR domain; Region: KR; pfam08659 297246006088 putative NADP binding site [chemical binding]; other site 297246006089 active site 297246006090 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 297246006091 Condensation domain; Region: Condensation; pfam00668 297246006092 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 297246006093 Peptidase C80 family; Region: Peptidase_C80; pfam11713 297246006094 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246006095 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246006096 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 297246006097 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 297246006098 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 297246006099 putative dimer interface [polypeptide binding]; other site 297246006100 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 297246006101 Sulfate transporter family; Region: Sulfate_transp; pfam00916 297246006102 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_cladeC; cd03378 297246006103 active site clefts [active] 297246006104 zinc binding site [ion binding]; other site 297246006105 dimer interface [polypeptide binding]; other site 297246006106 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 297246006107 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 297246006108 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 297246006109 SnoaL-like domain; Region: SnoaL_3; pfam13474 297246006110 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246006111 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 297246006112 S-adenosylmethionine binding site [chemical binding]; other site 297246006113 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 297246006114 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 297246006115 putative substrate translocation pore; other site 297246006116 POT family; Region: PTR2; cl17359 297246006117 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 297246006118 hypothetical protein; Reviewed; Region: PRK09588 297246006119 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 297246006120 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 297246006121 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 297246006122 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 297246006123 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 297246006124 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 297246006125 putative NAD(P) binding site [chemical binding]; other site 297246006126 dimer interface [polypeptide binding]; other site 297246006127 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 297246006128 substrate binding site [chemical binding]; other site 297246006129 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 297246006130 YARHG domain; Region: YARHG; pfam13308 297246006131 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 297246006132 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 297246006133 active site 297246006134 metal binding site [ion binding]; metal-binding site 297246006135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246006136 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 297246006137 NAD(P) binding site [chemical binding]; other site 297246006138 active site 297246006139 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246006140 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246006141 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 297246006142 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 297246006143 nudix motif; other site 297246006144 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 297246006145 active site 297246006146 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 297246006147 iron-sulfur cluster [ion binding]; other site 297246006148 [2Fe-2S] cluster binding site [ion binding]; other site 297246006149 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 297246006150 hydrophobic ligand binding site; other site 297246006151 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 297246006152 putative trimer interface [polypeptide binding]; other site 297246006153 putative CoA binding site [chemical binding]; other site 297246006154 Sel1 repeat; Region: Sel1; pfam08238 297246006155 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246006156 Sel1-like repeats; Region: SEL1; smart00671 297246006157 Sel1 repeat; Region: Sel1; pfam08238 297246006158 Sel1-like repeats; Region: SEL1; smart00671 297246006159 Sel1-like repeats; Region: SEL1; smart00671 297246006160 Sel1-like repeats; Region: SEL1; smart00671 297246006161 GH3 auxin-responsive promoter; Region: GH3; pfam03321 297246006162 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 297246006163 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 297246006164 active site 297246006165 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 297246006166 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 297246006167 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 297246006168 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 297246006169 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 297246006170 active site 297246006171 acyl-CoA synthetase; Validated; Region: PRK05850 297246006172 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 297246006173 acyl-activating enzyme (AAE) consensus motif; other site 297246006174 active site 297246006175 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 297246006176 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 297246006177 acyl-activating enzyme (AAE) consensus motif; other site 297246006178 AMP binding site [chemical binding]; other site 297246006179 active site 297246006180 CoA binding site [chemical binding]; other site 297246006181 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 297246006182 classical (c) SDRs; Region: SDR_c; cd05233 297246006183 NAD(P) binding site [chemical binding]; other site 297246006184 active site 297246006185 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 297246006186 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 297246006187 dimer interface [polypeptide binding]; other site 297246006188 active site 297246006189 CoA binding pocket [chemical binding]; other site 297246006190 Phosphopantetheine attachment site; Region: PP-binding; cl09936 297246006191 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 297246006192 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 297246006193 putative substrate translocation pore; other site 297246006194 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 297246006195 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 297246006196 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 297246006197 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 297246006198 Binuclear center (active site) [active] 297246006199 K-pathway; other site 297246006200 Putative proton exit pathway; other site 297246006201 Putative water exit pathway; other site 297246006202 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 297246006203 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 297246006204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246006205 Walker A/P-loop; other site 297246006206 ATP binding site [chemical binding]; other site 297246006207 Q-loop/lid; other site 297246006208 ABC transporter signature motif; other site 297246006209 Walker B; other site 297246006210 D-loop; other site 297246006211 H-loop/switch region; other site 297246006212 MAPEG family; Region: MAPEG; cl09190 297246006213 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246006214 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 297246006215 hypothetical protein; Validated; Region: PRK07198 297246006216 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 297246006217 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 297246006218 dimerization interface [polypeptide binding]; other site 297246006219 active site 297246006220 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 297246006221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246006222 active site 297246006223 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 297246006224 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 297246006225 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 297246006226 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 297246006227 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 297246006228 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 297246006229 catalytic triad [active] 297246006230 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 297246006231 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 297246006232 putative active site [active] 297246006233 metal binding site [ion binding]; metal-binding site 297246006234 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 297246006235 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 297246006236 NAD(P) binding site [chemical binding]; other site 297246006237 catalytic residues [active] 297246006238 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 297246006239 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 297246006240 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 297246006241 hypothetical protein; Provisional; Region: PRK05409 297246006242 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 297246006243 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 297246006244 Beta-Casp domain; Region: Beta-Casp; pfam10996 297246006245 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 297246006246 BON domain; Region: BON; pfam04972 297246006247 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 297246006248 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 297246006249 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 297246006250 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 297246006251 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 297246006252 dimer interaction site [polypeptide binding]; other site 297246006253 substrate-binding tunnel; other site 297246006254 active site 297246006255 catalytic site [active] 297246006256 substrate binding site [chemical binding]; other site 297246006257 phosphate acetyltransferase; Provisional; Region: PRK11890 297246006258 propionate/acetate kinase; Provisional; Region: PRK12379 297246006259 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 297246006260 nucleotide binding site [chemical binding]; other site 297246006261 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 297246006262 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 297246006263 HSP70 interaction site [polypeptide binding]; other site 297246006264 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 297246006265 substrate binding site [polypeptide binding]; other site 297246006266 dimer interface [polypeptide binding]; other site 297246006267 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 297246006268 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 297246006269 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 297246006270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 297246006271 putative acyl-acceptor binding pocket; other site 297246006272 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 297246006273 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 297246006274 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 297246006275 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 297246006276 active site 297246006277 probable DNA repair protein; Region: TIGR03623 297246006278 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 297246006279 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 297246006280 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 297246006281 putative NAD(P) binding site [chemical binding]; other site 297246006282 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 297246006283 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 297246006284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 297246006285 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 297246006286 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 297246006287 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 297246006288 putative active site [active] 297246006289 catalytic site [active] 297246006290 putative metal binding site [ion binding]; other site 297246006291 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 297246006292 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 297246006293 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 297246006294 NAD binding site [chemical binding]; other site 297246006295 Phe binding site; other site 297246006296 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 297246006297 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 297246006298 S-adenosylmethionine binding site [chemical binding]; other site 297246006299 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 297246006300 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 297246006301 dimer interface [polypeptide binding]; other site 297246006302 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 297246006303 active site 297246006304 Fe binding site [ion binding]; other site 297246006305 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 297246006306 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 297246006307 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 297246006308 maleylacetoacetate isomerase; Region: maiA; TIGR01262 297246006309 C-terminal domain interface [polypeptide binding]; other site 297246006310 GSH binding site (G-site) [chemical binding]; other site 297246006311 putative dimer interface [polypeptide binding]; other site 297246006312 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 297246006313 dimer interface [polypeptide binding]; other site 297246006314 N-terminal domain interface [polypeptide binding]; other site 297246006315 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 297246006316 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 297246006317 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 297246006318 putative dimer interface [polypeptide binding]; other site 297246006319 putative anticodon binding site; other site 297246006320 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 297246006321 homodimer interface [polypeptide binding]; other site 297246006322 motif 1; other site 297246006323 motif 2; other site 297246006324 active site 297246006325 motif 3; other site 297246006326 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 297246006327 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 297246006328 Walker A/P-loop; other site 297246006329 ATP binding site [chemical binding]; other site 297246006330 Q-loop/lid; other site 297246006331 ABC transporter signature motif; other site 297246006332 Walker B; other site 297246006333 D-loop; other site 297246006334 H-loop/switch region; other site 297246006335 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 297246006336 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 297246006337 FtsX-like permease family; Region: FtsX; pfam02687 297246006338 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 297246006339 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 297246006340 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 297246006341 motif II; other site 297246006342 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 297246006343 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 297246006344 RNA binding surface [nucleotide binding]; other site 297246006345 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 297246006346 active site 297246006347 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 297246006348 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 297246006349 homodimer interface [polypeptide binding]; other site 297246006350 oligonucleotide binding site [chemical binding]; other site 297246006351 Similar to transposase (IS4 family);hypothetical protein 297246006352 Similar to transposase (IS4 family);hypothetical protein 297246006353 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 297246006354 ATP-dependent helicase HepA; Validated; Region: PRK04914 297246006355 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 297246006356 ATP binding site [chemical binding]; other site 297246006357 putative Mg++ binding site [ion binding]; other site 297246006358 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 297246006359 nucleotide binding region [chemical binding]; other site 297246006360 ATP-binding site [chemical binding]; other site 297246006361 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246006362 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 297246006363 Smr domain; Region: Smr; pfam01713 297246006364 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 297246006365 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 297246006366 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 297246006367 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 297246006368 Tetramer interface [polypeptide binding]; other site 297246006369 active site 297246006370 FMN-binding site [chemical binding]; other site 297246006371 HemK family putative methylases; Region: hemK_fam; TIGR00536 297246006372 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 297246006373 S-adenosylmethionine binding site [chemical binding]; other site 297246006374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 297246006375 Smr domain; Region: Smr; pfam01713 297246006376 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 297246006377 active site residue [active] 297246006378 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 297246006379 GSH binding site [chemical binding]; other site 297246006380 catalytic residues [active] 297246006381 preprotein translocase subunit SecB; Validated; Region: PRK05751 297246006382 SecA binding site; other site 297246006383 Preprotein binding site; other site 297246006384 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 297246006385 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 297246006386 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 297246006387 glutamate racemase; Provisional; Region: PRK00865 297246006388 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 297246006389 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 297246006390 dihydrodipicolinate synthase; Region: dapA; TIGR00674 297246006391 dimer interface [polypeptide binding]; other site 297246006392 active site 297246006393 catalytic residue [active] 297246006394 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 297246006395 classical (c) SDRs; Region: SDR_c; cd05233 297246006396 NAD(P) binding site [chemical binding]; other site 297246006397 active site 297246006398 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 297246006399 nucleophile elbow; other site 297246006400 Patatin phospholipase; Region: DUF3734; pfam12536 297246006401 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 297246006402 flagellar motor protein MotA; Validated; Region: PRK09110 297246006403 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 297246006404 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 297246006405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 297246006406 ligand binding site [chemical binding]; other site 297246006407 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 297246006408 serine transporter; Region: stp; TIGR00814 297246006409 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 297246006410 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246006411 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 297246006412 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 297246006413 ATP binding site [chemical binding]; other site 297246006414 Walker B motif; other site 297246006415 sugar 1,4-lactone oxidases; Region: FAD_lactone_ox; TIGR01678 297246006416 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 297246006417 DNA repair protein RadA; Provisional; Region: PRK11823 297246006418 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 297246006419 Walker A motif; other site 297246006420 ATP binding site [chemical binding]; other site 297246006421 Walker B motif; other site 297246006422 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 297246006423 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 297246006424 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 297246006425 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 297246006426 substrate binding pocket [chemical binding]; other site 297246006427 chain length determination region; other site 297246006428 substrate-Mg2+ binding site; other site 297246006429 catalytic residues [active] 297246006430 aspartate-rich region 1; other site 297246006431 active site lid residues [active] 297246006432 aspartate-rich region 2; other site 297246006433 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 297246006434 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 297246006435 S-adenosylmethionine binding site [chemical binding]; other site 297246006436 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 297246006437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246006438 active site 297246006439 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 297246006440 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 297246006441 active site 297246006442 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 297246006443 protein binding site [polypeptide binding]; other site 297246006444 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 297246006445 putative substrate binding region [chemical binding]; other site 297246006446 GrpE; Region: GrpE; pfam01025 297246006447 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 297246006448 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 297246006449 tRNA; other site 297246006450 putative tRNA binding site [nucleotide binding]; other site 297246006451 putative NADP binding site [chemical binding]; other site 297246006452 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 297246006453 peptide chain release factor 1; Validated; Region: prfA; PRK00591 297246006454 This domain is found in peptide chain release factors; Region: PCRF; smart00937 297246006455 RF-1 domain; Region: RF-1; pfam00472 297246006456 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 297246006457 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 297246006458 S-adenosylmethionine binding site [chemical binding]; other site 297246006459 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 297246006460 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246006461 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 297246006462 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 297246006463 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 297246006464 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 297246006465 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 297246006466 putative metal binding site [ion binding]; other site 297246006467 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 297246006468 HSP70 interaction site [polypeptide binding]; other site 297246006469 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 297246006470 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 297246006471 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 297246006472 active site 297246006473 catalytic triad [active] 297246006474 oxyanion hole [active] 297246006475 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 297246006476 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 297246006477 ATP binding site [chemical binding]; other site 297246006478 Mg++ binding site [ion binding]; other site 297246006479 motif III; other site 297246006480 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 297246006481 nucleotide binding region [chemical binding]; other site 297246006482 ATP-binding site [chemical binding]; other site 297246006483 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 297246006484 putative RNA binding site [nucleotide binding]; other site 297246006485 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 297246006486 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 297246006487 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 297246006488 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 297246006489 active site 297246006490 FMN binding site [chemical binding]; other site 297246006491 2,4-decadienoyl-CoA binding site; other site 297246006492 catalytic residue [active] 297246006493 4Fe-4S cluster binding site [ion binding]; other site 297246006494 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 297246006495 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 297246006496 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 297246006497 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 297246006498 E-class dimer interface [polypeptide binding]; other site 297246006499 P-class dimer interface [polypeptide binding]; other site 297246006500 active site 297246006501 Cu2+ binding site [ion binding]; other site 297246006502 Zn2+ binding site [ion binding]; other site 297246006503 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 297246006504 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 297246006505 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 297246006506 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 297246006507 dimer interface [polypeptide binding]; other site 297246006508 decamer (pentamer of dimers) interface [polypeptide binding]; other site 297246006509 catalytic triad [active] 297246006510 peroxidatic and resolving cysteines [active] 297246006511 malate dehydrogenase; Provisional; Region: PRK05442 297246006512 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 297246006513 NAD(P) binding site [chemical binding]; other site 297246006514 dimer interface [polypeptide binding]; other site 297246006515 malate binding site [chemical binding]; other site 297246006516 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 297246006517 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 297246006518 dimer interface [polypeptide binding]; other site 297246006519 ADP-ribose binding site [chemical binding]; other site 297246006520 active site 297246006521 nudix motif; other site 297246006522 metal binding site [ion binding]; metal-binding site 297246006523 HemN family oxidoreductase; Provisional; Region: PRK05660 297246006524 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 297246006525 FeS/SAM binding site; other site 297246006526 HemN C-terminal domain; Region: HemN_C; pfam06969 297246006527 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 297246006528 Amidase; Region: Amidase; pfam01425 297246006529 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 297246006530 UGMP family protein; Validated; Region: PRK09604 297246006531 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 297246006532 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 297246006533 Yqey-like protein; Region: YqeY; pfam09424 297246006534 DNA primase; Validated; Region: dnaG; PRK05667 297246006535 CHC2 zinc finger; Region: zf-CHC2; pfam01807 297246006536 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 297246006537 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 297246006538 active site 297246006539 metal binding site [ion binding]; metal-binding site 297246006540 interdomain interaction site; other site 297246006541 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 297246006542 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 297246006543 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 297246006544 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 297246006545 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 297246006546 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 297246006547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 297246006548 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 297246006549 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 297246006550 DNA binding residues [nucleotide binding] 297246006551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 297246006552 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246006553 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 297246006554 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 297246006555 active site 297246006556 DNA binding site [nucleotide binding] 297246006557 Int/Topo IB signature motif; other site 297246006558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246006559 Coenzyme A binding pocket [chemical binding]; other site 297246006560 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 297246006561 metabolite-proton symporter; Region: 2A0106; TIGR00883 297246006562 putative substrate translocation pore; other site 297246006563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246006564 Coenzyme A binding pocket [chemical binding]; other site 297246006565 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 297246006566 Serine hydrolase; Region: Ser_hydrolase; cl17834 297246006567 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 297246006568 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 297246006569 DNA binding residues [nucleotide binding] 297246006570 dimerization interface [polypeptide binding]; other site 297246006571 Methyltransferase domain; Region: Methyltransf_18; pfam12847 297246006572 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 297246006573 DNA-binding site [nucleotide binding]; DNA binding site 297246006574 RNA-binding motif; other site 297246006575 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 297246006576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246006577 NAD(P) binding site [chemical binding]; other site 297246006578 active site 297246006579 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 297246006580 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 297246006581 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 297246006582 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246006583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246006584 metal binding site [ion binding]; metal-binding site 297246006585 active site 297246006586 I-site; other site 297246006587 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 297246006588 Heme NO binding; Region: HNOB; pfam07700 297246006589 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 297246006590 non-specific DNA binding site [nucleotide binding]; other site 297246006591 salt bridge; other site 297246006592 sequence-specific DNA binding site [nucleotide binding]; other site 297246006593 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 297246006594 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 297246006595 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 297246006596 alpha subunit interaction interface [polypeptide binding]; other site 297246006597 Walker A motif; other site 297246006598 ATP binding site [chemical binding]; other site 297246006599 Walker B motif; other site 297246006600 inhibitor binding site; inhibition site 297246006601 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 297246006602 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 297246006603 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cl10033 297246006604 gamma subunit interface [polypeptide binding]; other site 297246006605 epsilon subunit interface [polypeptide binding]; other site 297246006606 LBP interface [polypeptide binding]; other site 297246006607 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 297246006608 F0F1 ATP synthase subunit A; Provisional; Region: PRK13420 297246006609 ATP synthase subunit C; Region: ATP-synt_C; cl00466 297246006610 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 297246006611 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 297246006612 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 297246006613 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 297246006614 Walker A motif; other site 297246006615 ATP binding site [chemical binding]; other site 297246006616 Walker B motif; other site 297246006617 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 297246006618 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 297246006619 core domain interface [polypeptide binding]; other site 297246006620 epsilon subunit interface [polypeptide binding]; other site 297246006621 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 297246006622 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 297246006623 FAD binding pocket [chemical binding]; other site 297246006624 FAD binding motif [chemical binding]; other site 297246006625 phosphate binding motif [ion binding]; other site 297246006626 beta-alpha-beta structure motif; other site 297246006627 NAD binding pocket [chemical binding]; other site 297246006628 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 297246006629 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 297246006630 catalytic loop [active] 297246006631 iron binding site [ion binding]; other site 297246006632 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 297246006633 heme-binding residues [chemical binding]; other site 297246006634 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 297246006635 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 297246006636 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 297246006637 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 297246006638 NAD(P) binding site [chemical binding]; other site 297246006639 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 297246006640 Multicopper oxidase; Region: Cu-oxidase; pfam00394 297246006641 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 297246006642 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 297246006643 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 297246006644 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 297246006645 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 297246006646 Protein export membrane protein; Region: SecD_SecF; cl14618 297246006647 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 297246006648 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 297246006649 carboxyltransferase (CT) interaction site; other site 297246006650 biotinylation site [posttranslational modification]; other site 297246006651 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246006652 Outer membrane efflux protein; Region: OEP; pfam02321 297246006653 Outer membrane efflux protein; Region: OEP; pfam02321 297246006654 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 297246006655 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246006656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246006657 metal binding site [ion binding]; metal-binding site 297246006658 active site 297246006659 I-site; other site 297246006660 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 297246006661 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246006662 Soluble P-type ATPase [General function prediction only]; Region: COG4087 297246006663 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 297246006664 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 297246006665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 297246006666 active site 297246006667 thymidine phosphorylase; Provisional; Region: PRK04350 297246006668 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 297246006669 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 297246006670 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 297246006671 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 297246006672 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 297246006673 Beta-Casp domain; Region: Beta-Casp; smart01027 297246006674 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 297246006675 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 297246006676 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246006677 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246006678 Outer membrane efflux protein; Region: OEP; pfam02321 297246006679 Outer membrane efflux protein; Region: OEP; pfam02321 297246006680 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 297246006681 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 297246006682 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246006683 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 297246006684 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 297246006685 motif II; other site 297246006686 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 297246006687 Domain of unknown function DUF302; Region: DUF302; pfam03625 297246006688 similar to cadmium-transporting ATPase (C-terminal part);hypothetical protein 297246006689 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 297246006690 Heavy-metal-associated domain; Region: HMA; pfam00403 297246006691 metal-binding site [ion binding] 297246006692 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246006693 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 297246006694 motif II; other site 297246006695 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 297246006696 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 297246006697 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 297246006698 E3 interaction surface; other site 297246006699 lipoyl attachment site [posttranslational modification]; other site 297246006700 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246006701 Outer membrane efflux protein; Region: OEP; pfam02321 297246006702 Outer membrane efflux protein; Region: OEP; pfam02321 297246006703 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 297246006704 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 297246006705 non-specific DNA binding site [nucleotide binding]; other site 297246006706 salt bridge; other site 297246006707 sequence-specific DNA binding site [nucleotide binding]; other site 297246006708 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 297246006709 Catalytic site [active] 297246006710 Global regulator protein family; Region: CsrA; pfam02599 297246006711 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 297246006712 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 297246006713 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 297246006714 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 297246006715 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 297246006716 conjugative transfer region protein, TIGR03750 family; Region: conj_TIGR03750 297246006717 Protein of unknown function (DUF2895); Region: DUF2895; pfam11444 297246006718 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 297246006719 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 297246006720 basic region leucin zipper; Region: BRLZ; smart00338 297246006721 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 297246006722 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 297246006723 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 297246006724 Domain of unknown function DUF87; Region: DUF87; pfam01935 297246006725 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 297246006726 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 297246006727 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 297246006728 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 297246006729 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 297246006730 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 297246006731 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 297246006732 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246006733 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 297246006734 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 297246006735 active site 297246006736 catalytic residues [active] 297246006737 DNA binding site [nucleotide binding] 297246006738 Int/Topo IB signature motif; other site 297246006739 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 297246006740 EamA-like transporter family; Region: EamA; pfam00892 297246006741 Antirestriction protein (ArdA); Region: ArdA; pfam07275 297246006742 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 297246006743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 297246006744 Transposase; Region: DDE_Tnp_ISL3; pfam01610 297246006745 Similar to transposase (ISL3 family) - partial;hypothetical protein 297246006746 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 297246006747 similar to unknown proteins;hypothetical protein 297246006748 Similar to transposase - partial;hypothetical protein 297246006749 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 297246006750 S-adenosylmethionine binding site [chemical binding]; other site 297246006751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 297246006752 similar to unknown protein;hypothetical protein 297246006753 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 297246006754 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 297246006755 salt bridge; other site 297246006756 non-specific DNA binding site [nucleotide binding]; other site 297246006757 sequence-specific DNA binding site [nucleotide binding]; other site 297246006758 HipA N-terminal domain; Region: Couple_hipA; cl11853 297246006759 similar to transposase, partial;hypothetical protein 297246006760 Cupin domain; Region: Cupin_2; cl17218 297246006761 hypothetical protein; Provisional; Region: PRK07206 297246006762 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 297246006763 H+ Antiporter protein; Region: 2A0121; TIGR00900 297246006764 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 297246006765 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 297246006766 active site 297246006767 homodimer interface [polypeptide binding]; other site 297246006768 SAM binding site [chemical binding]; other site 297246006769 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 297246006770 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246006771 putative substrate translocation pore; other site 297246006772 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 297246006773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246006774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246006775 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 297246006776 substrate binding pocket [chemical binding]; other site 297246006777 dimerization interface [polypeptide binding]; other site 297246006778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246006779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246006780 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 297246006781 putative effector binding pocket; other site 297246006782 dimerization interface [polypeptide binding]; other site 297246006783 potassium uptake protein; Region: kup; TIGR00794 297246006784 K+ potassium transporter; Region: K_trans; pfam02705 297246006785 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14854 297246006786 universal stress protein UspE; Provisional; Region: PRK11175 297246006787 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 297246006788 Ligand Binding Site [chemical binding]; other site 297246006789 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 297246006790 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 297246006791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246006792 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 297246006793 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 297246006794 Soluble P-type ATPase [General function prediction only]; Region: COG4087 297246006795 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 297246006796 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 297246006797 AAA domain; Region: AAA_18; pfam13238 297246006798 active site 297246006799 outer membrane protease; Reviewed; Region: PRK10993 297246006800 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 297246006801 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 297246006802 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 297246006803 dimer interface [polypeptide binding]; other site 297246006804 active site 297246006805 heme binding site [chemical binding]; other site 297246006806 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 297246006807 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 297246006808 metabolite-proton symporter; Region: 2A0106; TIGR00883 297246006809 putative substrate translocation pore; other site 297246006810 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 297246006811 Substrate binding site [chemical binding]; other site 297246006812 Ferritin-like domain; Region: Ferritin; pfam00210 297246006813 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 297246006814 dinuclear metal binding motif [ion binding]; other site 297246006815 Methyltransferase domain; Region: Methyltransf_31; pfam13847 297246006816 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 297246006817 S-adenosylmethionine binding site [chemical binding]; other site 297246006818 Peptidase family M23; Region: Peptidase_M23; pfam01551 297246006819 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 297246006820 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 297246006821 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246006822 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 297246006823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 297246006824 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 297246006825 Beta-lactamase; Region: Beta-lactamase; pfam00144 297246006826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 297246006827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246006828 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 297246006829 putative substrate binding pocket [chemical binding]; other site 297246006830 putative dimerization interface [polypeptide binding]; other site 297246006831 Cytochrome P450; Region: p450; cl12078 297246006832 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 297246006833 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 297246006834 nudix motif; other site 297246006835 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246006836 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 297246006837 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 297246006838 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246006839 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246006840 metal binding site [ion binding]; metal-binding site 297246006841 active site 297246006842 I-site; other site 297246006843 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 297246006844 GAF domain; Region: GAF; pfam01590 297246006845 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 297246006846 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 297246006847 active site 297246006848 nucleophile elbow; other site 297246006849 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 297246006850 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 297246006851 Ras GTPase Activating Domain; Region: RasGAP; cl02569 297246006852 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 297246006853 F-box-like; Region: F-box-like; cl02535 297246006854 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 297246006855 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 297246006856 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 297246006857 Coenzyme A transferase; Region: CoA_trans; cl17247 297246006858 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 297246006859 malonate decarboxylase, beta subunit; Region: malonate_beta; TIGR03133 297246006860 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 297246006861 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 297246006862 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 297246006863 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 297246006864 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 297246006865 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 297246006866 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 297246006867 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 297246006868 active site 297246006869 metal binding site [ion binding]; metal-binding site 297246006870 Cupin domain; Region: Cupin_2; cl17218 297246006871 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 297246006872 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 297246006873 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 297246006874 putative substrate translocation pore; other site 297246006875 Predicted flavoprotein [General function prediction only]; Region: COG0431 297246006876 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 297246006877 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 297246006878 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 297246006879 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 297246006880 putative dimer interface [polypeptide binding]; other site 297246006881 N-terminal domain interface [polypeptide binding]; other site 297246006882 putative substrate binding pocket (H-site) [chemical binding]; other site 297246006883 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 297246006884 dimer interface [polypeptide binding]; other site 297246006885 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 297246006886 dimer interface [polypeptide binding]; other site 297246006887 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 297246006888 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 297246006889 N-acetyltransferase; Region: Acetyltransf_2; cl00949 297246006890 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 297246006891 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 297246006892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 297246006893 Coenzyme A binding pocket [chemical binding]; other site 297246006894 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 297246006895 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 297246006896 active site 297246006897 phosphorylation site [posttranslational modification] 297246006898 intermolecular recognition site; other site 297246006899 dimerization interface [polypeptide binding]; other site 297246006900 PAS domain S-box; Region: sensory_box; TIGR00229 297246006901 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 297246006902 putative active site [active] 297246006903 heme pocket [chemical binding]; other site 297246006904 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 297246006905 dimer interface [polypeptide binding]; other site 297246006906 phosphorylation site [posttranslational modification] 297246006907 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 297246006908 ATP binding site [chemical binding]; other site 297246006909 Mg2+ binding site [ion binding]; other site 297246006910 G-X-G motif; other site 297246006911 Heme NO binding; Region: HNOB; pfam07700 297246006912 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 297246006913 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 297246006914 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246006915 putative substrate translocation pore; other site 297246006916 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 297246006917 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 297246006918 nickel binding site [ion binding]; other site 297246006919 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 297246006920 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 297246006921 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 297246006922 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 297246006923 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 297246006924 FAD binding pocket [chemical binding]; other site 297246006925 FAD binding motif [chemical binding]; other site 297246006926 phosphate binding motif [ion binding]; other site 297246006927 beta-alpha-beta structure motif; other site 297246006928 NAD binding pocket [chemical binding]; other site 297246006929 Iron coordination center [ion binding]; other site 297246006930 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 297246006931 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 297246006932 dimerization interface [polypeptide binding]; other site 297246006933 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 297246006934 ATP binding site [chemical binding]; other site 297246006935 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 297246006936 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 297246006937 HupF/HypC family; Region: HupF_HypC; pfam01455 297246006938 Acylphosphatase; Region: Acylphosphatase; pfam00708 297246006939 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 297246006940 HypF finger; Region: zf-HYPF; pfam07503 297246006941 HypF finger; Region: zf-HYPF; pfam07503 297246006942 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 297246006943 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 297246006944 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 297246006945 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 297246006946 High-affinity nickel-transport protein; Region: NicO; cl00964 297246006947 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 297246006948 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 297246006949 Ligand binding site; other site 297246006950 Putative Catalytic site; other site 297246006951 DXD motif; other site 297246006952 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 297246006953 putative active site [active] 297246006954 YdjC motif; other site 297246006955 Mg binding site [ion binding]; other site 297246006956 putative homodimer interface [polypeptide binding]; other site 297246006957 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 297246006958 EamA-like transporter family; Region: EamA; pfam00892 297246006959 EamA-like transporter family; Region: EamA; pfam00892 297246006960 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246006961 Uncharacterized conserved protein [Function unknown]; Region: COG2128 297246006962 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 297246006963 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 297246006964 active site 297246006965 dimerization interface [polypeptide binding]; other site 297246006966 TPR repeat; Region: TPR_11; pfam13414 297246006967 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 297246006968 binding surface 297246006969 TPR motif; other site 297246006970 TPR repeat; Region: TPR_11; pfam13414 297246006971 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 297246006972 binding surface 297246006973 TPR repeat; Region: TPR_11; pfam13414 297246006974 TPR motif; other site 297246006975 TPR repeat; Region: TPR_11; pfam13414 297246006976 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 297246006977 binding surface 297246006978 TPR repeat; Region: TPR_11; pfam13414 297246006979 TPR motif; other site 297246006980 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 297246006981 binding surface 297246006982 TPR motif; other site 297246006983 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 297246006984 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 297246006985 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 297246006986 S-adenosylmethionine binding site [chemical binding]; other site 297246006987 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 297246006988 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 297246006989 active site 297246006990 substrate binding site [chemical binding]; other site 297246006991 metal binding site [ion binding]; metal-binding site 297246006992 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 297246006993 trimer interface [polypeptide binding]; other site 297246006994 active site 297246006995 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 297246006996 Flavoprotein; Region: Flavoprotein; pfam02441 297246006997 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 297246006998 hypothetical protein; Reviewed; Region: PRK00024 297246006999 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 297246007000 MPN+ (JAMM) motif; other site 297246007001 Zinc-binding site [ion binding]; other site 297246007002 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 297246007003 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 297246007004 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 297246007005 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 297246007006 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 297246007007 FOG: CBS domain [General function prediction only]; Region: COG0517 297246007008 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 297246007009 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 297246007010 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 297246007011 putative NAD(P) binding site [chemical binding]; other site 297246007012 putative substrate binding site [chemical binding]; other site 297246007013 catalytic Zn binding site [ion binding]; other site 297246007014 structural Zn binding site [ion binding]; other site 297246007015 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 297246007016 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 297246007017 putative dimer interface [polypeptide binding]; other site 297246007018 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 297246007019 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 297246007020 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 297246007021 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 297246007022 Thiamine pyrophosphokinase; Region: TPK; cd07995 297246007023 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 297246007024 active site 297246007025 dimerization interface [polypeptide binding]; other site 297246007026 thiamine binding site [chemical binding]; other site 297246007027 PQ loop repeat; Region: PQ-loop; pfam04193 297246007028 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 297246007029 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_cladeC; cd03378 297246007030 active site clefts [active] 297246007031 zinc binding site [ion binding]; other site 297246007032 dimer interface [polypeptide binding]; other site 297246007033 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 297246007034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 297246007035 putative substrate translocation pore; other site 297246007036 acyltransferase PapA5; Provisional; Region: PRK09294 297246007037 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 297246007038 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 297246007039 dimer interface [polypeptide binding]; other site 297246007040 phosphorylation site [posttranslational modification] 297246007041 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 297246007042 ATP binding site [chemical binding]; other site 297246007043 Mg2+ binding site [ion binding]; other site 297246007044 G-X-G motif; other site 297246007045 Dot/Icm substrate protein; Region: SidE; pfam12252 297246007046 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 297246007047 Protein export membrane protein; Region: SecD_SecF; cl14618 297246007048 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246007049 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246007050 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246007051 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 297246007052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 297246007053 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 297246007054 D-galactonate transporter; Region: 2A0114; TIGR00893 297246007055 putative substrate translocation pore; other site 297246007056 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 297246007057 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 297246007058 putative DNA binding site [nucleotide binding]; other site 297246007059 putative Zn2+ binding site [ion binding]; other site 297246007060 AsnC family; Region: AsnC_trans_reg; pfam01037 297246007061 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 297246007062 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 297246007063 dimer interface [polypeptide binding]; other site 297246007064 active site 297246007065 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 297246007066 substrate binding site [chemical binding]; other site 297246007067 catalytic residue [active] 297246007068 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 297246007069 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 297246007070 active site 297246007071 catalytic site [active] 297246007072 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 297246007073 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 297246007074 Prephenate dehydratase; Region: PDT; pfam00800 297246007075 Chorismate mutase type II; Region: CM_2; smart00830 297246007076 aspartate aminotransferase; Provisional; Region: PRK05764 297246007077 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 297246007078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246007079 homodimer interface [polypeptide binding]; other site 297246007080 catalytic residue [active] 297246007081 tellurite resistance protein TehB; Provisional; Region: PRK12335 297246007082 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 297246007083 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 297246007084 S-adenosylmethionine binding site [chemical binding]; other site 297246007085 Transcriptional regulator; Region: Rrf2; cl17282 297246007086 Rrf2 family protein; Region: rrf2_super; TIGR00738 297246007087 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 297246007088 apolar tunnel; other site 297246007089 heme binding site [chemical binding]; other site 297246007090 dimerization interface [polypeptide binding]; other site 297246007091 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 297246007092 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 297246007093 catalytic loop [active] 297246007094 iron binding site [ion binding]; other site 297246007095 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 297246007096 FAD binding pocket [chemical binding]; other site 297246007097 FAD binding motif [chemical binding]; other site 297246007098 phosphate binding motif [ion binding]; other site 297246007099 beta-alpha-beta structure motif; other site 297246007100 NAD binding pocket [chemical binding]; other site 297246007101 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 297246007102 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 297246007103 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 297246007104 MltA specific insert domain; Region: MltA; smart00925 297246007105 3D domain; Region: 3D; pfam06725 297246007106 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 297246007107 dimer interface [polypeptide binding]; other site 297246007108 putative tRNA-binding site [nucleotide binding]; other site 297246007109 EamA-like transporter family; Region: EamA; pfam00892 297246007110 EamA-like transporter family; Region: EamA; pfam00892 297246007111 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 297246007112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 297246007113 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; cl15777 297246007114 putative active site pocket [active] 297246007115 dimerization interface [polypeptide binding]; other site 297246007116 putative catalytic residue [active] 297246007117 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 297246007118 EamA-like transporter family; Region: EamA; pfam00892 297246007119 EamA-like transporter family; Region: EamA; pfam00892 297246007120 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 297246007121 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 297246007122 putative substrate translocation pore; other site 297246007123 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 297246007124 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 297246007125 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 297246007126 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 297246007127 active site 297246007128 motif I; other site 297246007129 motif II; other site 297246007130 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 297246007131 Catalytic domain of Protein Kinases; Region: PKc; cd00180 297246007132 active site 297246007133 ATP binding site [chemical binding]; other site 297246007134 substrate binding site [chemical binding]; other site 297246007135 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 297246007136 substrate binding site [chemical binding]; other site 297246007137 activation loop (A-loop); other site 297246007138 activation loop (A-loop); other site 297246007139 PAS domain; Region: PAS_9; pfam13426 297246007140 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 297246007141 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 297246007142 DNA binding residues [nucleotide binding] 297246007143 dimerization interface [polypeptide binding]; other site 297246007144 Uncharacterized conserved protein [Function unknown]; Region: COG3189 297246007145 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 297246007146 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 297246007147 active site 297246007148 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 297246007149 tetramer interface [polypeptide binding]; other site 297246007150 TPP-binding site [chemical binding]; other site 297246007151 heterodimer interface [polypeptide binding]; other site 297246007152 phosphorylation loop region [posttranslational modification] 297246007153 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 297246007154 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 297246007155 PYR/PP interface [polypeptide binding]; other site 297246007156 dimer interface [polypeptide binding]; other site 297246007157 TPP binding site [chemical binding]; other site 297246007158 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 297246007159 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 297246007160 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 297246007161 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 297246007162 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 297246007163 active site 297246007164 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 297246007165 active site 297246007166 catalytic triad [active] 297246007167 oxyanion hole [active] 297246007168 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 297246007169 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 297246007170 active site 297246007171 metal binding site [ion binding]; metal-binding site 297246007172 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 297246007173 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 297246007174 ParB-like nuclease domain; Region: ParBc; pfam02195 297246007175 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 297246007176 16S rRNA methyltransferase B; Provisional; Region: PRK10901 297246007177 NusB family; Region: NusB; pfam01029 297246007178 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 297246007179 S-adenosylmethionine binding site [chemical binding]; other site 297246007180 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 297246007181 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 297246007182 putative active site [active] 297246007183 substrate binding site [chemical binding]; other site 297246007184 putative cosubstrate binding site; other site 297246007185 catalytic site [active] 297246007186 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 297246007187 substrate binding site [chemical binding]; other site 297246007188 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 297246007189 active site 297246007190 catalytic residues [active] 297246007191 metal binding site [ion binding]; metal-binding site 297246007192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246007193 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 297246007194 DNA protecting protein DprA; Region: dprA; TIGR00732 297246007195 Protein of unknown function (DUF494); Region: DUF494; cl01103 297246007196 DNA topoisomerase I; Validated; Region: PRK06599 297246007197 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 297246007198 active site 297246007199 interdomain interaction site; other site 297246007200 putative metal-binding site [ion binding]; other site 297246007201 nucleotide binding site [chemical binding]; other site 297246007202 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 297246007203 domain I; other site 297246007204 DNA binding groove [nucleotide binding] 297246007205 phosphate binding site [ion binding]; other site 297246007206 domain II; other site 297246007207 domain III; other site 297246007208 nucleotide binding site [chemical binding]; other site 297246007209 catalytic site [active] 297246007210 domain IV; other site 297246007211 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 297246007212 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 297246007213 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 297246007214 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 297246007215 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 297246007216 Bacterial PH domain; Region: DUF304; pfam03703 297246007217 Protein of unknown function (DUF721); Region: DUF721; pfam05258 297246007218 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 297246007219 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 297246007220 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 297246007221 Uncharacterized conserved protein [Function unknown]; Region: COG4278 297246007222 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 297246007223 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 297246007224 putative active site [active] 297246007225 putative dimer interface [polypeptide binding]; other site 297246007226 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 297246007227 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 297246007228 active site 297246007229 Zn binding site [ion binding]; other site 297246007230 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 297246007231 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 297246007232 cell division protein FtsZ; Validated; Region: PRK09330 297246007233 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 297246007234 nucleotide binding site [chemical binding]; other site 297246007235 SulA interaction site; other site 297246007236 cell division protein FtsA; Region: ftsA; TIGR01174 297246007237 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 297246007238 nucleotide binding site [chemical binding]; other site 297246007239 Cell division protein FtsA; Region: FtsA; pfam14450 297246007240 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 297246007241 Cell division protein FtsQ; Region: FtsQ; pfam03799 297246007242 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 297246007243 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 297246007244 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246007245 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 297246007246 FAD binding domain; Region: FAD_binding_4; pfam01565 297246007247 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 297246007248 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 297246007249 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 297246007250 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 297246007251 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 297246007252 cell division protein FtsW; Region: ftsW; TIGR02614 297246007253 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 297246007254 TrkA-N domain; Region: TrkA_N; pfam02254 297246007255 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 297246007256 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 297246007257 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 297246007258 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 297246007259 Mg++ binding site [ion binding]; other site 297246007260 putative catalytic motif [active] 297246007261 putative substrate binding site [chemical binding]; other site 297246007262 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 297246007263 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 297246007264 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 297246007265 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 297246007266 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 297246007267 FtsZ protein binding site [polypeptide binding]; other site 297246007268 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 297246007269 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 297246007270 Walker A/P-loop; other site 297246007271 ATP binding site [chemical binding]; other site 297246007272 Q-loop/lid; other site 297246007273 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 297246007274 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 297246007275 Q-loop/lid; other site 297246007276 ABC transporter signature motif; other site 297246007277 Walker B; other site 297246007278 D-loop; other site 297246007279 H-loop/switch region; other site 297246007280 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; pfam03767 297246007281 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 297246007282 active site 297246007283 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 297246007284 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 297246007285 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 297246007286 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 297246007287 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 297246007288 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 297246007289 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 297246007290 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 297246007291 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 297246007292 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246007293 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 297246007294 IMP binding site; other site 297246007295 dimer interface [polypeptide binding]; other site 297246007296 interdomain contacts; other site 297246007297 partial ornithine binding site; other site 297246007298 Predicted flavoproteins [General function prediction only]; Region: COG2081 297246007299 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 297246007300 Uncharacterized conserved protein [Function unknown]; Region: COG1434 297246007301 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 297246007302 putative active site [active] 297246007303 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 297246007304 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 297246007305 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 297246007306 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 297246007307 multifunctional aminopeptidase A; Provisional; Region: PRK00913 297246007308 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 297246007309 interface (dimer of trimers) [polypeptide binding]; other site 297246007310 Substrate-binding/catalytic site; other site 297246007311 Zn-binding sites [ion binding]; other site 297246007312 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 297246007313 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 297246007314 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 297246007315 interface (dimer of trimers) [polypeptide binding]; other site 297246007316 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 297246007317 Substrate-binding/catalytic site; other site 297246007318 Zn-binding sites [ion binding]; other site 297246007319 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 297246007320 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 297246007321 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 297246007322 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246007323 Sel1-like repeats; Region: SEL1; smart00671 297246007324 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246007325 Sel1-like repeats; Region: SEL1; smart00671 297246007326 Sel1-like repeats; Region: SEL1; smart00671 297246007327 Sel1-like repeats; Region: SEL1; smart00671 297246007328 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 297246007329 Sel1-like repeats; Region: SEL1; smart00671 297246007330 Sel1-like repeats; Region: SEL1; smart00671 297246007331 Sel1-like repeats; Region: SEL1; smart00671 297246007332 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 297246007333 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 297246007334 putative active site [active] 297246007335 GAF domain; Region: GAF; pfam01590 297246007336 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246007337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246007338 metal binding site [ion binding]; metal-binding site 297246007339 active site 297246007340 I-site; other site 297246007341 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 297246007342 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 297246007343 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 297246007344 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 297246007345 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 297246007346 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 297246007347 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 297246007348 GIY-YIG motif/motif A; other site 297246007349 active site 297246007350 catalytic site [active] 297246007351 putative DNA binding site [nucleotide binding]; other site 297246007352 metal binding site [ion binding]; metal-binding site 297246007353 UvrB/uvrC motif; Region: UVR; pfam02151 297246007354 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 297246007355 response regulator; Provisional; Region: PRK09483 297246007356 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 297246007357 active site 297246007358 phosphorylation site [posttranslational modification] 297246007359 intermolecular recognition site; other site 297246007360 dimerization interface [polypeptide binding]; other site 297246007361 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 297246007362 DNA binding residues [nucleotide binding] 297246007363 dimerization interface [polypeptide binding]; other site 297246007364 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 297246007365 cofactor binding site; other site 297246007366 metal binding site [ion binding]; metal-binding site 297246007367 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 297246007368 competence damage-inducible protein A; Provisional; Region: PRK01215 297246007369 putative MPT binding site; other site 297246007370 GTPase CgtA; Reviewed; Region: obgE; PRK12299 297246007371 GTP1/OBG; Region: GTP1_OBG; pfam01018 297246007372 Obg GTPase; Region: Obg; cd01898 297246007373 G1 box; other site 297246007374 GTP/Mg2+ binding site [chemical binding]; other site 297246007375 Switch I region; other site 297246007376 G2 box; other site 297246007377 G3 box; other site 297246007378 Switch II region; other site 297246007379 G4 box; other site 297246007380 G5 box; other site 297246007381 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 297246007382 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 297246007383 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 297246007384 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 297246007385 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 297246007386 5S rRNA interface [nucleotide binding]; other site 297246007387 CTC domain interface [polypeptide binding]; other site 297246007388 L16 interface [polypeptide binding]; other site 297246007389 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 297246007390 putative active site [active] 297246007391 catalytic residue [active] 297246007392 GTP-binding protein YchF; Reviewed; Region: PRK09601 297246007393 YchF GTPase; Region: YchF; cd01900 297246007394 G1 box; other site 297246007395 GTP/Mg2+ binding site [chemical binding]; other site 297246007396 Switch I region; other site 297246007397 G2 box; other site 297246007398 Switch II region; other site 297246007399 G3 box; other site 297246007400 G4 box; other site 297246007401 G5 box; other site 297246007402 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 297246007403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 297246007404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 297246007405 metal binding site [ion binding]; metal-binding site 297246007406 active site 297246007407 I-site; other site 297246007408 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 297246007409 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 297246007410 substrate binding pocket [chemical binding]; other site 297246007411 chain length determination region; other site 297246007412 substrate-Mg2+ binding site; other site 297246007413 catalytic residues [active] 297246007414 aspartate-rich region 1; other site 297246007415 active site lid residues [active] 297246007416 aspartate-rich region 2; other site 297246007417 FeoC like transcriptional regulator; Region: FeoC; pfam09012 297246007418 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 297246007419 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 297246007420 G1 box; other site 297246007421 GTP/Mg2+ binding site [chemical binding]; other site 297246007422 Switch I region; other site 297246007423 G2 box; other site 297246007424 G3 box; other site 297246007425 Switch II region; other site 297246007426 G4 box; other site 297246007427 G5 box; other site 297246007428 Nucleoside recognition; Region: Gate; pfam07670 297246007429 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 297246007430 Nucleoside recognition; Region: Gate; pfam07670 297246007431 FeoA domain; Region: FeoA; pfam04023 297246007432 Predicted ATPase [General function prediction only]; Region: COG1485 297246007433 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 297246007434 Walker A motif; other site 297246007435 ATP binding site [chemical binding]; other site 297246007436 Walker B motif; other site 297246007437 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 297246007438 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 297246007439 oligomerization interface [polypeptide binding]; other site 297246007440 active site 297246007441 metal binding site [ion binding]; metal-binding site 297246007442 pantoate--beta-alanine ligase; Region: panC; TIGR00018 297246007443 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 297246007444 active site 297246007445 nucleotide binding site [chemical binding]; other site 297246007446 HIGH motif; other site 297246007447 KMSKS motif; other site 297246007448 AAA domain; Region: AAA_28; pfam13521 297246007449 Predicted ATPase [General function prediction only]; Region: COG3911 297246007450 pyruvate carboxylase subunit A; Validated; Region: PRK07178 297246007451 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 297246007452 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 297246007453 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 297246007454 Dienelactone hydrolase family; Region: DLH; pfam01738 297246007455 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 297246007456 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246007457 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 297246007458 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 297246007459 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 297246007460 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 297246007461 DNA binding residues [nucleotide binding] 297246007462 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 297246007463 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 297246007464 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 297246007465 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246007466 Walker A/P-loop; other site 297246007467 ATP binding site [chemical binding]; other site 297246007468 Q-loop/lid; other site 297246007469 ABC transporter signature motif; other site 297246007470 Walker B; other site 297246007471 D-loop; other site 297246007472 H-loop/switch region; other site 297246007473 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 297246007474 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 297246007475 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 297246007476 P loop; other site 297246007477 GTP binding site [chemical binding]; other site 297246007478 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 297246007479 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 297246007480 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 297246007481 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 297246007482 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 297246007483 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 297246007484 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 297246007485 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 297246007486 S-adenosylmethionine binding site [chemical binding]; other site 297246007487 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 297246007488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 297246007489 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 297246007490 Walker A motif; other site 297246007491 Walker A/P-loop; other site 297246007492 ATP binding site [chemical binding]; other site 297246007493 ATP binding site [chemical binding]; other site 297246007494 Walker B motif; other site 297246007495 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 297246007496 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 297246007497 putative active site [active] 297246007498 putative metal binding site [ion binding]; other site 297246007499 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 297246007500 Putative methyltransferase; Region: Methyltransf_4; cl17290 297246007501 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246007502 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 297246007503 S-adenosylmethionine binding site [chemical binding]; other site 297246007504 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 297246007505 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 297246007506 NAD binding site [chemical binding]; other site 297246007507 ATP-grasp domain; Region: ATP-grasp_4; cl17255 297246007508 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 297246007509 active site 297246007510 catalytic residues [active] 297246007511 metal binding site [ion binding]; metal-binding site 297246007512 tartrate dehydrogenase; Provisional; Region: PRK08194 297246007513 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 297246007514 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 297246007515 Dienelactone hydrolase family; Region: DLH; pfam01738 297246007516 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 297246007517 Phagosome trafficking protein DotA; Region: DotA; pfam11388 297246007518 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 297246007519 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 297246007520 putative oxygen-independent coproporphyrinogen III oxidase; Region: hemN_rel; TIGR00539 297246007521 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 297246007522 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 297246007523 metal-binding site [ion binding] 297246007524 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 297246007525 Methyltransferase domain; Region: Methyltransf_31; pfam13847 297246007526 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 297246007527 S-adenosylmethionine binding site [chemical binding]; other site 297246007528 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 297246007529 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 297246007530 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 297246007531 putative active site [active] 297246007532 Zinc-finger domain; Region: zf-CHCC; cl01821 297246007533 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 297246007534 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 297246007535 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 297246007536 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 297246007537 ATP binding site [chemical binding]; other site 297246007538 Mg2+ binding site [ion binding]; other site 297246007539 G-X-G motif; other site 297246007540 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 297246007541 ATP binding site [chemical binding]; other site 297246007542 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 297246007543 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 297246007544 AMIN domain; Region: AMIN; pfam11741 297246007545 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 297246007546 active site 297246007547 metal binding site [ion binding]; metal-binding site 297246007548 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 297246007549 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 297246007550 putative carbohydrate kinase; Provisional; Region: PRK10565 297246007551 Uncharacterized conserved protein [Function unknown]; Region: COG0062 297246007552 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 297246007553 putative substrate binding site [chemical binding]; other site 297246007554 putative ATP binding site [chemical binding]; other site 297246007555 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 297246007556 stringent starvation protein A; Provisional; Region: sspA; PRK09481 297246007557 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 297246007558 C-terminal domain interface [polypeptide binding]; other site 297246007559 putative GSH binding site (G-site) [chemical binding]; other site 297246007560 dimer interface [polypeptide binding]; other site 297246007561 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 297246007562 dimer interface [polypeptide binding]; other site 297246007563 N-terminal domain interface [polypeptide binding]; other site 297246007564 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 297246007565 cytochrome b; Provisional; Region: CYTB; MTH00145 297246007566 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 297246007567 Qi binding site; other site 297246007568 intrachain domain interface; other site 297246007569 interchain domain interface [polypeptide binding]; other site 297246007570 heme bH binding site [chemical binding]; other site 297246007571 heme bL binding site [chemical binding]; other site 297246007572 Qo binding site; other site 297246007573 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 297246007574 interchain domain interface [polypeptide binding]; other site 297246007575 intrachain domain interface; other site 297246007576 Qi binding site; other site 297246007577 Qo binding site; other site 297246007578 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 297246007579 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 297246007580 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 297246007581 [2Fe-2S] cluster binding site [ion binding]; other site 297246007582 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 297246007583 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 297246007584 23S rRNA interface [nucleotide binding]; other site 297246007585 L3 interface [polypeptide binding]; other site 297246007586 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 297246007587 dimer interface [polypeptide binding]; other site 297246007588 [2Fe-2S] cluster binding site [ion binding]; other site 297246007589 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 297246007590 IHF - DNA interface [nucleotide binding]; other site 297246007591 IHF dimer interface [polypeptide binding]; other site 297246007592 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 297246007593 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 297246007594 putative tRNA-binding site [nucleotide binding]; other site 297246007595 B3/4 domain; Region: B3_4; pfam03483 297246007596 tRNA synthetase B5 domain; Region: B5; pfam03484 297246007597 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 297246007598 dimer interface [polypeptide binding]; other site 297246007599 motif 1; other site 297246007600 motif 3; other site 297246007601 motif 2; other site 297246007602 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 297246007603 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 297246007604 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 297246007605 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 297246007606 dimer interface [polypeptide binding]; other site 297246007607 motif 1; other site 297246007608 active site 297246007609 motif 2; other site 297246007610 motif 3; other site 297246007611 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 297246007612 23S rRNA binding site [nucleotide binding]; other site 297246007613 L21 binding site [polypeptide binding]; other site 297246007614 L13 binding site [polypeptide binding]; other site 297246007615 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 297246007616 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 297246007617 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 297246007618 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 297246007619 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 297246007620 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 297246007621 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 297246007622 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 297246007623 active site 297246007624 dimer interface [polypeptide binding]; other site 297246007625 motif 1; other site 297246007626 motif 2; other site 297246007627 motif 3; other site 297246007628 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 297246007629 anticodon binding site; other site 297246007630 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 297246007631 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 297246007632 non-specific DNA binding site [nucleotide binding]; other site 297246007633 salt bridge; other site 297246007634 sequence-specific DNA binding site [nucleotide binding]; other site 297246007635 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 297246007636 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 297246007637 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 297246007638 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 297246007639 ligand binding site [chemical binding]; other site 297246007640 flexible hinge region; other site 297246007641 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 297246007642 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 297246007643 ligand binding site [chemical binding]; other site 297246007644 flexible hinge region; other site 297246007645 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 297246007646 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 297246007647 putative active site [active] 297246007648 putative dimer interface [polypeptide binding]; other site 297246007649 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 297246007650 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 297246007651 FMN binding site [chemical binding]; other site 297246007652 active site 297246007653 substrate binding site [chemical binding]; other site 297246007654 catalytic residue [active] 297246007655 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 297246007656 dimerization interface [polypeptide binding]; other site 297246007657 putative DNA binding site [nucleotide binding]; other site 297246007658 putative Zn2+ binding site [ion binding]; other site 297246007659 Predicted membrane protein [Function unknown]; Region: COG2860 297246007660 UPF0126 domain; Region: UPF0126; pfam03458 297246007661 UPF0126 domain; Region: UPF0126; pfam03458 297246007662 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 297246007663 substrate binding site [chemical binding]; other site 297246007664 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 297246007665 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 297246007666 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 297246007667 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 297246007668 hypothetical protein; Provisional; Region: PRK07179 297246007669 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 297246007670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 297246007671 catalytic residue [active] 297246007672 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 297246007673 active site 297246007674 phosphorylation site [posttranslational modification] 297246007675 intermolecular recognition site; other site 297246007676 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 297246007677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 297246007678 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 297246007679 ATP binding site [chemical binding]; other site 297246007680 Mg2+ binding site [ion binding]; other site 297246007681 G-X-G motif; other site 297246007682 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 297246007683 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 297246007684 domain interfaces; other site 297246007685 active site 297246007686 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 297246007687 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 297246007688 active site 297246007689 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 297246007690 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 297246007691 HemY protein N-terminus; Region: HemY_N; pfam07219 297246007692 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 297246007693 TPR motif; other site 297246007694 binding surface 297246007695 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 297246007696 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 297246007697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 297246007698 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 297246007699 catalytic site [active] 297246007700 putative active site [active] 297246007701 putative substrate binding site [chemical binding]; other site 297246007702 dimer interface [polypeptide binding]; other site 297246007703 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 297246007704 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 297246007705 active site 297246007706 NTP binding site [chemical binding]; other site 297246007707 metal binding triad [ion binding]; metal-binding site 297246007708 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 297246007709 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 297246007710 Zn2+ binding site [ion binding]; other site 297246007711 Mg2+ binding site [ion binding]; other site 297246007712 GTPase RsgA; Reviewed; Region: PRK12288 297246007713 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 297246007714 RNA binding site [nucleotide binding]; other site 297246007715 homodimer interface [polypeptide binding]; other site 297246007716 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 297246007717 GTPase/Zn-binding domain interface [polypeptide binding]; other site 297246007718 GTP/Mg2+ binding site [chemical binding]; other site 297246007719 G4 box; other site 297246007720 G5 box; other site 297246007721 G1 box; other site 297246007722 Switch I region; other site 297246007723 G2 box; other site 297246007724 G3 box; other site 297246007725 Switch II region; other site 297246007726 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 297246007727 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 297246007728 Walker A motif; other site 297246007729 ATP binding site [chemical binding]; other site 297246007730 Walker B motif; other site 297246007731 arginine finger; other site 297246007732 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 297246007733 hypothetical protein; Validated; Region: PRK00153 297246007734 recombination protein RecR; Reviewed; Region: recR; PRK00076 297246007735 RecR protein; Region: RecR; pfam02132 297246007736 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 297246007737 putative active site [active] 297246007738 putative metal-binding site [ion binding]; other site 297246007739 tetramer interface [polypeptide binding]; other site 297246007740 Protein of unknown function, DUF547; Region: DUF547; pfam04784 297246007741 Sulfatase; Region: Sulfatase; cl17466 297246007742 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 297246007743 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 297246007744 active site 297246007745 dimerization interface [polypeptide binding]; other site 297246007746 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 297246007747 DNA binding site [nucleotide binding] 297246007748 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 297246007749 Domain of unknown function DUF21; Region: DUF21; pfam01595 297246007750 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 297246007751 Transporter associated domain; Region: CorC_HlyC; smart01091 297246007752 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 297246007753 dimer interface [polypeptide binding]; other site 297246007754 substrate binding site [chemical binding]; other site 297246007755 metal binding sites [ion binding]; metal-binding site 297246007756 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 297246007757 nucleotide binding site/active site [active] 297246007758 HIT family signature motif; other site 297246007759 catalytic residue [active] 297246007760 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 297246007761 GTP cyclohydrolase I; Provisional; Region: PLN03044 297246007762 homodecamer interface [polypeptide binding]; other site 297246007763 active site 297246007764 putative catalytic site residues [active] 297246007765 zinc binding site [ion binding]; other site 297246007766 GTP-CH-I/GFRP interaction surface; other site 297246007767 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 297246007768 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 297246007769 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 297246007770 RNase E interface [polypeptide binding]; other site 297246007771 trimer interface [polypeptide binding]; other site 297246007772 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 297246007773 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 297246007774 RNase E interface [polypeptide binding]; other site 297246007775 trimer interface [polypeptide binding]; other site 297246007776 active site 297246007777 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 297246007778 putative nucleic acid binding region [nucleotide binding]; other site 297246007779 G-X-X-G motif; other site 297246007780 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 297246007781 RNA binding site [nucleotide binding]; other site 297246007782 domain interface; other site 297246007783 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 297246007784 16S/18S rRNA binding site [nucleotide binding]; other site 297246007785 S13e-L30e interaction site [polypeptide binding]; other site 297246007786 25S rRNA binding site [nucleotide binding]; other site 297246007787 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 297246007788 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 297246007789 RNA binding site [nucleotide binding]; other site 297246007790 active site 297246007791 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 297246007792 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 297246007793 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 297246007794 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 297246007795 translation initiation factor IF-2; Region: IF-2; TIGR00487 297246007796 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 297246007797 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 297246007798 G1 box; other site 297246007799 putative GEF interaction site [polypeptide binding]; other site 297246007800 GTP/Mg2+ binding site [chemical binding]; other site 297246007801 Switch I region; other site 297246007802 G2 box; other site 297246007803 G3 box; other site 297246007804 Switch II region; other site 297246007805 G4 box; other site 297246007806 G5 box; other site 297246007807 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 297246007808 Translation-initiation factor 2; Region: IF-2; pfam11987 297246007809 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 297246007810 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 297246007811 NusA N-terminal domain; Region: NusA_N; pfam08529 297246007812 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 297246007813 RNA binding site [nucleotide binding]; other site 297246007814 homodimer interface [polypeptide binding]; other site 297246007815 NusA-like KH domain; Region: KH_5; pfam13184 297246007816 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 297246007817 G-X-X-G motif; other site 297246007818 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 297246007819 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 297246007820 ribosome maturation protein RimP; Reviewed; Region: PRK00092 297246007821 hypothetical protein; Provisional; Region: PRK14641 297246007822 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 297246007823 putative oligomer interface [polypeptide binding]; other site 297246007824 putative RNA binding site [nucleotide binding]; other site 297246007825 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 297246007826 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 297246007827 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 297246007828 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 297246007829 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 297246007830 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 297246007831 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 297246007832 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 297246007833 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 297246007834 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 297246007835 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 297246007836 4Fe-4S binding domain; Region: Fer4; cl02805 297246007837 4Fe-4S binding domain; Region: Fer4; pfam00037 297246007838 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 297246007839 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 297246007840 NADH dehydrogenase subunit G; Validated; Region: PRK09129 297246007841 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 297246007842 catalytic loop [active] 297246007843 iron binding site [ion binding]; other site 297246007844 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 297246007845 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 297246007846 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 297246007847 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 297246007848 SLBB domain; Region: SLBB; pfam10531 297246007849 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 297246007850 NADH dehydrogenase subunit E; Validated; Region: PRK07539 297246007851 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 297246007852 putative dimer interface [polypeptide binding]; other site 297246007853 [2Fe-2S] cluster binding site [ion binding]; other site 297246007854 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 297246007855 NADH dehydrogenase subunit D; Validated; Region: PRK06075 297246007856 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 297246007857 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 297246007858 NADH dehydrogenase subunit B; Validated; Region: PRK06411 297246007859 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 297246007860 Preprotein translocase SecG subunit; Region: SecG; pfam03840 297246007861 triosephosphate isomerase; Provisional; Region: PRK14567 297246007862 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 297246007863 substrate binding site [chemical binding]; other site 297246007864 dimer interface [polypeptide binding]; other site 297246007865 catalytic triad [active] 297246007866 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 297246007867 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 297246007868 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 297246007869 active site 297246007870 substrate binding site [chemical binding]; other site 297246007871 metal binding site [ion binding]; metal-binding site 297246007872 dihydropteroate synthase; Region: DHPS; TIGR01496 297246007873 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 297246007874 substrate binding pocket [chemical binding]; other site 297246007875 dimer interface [polypeptide binding]; other site 297246007876 inhibitor binding site; inhibition site 297246007877 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 297246007878 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 297246007879 Walker A motif; other site 297246007880 ATP binding site [chemical binding]; other site 297246007881 Walker B motif; other site 297246007882 arginine finger; other site 297246007883 Peptidase family M41; Region: Peptidase_M41; pfam01434 297246007884 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 297246007885 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 297246007886 S-adenosylmethionine binding site [chemical binding]; other site 297246007887 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 297246007888 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 297246007889 IucA / IucC family; Region: IucA_IucC; pfam04183 297246007890 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 297246007891 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 297246007892 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 297246007893 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 297246007894 Walker A motif; other site 297246007895 ATP binding site [chemical binding]; other site 297246007896 Walker B motif; other site 297246007897 arginine finger; other site 297246007898 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 297246007899 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 297246007900 putative substrate translocation pore; other site 297246007901 POT family; Region: PTR2; cl17359 297246007902 VIT family; Region: VIT1; pfam01988 297246007903 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 297246007904 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 297246007905 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 297246007906 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 297246007907 shikimate binding site; other site 297246007908 NAD(P) binding site [chemical binding]; other site 297246007909 aminopeptidase N; Provisional; Region: pepN; PRK14015 297246007910 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 297246007911 active site 297246007912 Zn binding site [ion binding]; other site 297246007913 PrkA family serine protein kinase; Provisional; Region: PRK15455 297246007914 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 297246007915 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 297246007916 hypothetical protein; Provisional; Region: PRK05325 297246007917 SpoVR family protein; Provisional; Region: PRK11767 297246007918 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 297246007919 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 297246007920 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 297246007921 catalytic triad [active] 297246007922 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 297246007923 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 297246007924 inhibitor site; inhibition site 297246007925 active site 297246007926 dimer interface [polypeptide binding]; other site 297246007927 catalytic residue [active] 297246007928 Cupin domain; Region: Cupin_2; pfam07883 297246007929 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 297246007930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 297246007931 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 297246007932 dimerization interface [polypeptide binding]; other site 297246007933 similar to resolvase (partial);hypothetical protein 297246007934 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 297246007935 Peptidase family M28; Region: Peptidase_M28; pfam04389 297246007936 active site 297246007937 metal binding site [ion binding]; metal-binding site 297246007938 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 297246007939 Part of AAA domain; Region: AAA_19; pfam13245 297246007940 Family description; Region: UvrD_C_2; pfam13538 297246007941 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 297246007942 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 297246007943 dimerization interface [polypeptide binding]; other site 297246007944 domain crossover interface; other site 297246007945 redox-dependent activation switch; other site 297246007946 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 297246007947 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 297246007948 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 297246007949 active site 297246007950 catalytic tetrad [active] 297246007951 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 297246007952 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 297246007953 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 297246007954 G1 box; other site 297246007955 putative GEF interaction site [polypeptide binding]; other site 297246007956 GTP/Mg2+ binding site [chemical binding]; other site 297246007957 Switch I region; other site 297246007958 G2 box; other site 297246007959 G3 box; other site 297246007960 Switch II region; other site 297246007961 G4 box; other site 297246007962 G5 box; other site 297246007963 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 297246007964 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 297246007965 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 297246007966 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 297246007967 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 297246007968 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 297246007969 Walker A/P-loop; other site 297246007970 ATP binding site [chemical binding]; other site 297246007971 Q-loop/lid; other site 297246007972 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 297246007973 ABC transporter signature motif; other site 297246007974 Walker B; other site 297246007975 D-loop; other site 297246007976 H-loop/switch region; other site 297246007977 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 297246007978 DNA-binding site [nucleotide binding]; DNA binding site 297246007979 RNA-binding motif; other site 297246007980 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246007981 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 297246007982 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246007983 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 297246007984 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 297246007985 Amidinotransferase; Region: Amidinotransf; pfam02274 297246007986 substrate of the Legionella pneumophila Dot/Icm system, truncated C_terminal part 297246007987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 297246007988 Helix-turn-helix domain; Region: HTH_38; pfam13936 297246007989 Integrase core domain; Region: rve; pfam00665 297246007990 transposase/IS protein; Provisional; Region: PRK09183 297246007991 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 297246007992 Walker A motif; other site 297246007993 ATP binding site [chemical binding]; other site 297246007994 Walker B motif; other site 297246007995 substrates of the Legionella pneumophila Dot/Icm system, truncated N_terminal part 297246007996 U-box domain; Region: U-box; cl17544 297246007997 U-box domain; Region: U-box; cl17544 297246007998 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 297246007999 active site 297246008000 nucleophile elbow; other site 297246008001 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 297246008002 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 297246008003 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 297246008004 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 297246008005 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 297246008006 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 297246008007 RNA binding site [nucleotide binding]; other site 297246008008 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 297246008009 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 297246008010 S-adenosylmethionine binding site [chemical binding]; other site 297246008011 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 297246008012 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 297246008013 glutaminase active site [active] 297246008014 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 297246008015 dimer interface [polypeptide binding]; other site 297246008016 active site 297246008017 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 297246008018 dimer interface [polypeptide binding]; other site 297246008019 active site 297246008020 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 297246008021 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 297246008022 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 297246008023 active site 297246008024 oxyanion hole [active] 297246008025 catalytic triad [active] 297246008026 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 297246008027 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 297246008028 GIY-YIG motif/motif A; other site 297246008029 putative active site [active] 297246008030 putative metal binding site [ion binding]; other site 297246008031 rhodanese superfamily protein; Provisional; Region: PRK05320 297246008032 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 297246008033 active site residue [active] 297246008034 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 297246008035 SmpB-tmRNA interface; other site 297246008036 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 297246008037 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 297246008038 catalytic triad [active] 297246008039 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 297246008040 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 297246008041 putative substrate translocation pore; other site 297246008042 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 297246008043 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 297246008044 putative active site [active] 297246008045 PhoH-like protein; Region: PhoH; pfam02562 297246008046 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 297246008047 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 297246008048 active site 297246008049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 297246008050 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 297246008051 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 297246008052 B1 nucleotide binding pocket [chemical binding]; other site 297246008053 B2 nucleotide binding pocket [chemical binding]; other site 297246008054 CAS motifs; other site 297246008055 active site 297246008056 TPR repeat; Region: TPR_11; pfam13414 297246008057 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 297246008058 TPR motif; other site 297246008059 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 297246008060 Methyltransferase domain; Region: Methyltransf_24; pfam13578 297246008061 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 297246008062 DNA-binding site [nucleotide binding]; DNA binding site 297246008063 RNA-binding motif; other site 297246008064 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 297246008065 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 297246008066 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 297246008067 Amidase; Region: Amidase; cl11426 297246008068 Oxygen tolerance; Region: BatD; pfam13584 297246008069 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 297246008070 binding surface 297246008071 TPR motif; other site 297246008072 Tetratricopeptide repeat; Region: TPR_16; pfam13432 297246008073 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 297246008074 metal ion-dependent adhesion site (MIDAS); other site 297246008075 Aerotolerance regulator N-terminal; Region: BatA; cl06567 297246008076 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 297246008077 metal ion-dependent adhesion site (MIDAS); other site 297246008078 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 297246008079 Protein of unknown function DUF58; Region: DUF58; pfam01882 297246008080 MoxR-like ATPases [General function prediction only]; Region: COG0714 297246008081 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 297246008082 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 297246008083 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 297246008084 FMN binding site [chemical binding]; other site 297246008085 active site 297246008086 catalytic residues [active] 297246008087 substrate binding site [chemical binding]; other site 297246008088 pteridine reductase; Provisional; Region: PRK09135 297246008089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246008090 NAD(P) binding site [chemical binding]; other site 297246008091 active site 297246008092 Uncharacterized conserved protein [Function unknown]; Region: COG1565 297246008093 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 297246008094 primosome assembly protein PriA; Validated; Region: PRK05580 297246008095 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 297246008096 ATP binding site [chemical binding]; other site 297246008097 putative Mg++ binding site [ion binding]; other site 297246008098 nucleotide binding region [chemical binding]; other site 297246008099 helicase superfamily c-terminal domain; Region: HELICc; smart00490 297246008100 ATP-binding site [chemical binding]; other site 297246008101 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 297246008102 active site 297246008103 thymidylate synthase; Reviewed; Region: thyA; PRK01827 297246008104 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 297246008105 dimerization interface [polypeptide binding]; other site 297246008106 active site 297246008107 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 297246008108 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 297246008109 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 297246008110 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 297246008111 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 297246008112 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 297246008113 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 297246008114 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 297246008115 putative active site [active] 297246008116 Ap4A binding site [chemical binding]; other site 297246008117 nudix motif; other site 297246008118 putative metal binding site [ion binding]; other site 297246008119 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 297246008120 active site 297246008121 homodimer interface [polypeptide binding]; other site 297246008122 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 297246008123 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 297246008124 Substrate binding site; other site 297246008125 Mg++ binding site; other site 297246008126 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 297246008127 active site 297246008128 substrate binding site [chemical binding]; other site 297246008129 CoA binding site [chemical binding]; other site 297246008130 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 297246008131 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 297246008132 transmembrane helices; other site 297246008133 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 297246008134 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 297246008135 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 297246008136 oligomer interface [polypeptide binding]; other site 297246008137 metal binding site [ion binding]; metal-binding site 297246008138 metal binding site [ion binding]; metal-binding site 297246008139 Cl binding site [ion binding]; other site 297246008140 aspartate ring; other site 297246008141 basic sphincter; other site 297246008142 putative hydrophobic gate; other site 297246008143 periplasmic entrance; other site 297246008144 endonuclease III; Provisional; Region: PRK10702 297246008145 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 297246008146 minor groove reading motif; other site 297246008147 helix-hairpin-helix signature motif; other site 297246008148 substrate binding pocket [chemical binding]; other site 297246008149 active site 297246008150 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 297246008151 ferredoxin; Provisional; Region: PRK08764 297246008152 Putative Fe-S cluster; Region: FeS; pfam04060 297246008153 4Fe-4S binding domain; Region: Fer4; pfam00037 297246008154 4Fe-4S binding domain; Region: Fer4; cl02805 297246008155 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 297246008156 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 297246008157 active site 297246008158 HIGH motif; other site 297246008159 KMSKS motif; other site 297246008160 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 297246008161 anticodon binding site; other site 297246008162 tRNA binding surface [nucleotide binding]; other site 297246008163 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 297246008164 dimer interface [polypeptide binding]; other site 297246008165 putative tRNA-binding site [nucleotide binding]; other site 297246008166 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 297246008167 Flavoprotein; Region: Flavoprotein; pfam02441 297246008168 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 297246008169 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 297246008170 Ligand Binding Site [chemical binding]; other site 297246008171 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 297246008172 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 297246008173 Substrate binding site; other site 297246008174 Cupin domain; Region: Cupin_2; cl17218 297246008175 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 297246008176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 297246008177 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 297246008178 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 297246008179 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 297246008180 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 297246008181 S-adenosylmethionine binding site [chemical binding]; other site 297246008182 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 297246008183 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 297246008184 P-loop; other site 297246008185 Magnesium ion binding site [ion binding]; other site 297246008186 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 297246008187 Magnesium ion binding site [ion binding]; other site 297246008188 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 297246008189 ParB-like nuclease domain; Region: ParBc; pfam02195 297246008190 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 297246008191 putative active site [active] 297246008192 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 297246008193 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 297246008194 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 297246008195 Coenzyme A binding pocket [chemical binding]; other site 297246008196 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 297246008197 Subunit III/VIIa interface [polypeptide binding]; other site 297246008198 Phospholipid binding site [chemical binding]; other site 297246008199 Subunit I/III interface [polypeptide binding]; other site 297246008200 Subunit III/VIb interface [polypeptide binding]; other site 297246008201 Subunit III/VIa interface; other site 297246008202 Subunit III/Vb interface [polypeptide binding]; other site 297246008203 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 297246008204 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 297246008205 Subunit I/III interface [polypeptide binding]; other site 297246008206 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 297246008207 D-pathway; other site 297246008208 Subunit I/VIIc interface [polypeptide binding]; other site 297246008209 Subunit I/IV interface [polypeptide binding]; other site 297246008210 Subunit I/II interface [polypeptide binding]; other site 297246008211 Low-spin heme (heme a) binding site [chemical binding]; other site 297246008212 Subunit I/VIIa interface [polypeptide binding]; other site 297246008213 Subunit I/VIa interface [polypeptide binding]; other site 297246008214 Dimer interface; other site 297246008215 Putative water exit pathway; other site 297246008216 Binuclear center (heme a3/CuB) [ion binding]; other site 297246008217 K-pathway; other site 297246008218 Subunit I/Vb interface [polypeptide binding]; other site 297246008219 Putative proton exit pathway; other site 297246008220 Subunit I/VIb interface; other site 297246008221 Subunit I/VIc interface [polypeptide binding]; other site 297246008222 Electron transfer pathway; other site 297246008223 Subunit I/VIIIb interface [polypeptide binding]; other site 297246008224 Subunit I/VIIb interface [polypeptide binding]; other site 297246008225 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 297246008226 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00168 297246008227 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 297246008228 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 297246008229 Cytochrome c; Region: Cytochrom_C; pfam00034 297246008230 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 297246008231 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 297246008232 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 297246008233 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 297246008234 iron-sulfur cluster [ion binding]; other site 297246008235 [2Fe-2S] cluster binding site [ion binding]; other site 297246008236 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 297246008237 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 297246008238 Lysine efflux permease [General function prediction only]; Region: COG1279 297246008239 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 297246008240 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 297246008241 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 297246008242 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 297246008243 S-adenosylmethionine binding site [chemical binding]; other site 297246008244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 297246008245 SCP-2 sterol transfer family; Region: SCP2; pfam02036 297246008246 SCP-2 sterol transfer family; Region: SCP2; cl01225 297246008247 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 297246008248 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 297246008249 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 297246008250 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 297246008251 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 297246008252 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 297246008253 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 297246008254 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 297246008255 tyramine oxidase; Provisional; Region: tynA; PRK11504 297246008256 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 297246008257 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 297246008258 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 297246008259 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 297246008260 Predicted acetyltransferase [General function prediction only]; Region: COG5628 297246008261 Transglycosylase SLT domain; Region: SLT_2; pfam13406 297246008262 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 297246008263 N-acetyl-D-glucosamine binding site [chemical binding]; other site 297246008264 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 297246008265 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 297246008266 FtsX-like permease family; Region: FtsX; pfam02687 297246008267 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 297246008268 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 297246008269 Walker A/P-loop; other site 297246008270 ATP binding site [chemical binding]; other site 297246008271 Q-loop/lid; other site 297246008272 ABC transporter signature motif; other site 297246008273 Walker B; other site 297246008274 D-loop; other site 297246008275 H-loop/switch region; other site 297246008276 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 297246008277 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 297246008278 HlyD family secretion protein; Region: HlyD_3; pfam13437 297246008279 Outer membrane efflux protein; Region: OEP; pfam02321 297246008280 Outer membrane efflux protein; Region: OEP; pfam02321 297246008281 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 297246008282 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 297246008283 active site 297246008284 metal binding site [ion binding]; metal-binding site 297246008285 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 297246008286 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 297246008287 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 297246008288 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 297246008289 S-adenosylmethionine binding site [chemical binding]; other site 297246008290 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 297246008291 tetramerization interface [polypeptide binding]; other site 297246008292 active site 297246008293 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 297246008294 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 297246008295 FMN reductase; Validated; Region: fre; PRK08051 297246008296 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 297246008297 FAD binding pocket [chemical binding]; other site 297246008298 FAD binding motif [chemical binding]; other site 297246008299 phosphate binding motif [ion binding]; other site 297246008300 beta-alpha-beta structure motif; other site 297246008301 NAD binding pocket [chemical binding]; other site 297246008302 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 297246008303 transcription termination factor Rho; Provisional; Region: rho; PRK09376 297246008304 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 297246008305 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 297246008306 RNA binding site [nucleotide binding]; other site 297246008307 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 297246008308 multimer interface [polypeptide binding]; other site 297246008309 Walker A motif; other site 297246008310 ATP binding site [chemical binding]; other site 297246008311 Walker B motif; other site 297246008312 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 297246008313 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 297246008314 catalytic residues [active] 297246008315 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 297246008316 RNA methyltransferase, RsmE family; Region: TIGR00046 297246008317 fumarate hydratase; Reviewed; Region: fumC; PRK00485 297246008318 Class II fumarases; Region: Fumarase_classII; cd01362 297246008319 active site 297246008320 tetramer interface [polypeptide binding]; other site 297246008321 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 297246008322 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 297246008323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 297246008324 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 297246008325 putative acyl-acceptor binding pocket; other site 297246008326 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 297246008327 putative acyl-acceptor binding pocket; other site 297246008328 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 297246008329 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 297246008330 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 297246008331 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 297246008332 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 297246008333 trimer interface [polypeptide binding]; other site 297246008334 active site 297246008335 UDP-GlcNAc binding site [chemical binding]; other site 297246008336 lipid binding site [chemical binding]; lipid-binding site 297246008337 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 297246008338 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 297246008339 active site 297246008340 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 297246008341 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 297246008342 Methyltransferase domain; Region: Methyltransf_23; pfam13489 297246008343 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 297246008344 S-adenosylmethionine binding site [chemical binding]; other site 297246008345 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 297246008346 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 297246008347 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 297246008348 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 297246008349 dimer interface [polypeptide binding]; other site 297246008350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246008351 catalytic residue [active] 297246008352 Histone methylation protein DOT1; Region: DOT1; pfam08123 297246008353 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 297246008354 IHF dimer interface [polypeptide binding]; other site 297246008355 IHF - DNA interface [nucleotide binding]; other site 297246008356 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 297246008357 trimer interface [polypeptide binding]; other site 297246008358 active site 297246008359 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 297246008360 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 297246008361 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 297246008362 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 297246008363 dimer interface [polypeptide binding]; other site 297246008364 active site residues [active] 297246008365 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 297246008366 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 297246008367 Legionella pneumophila major outer membrane protein precursor; Region: Legionella_OMP; pfam05150 297246008368 Legionella pneumophila major outer membrane protein precursor; Region: Legionella_OMP; pfam05150 297246008369 Legionella pneumophila major outer membrane protein precursor; Region: Legionella_OMP; pfam05150 297246008370 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 297246008371 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 297246008372 ligand binding site [chemical binding]; other site 297246008373 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 297246008374 active site 297246008375 substrate binding pocket [chemical binding]; other site 297246008376 dimer interface [polypeptide binding]; other site 297246008377 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 297246008378 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 297246008379 dimer interface [polypeptide binding]; other site 297246008380 catalytic site [active] 297246008381 putative active site [active] 297246008382 putative substrate binding site [chemical binding]; other site 297246008383 peroxidase; Provisional; Region: PRK15000 297246008384 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 297246008385 dimer interface [polypeptide binding]; other site 297246008386 decamer (pentamer of dimers) interface [polypeptide binding]; other site 297246008387 catalytic triad [active] 297246008388 peroxidatic and resolving cysteines [active] 297246008389 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 297246008390 putative GSH binding site [chemical binding]; other site 297246008391 catalytic residues [active] 297246008392 superoxide dismutase; Provisional; Region: PRK10543 297246008393 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 297246008394 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 297246008395 acetylornithine aminotransferase; Provisional; Region: PRK02627 297246008396 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 297246008397 inhibitor-cofactor binding pocket; inhibition site 297246008398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 297246008399 catalytic residue [active] 297246008400 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 297246008401 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 297246008402 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 297246008403 active site 297246008404 catalytic site [active] 297246008405 malate dehydrogenase; Provisional; Region: PRK13529 297246008406 Malic enzyme, N-terminal domain; Region: malic; pfam00390 297246008407 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 297246008408 NAD(P) binding site [chemical binding]; other site 297246008409 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 297246008410 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 297246008411 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 297246008412 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 297246008413 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 297246008414 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 297246008415 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 297246008416 active site 297246008417 Zn binding site [ion binding]; other site 297246008418 Rossmann-like domain; Region: Rossmann-like; pfam10727 297246008419 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 297246008420 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 297246008421 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 297246008422 CAP-like domain; other site 297246008423 active site 297246008424 primary dimer interface [polypeptide binding]; other site 297246008425 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 297246008426 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 297246008427 gamma subunit interface [polypeptide binding]; other site 297246008428 LBP interface [polypeptide binding]; other site 297246008429 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 297246008430 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 297246008431 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 297246008432 alpha subunit interaction interface [polypeptide binding]; other site 297246008433 Walker A motif; other site 297246008434 ATP binding site [chemical binding]; other site 297246008435 Walker B motif; other site 297246008436 inhibitor binding site; inhibition site 297246008437 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 297246008438 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 297246008439 core domain interface [polypeptide binding]; other site 297246008440 delta subunit interface [polypeptide binding]; other site 297246008441 epsilon subunit interface [polypeptide binding]; other site 297246008442 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 297246008443 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 297246008444 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 297246008445 beta subunit interaction interface [polypeptide binding]; other site 297246008446 Walker A motif; other site 297246008447 ATP binding site [chemical binding]; other site 297246008448 Walker B motif; other site 297246008449 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 297246008450 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 297246008451 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 297246008452 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 297246008453 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 297246008454 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 297246008455 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 297246008456 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 297246008457 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 297246008458 outer membrane lipoprotein; Provisional; Region: PRK11023 297246008459 BON domain; Region: BON; pfam04972 297246008460 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 297246008461 BON domain; Region: BON; pfam04972 297246008462 BON domain; Region: BON; cl02771 297246008463 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 297246008464 dimer interface [polypeptide binding]; other site 297246008465 active site 297246008466 hypothetical protein; Reviewed; Region: PRK12497 297246008467 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 297246008468 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 297246008469 putative ligand binding site [chemical binding]; other site 297246008470 Predicted methyltransferases [General function prediction only]; Region: COG0313 297246008471 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 297246008472 putative SAM binding site [chemical binding]; other site 297246008473 putative homodimer interface [polypeptide binding]; other site 297246008474 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 297246008475 Fatty acid desaturase; Region: FA_desaturase; pfam00487 297246008476 Di-iron ligands [ion binding]; other site 297246008477 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 297246008478 Sulfate transporter family; Region: Sulfate_transp; pfam00916 297246008479 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 297246008480 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 297246008481 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 297246008482 ligand binding site [chemical binding]; other site 297246008483 flexible hinge region; other site 297246008484 Astacin (Peptidase family M12A); Region: Astacin; pfam01400 297246008485 Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to...; Region: ZnMc_astacin_like; cd04280 297246008486 active site 297246008487 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 297246008488 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 297246008489 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 297246008490 GTP/Mg2+ binding site [chemical binding]; other site 297246008491 G4 box; other site 297246008492 G5 box; other site 297246008493 trmE is a tRNA modification GTPase; Region: trmE; cd04164 297246008494 G1 box; other site 297246008495 G1 box; other site 297246008496 GTP/Mg2+ binding site [chemical binding]; other site 297246008497 Switch I region; other site 297246008498 Switch I region; other site 297246008499 G2 box; other site 297246008500 G2 box; other site 297246008501 Switch II region; other site 297246008502 G3 box; other site 297246008503 G4 box; other site 297246008504 G5 box; other site 297246008505 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 297246008506 membrane protein insertase; Provisional; Region: PRK01318 297246008507 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 297246008508 hypothetical protein; Provisional; Region: PRK14380 297246008509 Ribonuclease P; Region: Ribonuclease_P; cl00457 297246008510 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399