-- dump date 20140619_023033 -- class Genbank::misc_feature -- table misc_feature_note -- id note 459349000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 459349000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 459349000003 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 459349000004 Walker A motif; other site 459349000005 ATP binding site [chemical binding]; other site 459349000006 Walker B motif; other site 459349000007 arginine finger; other site 459349000008 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 459349000009 DnaA box-binding interface [nucleotide binding]; other site 459349000010 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 459349000011 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 459349000012 SurA N-terminal domain; Region: SurA_N_3; cl07813 459349000013 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 459349000014 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 459349000015 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 459349000016 tetramer interfaces [polypeptide binding]; other site 459349000017 binuclear metal-binding site [ion binding]; other site 459349000018 Preprotein translocase subunit; Region: YajC; pfam02699 459349000019 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 459349000020 active site 459349000021 catalytic residues [active] 459349000022 metal binding site [ion binding]; metal-binding site 459349000023 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 459349000024 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 459349000025 putative active site [active] 459349000026 substrate binding site [chemical binding]; other site 459349000027 putative cosubstrate binding site; other site 459349000028 catalytic site [active] 459349000029 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 459349000030 substrate binding site [chemical binding]; other site 459349000031 Protein of unknown function DUF116; Region: DUF116; pfam01976 459349000032 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 459349000033 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 459349000034 generic binding surface I; other site 459349000035 generic binding surface II; other site 459349000036 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 459349000037 dockerin binding interface; other site 459349000038 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 459349000039 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 459349000040 active site 459349000041 metal binding site [ion binding]; metal-binding site 459349000042 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000043 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 459349000044 Radical SAM superfamily; Region: Radical_SAM; pfam04055 459349000045 FeS/SAM binding site; other site 459349000046 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 459349000047 PAP2_like_5 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_5; cd03394 459349000048 active site 459349000049 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 459349000050 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 459349000051 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 459349000052 FeS/SAM binding site; other site 459349000053 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 459349000054 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 459349000055 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 459349000056 Peptidase family C25; Region: Peptidase_C25; pfam01364 459349000057 active site 459349000058 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349000059 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 459349000060 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 459349000061 putative acyl-acceptor binding pocket; other site 459349000062 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 459349000063 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 459349000064 metal ion-dependent adhesion site (MIDAS); other site 459349000065 fumarate hydratase; Provisional; Region: PRK06246 459349000066 Fumarase C-terminus; Region: Fumerase_C; cl00795 459349000067 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 459349000068 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349000069 Interdomain contacts; other site 459349000070 Cytokine receptor motif; other site 459349000071 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000072 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 459349000073 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 459349000074 dihydrodipicolinate synthase; Region: dapA; TIGR00674 459349000075 dimer interface [polypeptide binding]; other site 459349000076 active site 459349000077 catalytic residue [active] 459349000078 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 459349000079 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 459349000080 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 459349000081 Peptidase M16C associated; Region: M16C_assoc; pfam08367 459349000082 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 459349000083 ribosome small subunit-dependent GTPase A; Region: TIGR00157 459349000084 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 459349000085 GTPase/Zn-binding domain interface [polypeptide binding]; other site 459349000086 GTP/Mg2+ binding site [chemical binding]; other site 459349000087 G4 box; other site 459349000088 G5 box; other site 459349000089 G1 box; other site 459349000090 Switch I region; other site 459349000091 G2 box; other site 459349000092 G3 box; other site 459349000093 Switch II region; other site 459349000094 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 459349000095 ATP-NAD kinase; Region: NAD_kinase; pfam01513 459349000096 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 459349000097 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 459349000098 Walker A/P-loop; other site 459349000099 ATP binding site [chemical binding]; other site 459349000100 Q-loop/lid; other site 459349000101 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 459349000102 ABC transporter signature motif; other site 459349000103 Walker B; other site 459349000104 D-loop; other site 459349000105 H-loop/switch region; other site 459349000106 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 459349000107 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 459349000108 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 459349000109 minor groove reading motif; other site 459349000110 helix-hairpin-helix signature motif; other site 459349000111 substrate binding pocket [chemical binding]; other site 459349000112 active site 459349000113 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 459349000114 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 459349000115 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 459349000116 active site 459349000117 phosphorylation site [posttranslational modification] 459349000118 intermolecular recognition site; other site 459349000119 dimerization interface [polypeptide binding]; other site 459349000120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349000121 Zn2+ binding site [ion binding]; other site 459349000122 Mg2+ binding site [ion binding]; other site 459349000123 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 459349000124 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 459349000125 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 459349000126 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 459349000127 HflX GTPase family; Region: HflX; cd01878 459349000128 G1 box; other site 459349000129 GTP/Mg2+ binding site [chemical binding]; other site 459349000130 Switch I region; other site 459349000131 G2 box; other site 459349000132 G3 box; other site 459349000133 Switch II region; other site 459349000134 G4 box; other site 459349000135 G5 box; other site 459349000136 DNA primase; Validated; Region: dnaG; PRK05667 459349000137 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 459349000138 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 459349000139 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 459349000140 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 459349000141 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 459349000142 oligomer interface [polypeptide binding]; other site 459349000143 putative active site [active] 459349000144 metal binding site [ion binding]; metal-binding site 459349000145 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 459349000146 Tetratricopeptide repeat; Region: TPR_6; pfam13174 459349000147 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 459349000148 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 459349000149 active site 459349000150 (T/H)XGH motif; other site 459349000151 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349000152 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 459349000153 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 459349000154 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 459349000155 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 459349000156 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 459349000157 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 459349000158 ATP binding site [chemical binding]; other site 459349000159 putative Mg++ binding site [ion binding]; other site 459349000160 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 459349000161 nucleotide binding region [chemical binding]; other site 459349000162 ATP-binding site [chemical binding]; other site 459349000163 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 459349000164 dimerization interface [polypeptide binding]; other site 459349000165 putative DNA binding site [nucleotide binding]; other site 459349000166 putative Zn2+ binding site [ion binding]; other site 459349000167 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 459349000168 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349000169 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349000170 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 459349000171 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 459349000172 Walker A/P-loop; other site 459349000173 ATP binding site [chemical binding]; other site 459349000174 Q-loop/lid; other site 459349000175 ABC transporter signature motif; other site 459349000176 Walker B; other site 459349000177 D-loop; other site 459349000178 H-loop/switch region; other site 459349000179 Cna protein B-type domain; Region: Cna_B_2; pfam13715 459349000180 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 459349000181 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 459349000182 Homeodomain-like domain; Region: HTH_23; pfam13384 459349000183 Winged helix-turn helix; Region: HTH_29; pfam13551 459349000184 Winged helix-turn helix; Region: HTH_33; pfam13592 459349000185 DDE superfamily endonuclease; Region: DDE_3; pfam13358 459349000186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 459349000187 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 459349000188 Winged helix-turn helix; Region: HTH_29; pfam13551 459349000189 Helix-turn-helix domain; Region: HTH_28; pfam13518 459349000190 Homeodomain-like domain; Region: HTH_32; pfam13565 459349000191 Integrase core domain; Region: rve; pfam00665 459349000192 PEGA domain; Region: PEGA; pfam08308 459349000193 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 459349000194 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 459349000195 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 459349000196 ligand binding site [chemical binding]; other site 459349000197 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 459349000198 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 459349000199 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 459349000200 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 459349000201 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 459349000202 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 459349000203 Right handed beta helix region; Region: Beta_helix; pfam13229 459349000204 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349000205 Interdomain contacts; other site 459349000206 Cytokine receptor motif; other site 459349000207 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000208 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 459349000209 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349000210 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 459349000211 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 459349000212 FtsX-like permease family; Region: FtsX; pfam02687 459349000213 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 459349000214 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 459349000215 Walker A/P-loop; other site 459349000216 ATP binding site [chemical binding]; other site 459349000217 Q-loop/lid; other site 459349000218 ABC transporter signature motif; other site 459349000219 Walker B; other site 459349000220 D-loop; other site 459349000221 H-loop/switch region; other site 459349000222 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 459349000223 HlyD family secretion protein; Region: HlyD_3; pfam13437 459349000224 Outer membrane efflux protein; Region: OEP; pfam02321 459349000225 Outer membrane efflux protein; Region: OEP; pfam02321 459349000226 ornithine carbamoyltransferase; Validated; Region: PRK02102 459349000227 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 459349000228 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 459349000229 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349000230 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349000231 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 459349000232 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 459349000233 non-specific DNA binding site [nucleotide binding]; other site 459349000234 salt bridge; other site 459349000235 sequence-specific DNA binding site [nucleotide binding]; other site 459349000236 Domain of unknown function (DUF955); Region: DUF955; cl01076 459349000237 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 459349000238 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 459349000239 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 459349000240 Active site serine [active] 459349000241 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 459349000242 Peptidase family M28; Region: Peptidase_M28; pfam04389 459349000243 metal binding site [ion binding]; metal-binding site 459349000244 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349000245 Interdomain contacts; other site 459349000246 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000247 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 459349000248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349000249 NAD(P) binding site [chemical binding]; other site 459349000250 active site 459349000251 SLBB domain; Region: SLBB; pfam10531 459349000252 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 459349000253 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 459349000254 inhibitor-cofactor binding pocket; inhibition site 459349000255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349000256 catalytic residue [active] 459349000257 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 459349000258 Ligand binding site [chemical binding]; other site 459349000259 Electron transfer flavoprotein domain; Region: ETF; pfam01012 459349000260 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 459349000261 adenylosuccinate lyase; Provisional; Region: PRK07492 459349000262 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 459349000263 tetramer interface [polypeptide binding]; other site 459349000264 active site 459349000265 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 459349000266 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 459349000267 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 459349000268 putative dimer interface [polypeptide binding]; other site 459349000269 GTP-binding protein LepA; Provisional; Region: PRK05433 459349000270 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 459349000271 G1 box; other site 459349000272 putative GEF interaction site [polypeptide binding]; other site 459349000273 GTP/Mg2+ binding site [chemical binding]; other site 459349000274 Switch I region; other site 459349000275 G2 box; other site 459349000276 G3 box; other site 459349000277 Switch II region; other site 459349000278 G4 box; other site 459349000279 G5 box; other site 459349000280 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 459349000281 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 459349000282 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 459349000283 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349000284 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349000285 Surface antigen; Region: Bac_surface_Ag; pfam01103 459349000286 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 459349000287 non-specific DNA binding site [nucleotide binding]; other site 459349000288 Predicted transcriptional regulator [Transcription]; Region: COG2932 459349000289 salt bridge; other site 459349000290 sequence-specific DNA binding site [nucleotide binding]; other site 459349000291 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 459349000292 Catalytic site [active] 459349000293 RmuC family; Region: RmuC; pfam02646 459349000294 Thiamine pyrophosphokinase; Region: TPK; cd07995 459349000295 active site 459349000296 dimerization interface [polypeptide binding]; other site 459349000297 thiamine binding site [chemical binding]; other site 459349000298 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 459349000299 Peptidase family M23; Region: Peptidase_M23; pfam01551 459349000300 DNA protecting protein DprA; Region: dprA; TIGR00732 459349000301 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 459349000302 GTPase CgtA; Reviewed; Region: obgE; PRK12299 459349000303 GTP1/OBG; Region: GTP1_OBG; pfam01018 459349000304 Obg GTPase; Region: Obg; cd01898 459349000305 G1 box; other site 459349000306 GTP/Mg2+ binding site [chemical binding]; other site 459349000307 Switch I region; other site 459349000308 G2 box; other site 459349000309 G3 box; other site 459349000310 Switch II region; other site 459349000311 G4 box; other site 459349000312 G5 box; other site 459349000313 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000314 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349000315 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 459349000316 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 459349000317 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 459349000318 ABC-ATPase subunit interface; other site 459349000319 dimer interface [polypeptide binding]; other site 459349000320 putative PBP binding regions; other site 459349000321 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 459349000322 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 459349000323 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 459349000324 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 459349000325 intersubunit interface [polypeptide binding]; other site 459349000326 multifunctional aminopeptidase A; Provisional; Region: PRK00913 459349000327 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 459349000328 interface (dimer of trimers) [polypeptide binding]; other site 459349000329 Substrate-binding/catalytic site; other site 459349000330 Zn-binding sites [ion binding]; other site 459349000331 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 459349000332 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 459349000333 Surface antigen; Region: Bac_surface_Ag; pfam01103 459349000334 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 459349000335 mce related protein; Region: MCE; pfam02470 459349000336 Predicted permeases [General function prediction only]; Region: COG0679 459349000337 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 459349000338 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 459349000339 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 459349000340 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 459349000341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349000342 homodimer interface [polypeptide binding]; other site 459349000343 catalytic residue [active] 459349000344 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 459349000345 dimer interface [polypeptide binding]; other site 459349000346 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 459349000347 Putative zinc-finger; Region: zf-HC2; pfam13490 459349000348 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 459349000349 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 459349000350 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 459349000351 DNA binding residues [nucleotide binding] 459349000352 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 459349000353 putative transposase OrfB; Reviewed; Region: PHA02517 459349000354 Integrase core domain; Region: rve; pfam00665 459349000355 Integrase core domain; Region: rve_3; pfam13683 459349000356 MjaI restriction endonuclease; Region: RE_MjaI; pfam09568 459349000357 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349000358 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349000359 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349000360 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349000361 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 459349000362 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349000363 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349000364 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349000365 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349000366 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 459349000367 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 459349000368 trmE is a tRNA modification GTPase; Region: trmE; cd04164 459349000369 G1 box; other site 459349000370 GTP/Mg2+ binding site [chemical binding]; other site 459349000371 Switch I region; other site 459349000372 G2 box; other site 459349000373 Switch II region; other site 459349000374 G3 box; other site 459349000375 G4 box; other site 459349000376 G5 box; other site 459349000377 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 459349000378 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 459349000379 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 459349000380 TPP-binding site; other site 459349000381 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 459349000382 PYR/PP interface [polypeptide binding]; other site 459349000383 dimer interface [polypeptide binding]; other site 459349000384 TPP binding site [chemical binding]; other site 459349000385 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 459349000386 Aerotolerance regulator N-terminal; Region: BatA; cl06567 459349000387 von Willebrand factor type A domain; Region: VWA_2; pfam13519 459349000388 metal ion-dependent adhesion site (MIDAS); other site 459349000389 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 459349000390 active site 459349000391 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 459349000392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 459349000393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 459349000394 catalytic residue [active] 459349000395 uncharacterized subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_2; cd10915 459349000396 putative active site [active] 459349000397 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000398 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 459349000399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349000400 Coenzyme A binding pocket [chemical binding]; other site 459349000401 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 459349000402 D-hydantoinase; Region: D-hydantoinase; TIGR02033 459349000403 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 459349000404 active site 459349000405 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 459349000406 mce related protein; Region: MCE; pfam02470 459349000407 DNA methylase; Region: N6_N4_Mtase; cl17433 459349000408 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 459349000409 S-adenosylmethionine binding site [chemical binding]; other site 459349000410 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 459349000411 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 459349000412 active site 459349000413 Zn binding site [ion binding]; other site 459349000414 Zn binding site [ion binding]; other site 459349000415 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349000416 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 459349000417 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 459349000418 peptide chain release factor 1; Validated; Region: prfA; PRK00591 459349000419 PCRF domain; Region: PCRF; pfam03462 459349000420 RF-1 domain; Region: RF-1; pfam00472 459349000421 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 459349000422 Domain of unknown function DUF21; Region: DUF21; pfam01595 459349000423 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 459349000424 Transporter associated domain; Region: CorC_HlyC; smart01091 459349000425 glutamate formiminotransferase; Region: FtcD; TIGR02024 459349000426 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 459349000427 Formiminotransferase domain; Region: FTCD; pfam02971 459349000428 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 459349000429 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 459349000430 putative active site [active] 459349000431 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 459349000432 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 459349000433 RNA binding surface [nucleotide binding]; other site 459349000434 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 459349000435 propionate/acetate kinase; Provisional; Region: PRK12379 459349000436 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000437 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 459349000438 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 459349000439 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349000440 Coenzyme A binding pocket [chemical binding]; other site 459349000441 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 459349000442 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 459349000443 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 459349000444 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 459349000445 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 459349000446 protein binding site [polypeptide binding]; other site 459349000447 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 459349000448 Domain interface; other site 459349000449 Peptide binding site; other site 459349000450 Active site tetrad [active] 459349000451 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 459349000452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 459349000453 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 459349000454 Nidogen-like; Region: NIDO; cl02648 459349000455 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 459349000456 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 459349000457 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349000458 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 459349000459 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000460 Leucine-rich repeats; other site 459349000461 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000462 Substrate binding site [chemical binding]; other site 459349000463 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000464 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000465 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000466 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000467 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000468 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000469 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000470 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 459349000471 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000472 Leucine-rich repeats; other site 459349000473 Substrate binding site [chemical binding]; other site 459349000474 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000475 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000476 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000477 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000478 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000479 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000480 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 459349000481 Leucine-rich repeats; other site 459349000482 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000483 Substrate binding site [chemical binding]; other site 459349000484 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000485 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000486 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000487 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000488 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000489 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000490 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 459349000491 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 459349000492 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 459349000493 Phage-related protein [Function unknown]; Region: COG4695; cl01923 459349000494 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 459349000495 catalytic residue [active] 459349000496 Predicted type IV restriction endonuclease [Defense mechanisms]; Region: COG2810 459349000497 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 459349000498 HsdM N-terminal domain; Region: HsdM_N; pfam12161 459349000499 Methyltransferase domain; Region: Methyltransf_26; pfam13659 459349000500 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 459349000501 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 459349000502 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 459349000503 DEAD-like helicases superfamily; Region: DEXDc; smart00487 459349000504 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 459349000505 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 459349000506 ATP binding site [chemical binding]; other site 459349000507 putative Mg++ binding site [ion binding]; other site 459349000508 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 459349000509 non-specific DNA binding site [nucleotide binding]; other site 459349000510 salt bridge; other site 459349000511 sequence-specific DNA binding site [nucleotide binding]; other site 459349000512 Domain of unknown function (DUF955); Region: DUF955; cl01076 459349000513 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 459349000514 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 459349000515 Terminase-like family; Region: Terminase_6; pfam03237 459349000516 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 459349000517 Helix-turn-helix domain; Region: HTH_17; pfam12728 459349000518 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 459349000519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349000520 AAA domain; Region: AAA_22; pfam13401 459349000521 Walker A/P-loop; other site 459349000522 ATP binding site [chemical binding]; other site 459349000523 ABC transporter signature motif; other site 459349000524 Walker B; other site 459349000525 D-loop; other site 459349000526 Integrase core domain; Region: rve; pfam00665 459349000527 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 459349000528 Helix-turn-helix domain; Region: HTH_17; pfam12728 459349000529 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 459349000530 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 459349000531 non-specific DNA binding site [nucleotide binding]; other site 459349000532 salt bridge; other site 459349000533 sequence-specific DNA binding site [nucleotide binding]; other site 459349000534 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 459349000535 Catalytic site [active] 459349000536 cyclase homology domain; Region: CHD; cd07302 459349000537 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 459349000538 nucleotidyl binding site; other site 459349000539 metal binding site [ion binding]; metal-binding site 459349000540 dimer interface [polypeptide binding]; other site 459349000541 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 459349000542 cyclase homology domain; Region: CHD; cd07302 459349000543 nucleotidyl binding site; other site 459349000544 metal binding site [ion binding]; metal-binding site 459349000545 dimer interface [polypeptide binding]; other site 459349000546 AAA ATPase domain; Region: AAA_16; pfam13191 459349000547 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349000548 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 459349000549 binding surface 459349000550 TPR motif; other site 459349000551 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349000552 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 459349000553 binding surface 459349000554 TPR motif; other site 459349000555 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349000556 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 459349000557 binding surface 459349000558 TPR motif; other site 459349000559 M6 family metalloprotease domain; Region: M6dom_TIGR03296 459349000560 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 459349000561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349000562 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 459349000563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349000564 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 459349000565 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 459349000566 S-adenosylmethionine binding site [chemical binding]; other site 459349000567 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 459349000568 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 459349000569 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 459349000570 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 459349000571 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 459349000572 generic binding surface II; other site 459349000573 generic binding surface I; other site 459349000574 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 459349000575 FMN binding site [chemical binding]; other site 459349000576 dimer interface [polypeptide binding]; other site 459349000577 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 459349000578 ribonuclease III; Reviewed; Region: rnc; PRK00102 459349000579 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 459349000580 dimerization interface [polypeptide binding]; other site 459349000581 active site 459349000582 metal binding site [ion binding]; metal-binding site 459349000583 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 459349000584 dsRNA binding site [nucleotide binding]; other site 459349000585 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 459349000586 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 459349000587 dimer interface [polypeptide binding]; other site 459349000588 active site 459349000589 acyl carrier protein; Provisional; Region: acpP; PRK00982 459349000590 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 459349000591 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 459349000592 NAD(P) binding site [chemical binding]; other site 459349000593 homotetramer interface [polypeptide binding]; other site 459349000594 homodimer interface [polypeptide binding]; other site 459349000595 active site 459349000596 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 459349000597 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 459349000598 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 459349000599 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 459349000600 dimer interface [polypeptide binding]; other site 459349000601 active site 459349000602 CoA binding pocket [chemical binding]; other site 459349000603 putative phosphate acyltransferase; Provisional; Region: PRK05331 459349000604 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 459349000605 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 459349000606 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 459349000607 active site 459349000608 catalytic residues [active] 459349000609 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349000610 Interdomain contacts; other site 459349000611 Cytokine receptor motif; other site 459349000612 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000613 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 459349000614 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 459349000615 active site 459349000616 HIGH motif; other site 459349000617 nucleotide binding site [chemical binding]; other site 459349000618 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 459349000619 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 459349000620 active site 459349000621 KMSKS motif; other site 459349000622 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 459349000623 tRNA binding surface [nucleotide binding]; other site 459349000624 anticodon binding site; other site 459349000625 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 459349000626 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 459349000627 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 459349000628 active site 459349000629 Sm and related proteins; Region: Sm_like; cl00259 459349000630 ribosome maturation protein RimP; Reviewed; Region: PRK00092 459349000631 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 459349000632 putative oligomer interface [polypeptide binding]; other site 459349000633 putative RNA binding site [nucleotide binding]; other site 459349000634 transcription termination factor NusA; Region: NusA; TIGR01953 459349000635 NusA N-terminal domain; Region: NusA_N; pfam08529 459349000636 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 459349000637 RNA binding site [nucleotide binding]; other site 459349000638 homodimer interface [polypeptide binding]; other site 459349000639 NusA-like KH domain; Region: KH_5; pfam13184 459349000640 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 459349000641 G-X-X-G motif; other site 459349000642 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 459349000643 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 459349000644 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 459349000645 translation initiation factor IF-2; Region: IF-2; TIGR00487 459349000646 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 459349000647 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 459349000648 G1 box; other site 459349000649 putative GEF interaction site [polypeptide binding]; other site 459349000650 GTP/Mg2+ binding site [chemical binding]; other site 459349000651 Switch I region; other site 459349000652 G2 box; other site 459349000653 G3 box; other site 459349000654 Switch II region; other site 459349000655 G4 box; other site 459349000656 G5 box; other site 459349000657 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 459349000658 Translation-initiation factor 2; Region: IF-2; pfam11987 459349000659 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 459349000660 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 459349000661 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 459349000662 DHH family; Region: DHH; pfam01368 459349000663 DHHA1 domain; Region: DHHA1; pfam02272 459349000664 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 459349000665 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 459349000666 RNA binding site [nucleotide binding]; other site 459349000667 active site 459349000668 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 459349000669 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 459349000670 active site 459349000671 Riboflavin kinase; Region: Flavokinase; pfam01687 459349000672 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000673 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 459349000674 generic binding surface I; other site 459349000675 generic binding surface II; other site 459349000676 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349000677 Zn2+ binding site [ion binding]; other site 459349000678 Mg2+ binding site [ion binding]; other site 459349000679 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 459349000680 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 459349000681 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 459349000682 ATP binding site [chemical binding]; other site 459349000683 putative Mg++ binding site [ion binding]; other site 459349000684 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 459349000685 Zn binding site [ion binding]; other site 459349000686 nucleotide binding region [chemical binding]; other site 459349000687 helicase superfamily c-terminal domain; Region: HELICc; smart00490 459349000688 ATP-binding site [chemical binding]; other site 459349000689 HEAT repeats; Region: HEAT_2; pfam13646 459349000690 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 459349000691 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 459349000692 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 459349000693 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 459349000694 P-loop; other site 459349000695 Magnesium ion binding site [ion binding]; other site 459349000696 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 459349000697 Magnesium ion binding site [ion binding]; other site 459349000698 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 459349000699 ParB-like nuclease domain; Region: ParBc; pfam02195 459349000700 KorB domain; Region: KorB; pfam08535 459349000701 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 459349000702 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 459349000703 NAD binding site [chemical binding]; other site 459349000704 substrate binding site [chemical binding]; other site 459349000705 homodimer interface [polypeptide binding]; other site 459349000706 active site 459349000707 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 459349000708 peptidase T-like protein; Region: PepT-like; TIGR01883 459349000709 metal binding site [ion binding]; metal-binding site 459349000710 putative dimer interface [polypeptide binding]; other site 459349000711 dihydrodipicolinate reductase; Provisional; Region: PRK00048 459349000712 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 459349000713 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 459349000714 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 459349000715 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 459349000716 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 459349000717 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 459349000718 Helix-turn-helix domain; Region: HTH_25; pfam13413 459349000719 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 459349000720 dimer interface [polypeptide binding]; other site 459349000721 pyridoxal binding site [chemical binding]; other site 459349000722 ATP binding site [chemical binding]; other site 459349000723 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 459349000724 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 459349000725 active site 459349000726 metal binding site [ion binding]; metal-binding site 459349000727 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 459349000728 Fe-S cluster binding site [ion binding]; other site 459349000729 active site 459349000730 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 459349000731 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 459349000732 catalytic site [active] 459349000733 G-X2-G-X-G-K; other site 459349000734 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 459349000735 lipoyl attachment site [posttranslational modification]; other site 459349000736 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 459349000737 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 459349000738 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 459349000739 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 459349000740 dimer interface [polypeptide binding]; other site 459349000741 substrate binding site [chemical binding]; other site 459349000742 metal binding site [ion binding]; metal-binding site 459349000743 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 459349000744 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 459349000745 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 459349000746 TPP-binding site [chemical binding]; other site 459349000747 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 459349000748 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 459349000749 dimer interface [polypeptide binding]; other site 459349000750 PYR/PP interface [polypeptide binding]; other site 459349000751 TPP binding site [chemical binding]; other site 459349000752 substrate binding site [chemical binding]; other site 459349000753 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349000754 aspartate aminotransferase; Provisional; Region: PRK08361 459349000755 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 459349000756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349000757 homodimer interface [polypeptide binding]; other site 459349000758 catalytic residue [active] 459349000759 SurA N-terminal domain; Region: SurA_N_3; cl07813 459349000760 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 459349000761 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 459349000762 nucleotide binding site/active site [active] 459349000763 HIT family signature motif; other site 459349000764 catalytic residue [active] 459349000765 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 459349000766 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 459349000767 active site 459349000768 catalytic residues [active] 459349000769 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349000770 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 459349000771 DNA methylase; Region: N6_N4_Mtase; cl17433 459349000772 Probable zinc-binding domain; Region: zf-trcl; pfam13451 459349000773 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 459349000774 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 459349000775 Caspase domain; Region: Peptidase_C14; pfam00656 459349000776 Uncharacterized conserved protein [Function unknown]; Region: COG1262 459349000777 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 459349000778 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 459349000779 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349000780 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 459349000781 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 459349000782 dimer interface [polypeptide binding]; other site 459349000783 motif 1; other site 459349000784 active site 459349000785 motif 2; other site 459349000786 motif 3; other site 459349000787 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 459349000788 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 459349000789 DNA binding residues [nucleotide binding] 459349000790 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 459349000791 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 459349000792 putative active site [active] 459349000793 catalytic triad [active] 459349000794 putative dimer interface [polypeptide binding]; other site 459349000795 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 459349000796 DHH family; Region: DHH; pfam01368 459349000797 DHHA1 domain; Region: DHHA1; pfam02272 459349000798 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 459349000799 active site 459349000800 phosphorylation site [posttranslational modification] 459349000801 FOG: CBS domain [General function prediction only]; Region: COG0517 459349000802 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 459349000803 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 459349000804 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 459349000805 transmembrane helices; other site 459349000806 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 459349000807 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 459349000808 dimer interface [polypeptide binding]; other site 459349000809 PYR/PP interface [polypeptide binding]; other site 459349000810 TPP binding site [chemical binding]; other site 459349000811 substrate binding site [chemical binding]; other site 459349000812 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 459349000813 Domain of unknown function; Region: EKR; pfam10371 459349000814 4Fe-4S binding domain; Region: Fer4_6; pfam12837 459349000815 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349000816 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 459349000817 TPP-binding site [chemical binding]; other site 459349000818 dimer interface [polypeptide binding]; other site 459349000819 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 459349000820 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 459349000821 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 459349000822 substrate binding pocket [chemical binding]; other site 459349000823 chain length determination region; other site 459349000824 substrate-Mg2+ binding site; other site 459349000825 catalytic residues [active] 459349000826 aspartate-rich region 1; other site 459349000827 active site lid residues [active] 459349000828 aspartate-rich region 2; other site 459349000829 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 459349000830 trimer interface [polypeptide binding]; other site 459349000831 active site 459349000832 Quinolinate synthetase A protein; Region: NadA; pfam02445 459349000833 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 459349000834 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 459349000835 TPR motif; other site 459349000836 binding surface 459349000837 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 459349000838 Clp amino terminal domain; Region: Clp_N; pfam02861 459349000839 Clp amino terminal domain; Region: Clp_N; pfam02861 459349000840 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 459349000841 Walker A motif; other site 459349000842 ATP binding site [chemical binding]; other site 459349000843 Walker B motif; other site 459349000844 arginine finger; other site 459349000845 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 459349000846 Walker A motif; other site 459349000847 ATP binding site [chemical binding]; other site 459349000848 Walker B motif; other site 459349000849 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 459349000850 histidyl-tRNA synthetase; Region: hisS; TIGR00442 459349000851 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 459349000852 dimer interface [polypeptide binding]; other site 459349000853 motif 1; other site 459349000854 active site 459349000855 motif 2; other site 459349000856 motif 3; other site 459349000857 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 459349000858 anticodon binding site; other site 459349000859 TaqI restriction endonuclease; Region: RE_TaqI; pfam09573 459349000860 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 459349000861 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 459349000862 S-adenosylmethionine binding site [chemical binding]; other site 459349000863 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 459349000864 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 459349000865 homotrimer interaction site [polypeptide binding]; other site 459349000866 putative active site [active] 459349000867 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 459349000868 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 459349000869 catalytic core [active] 459349000870 AIR carboxylase; Region: AIRC; pfam00731 459349000871 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 459349000872 active site 459349000873 phosphorylation site [posttranslational modification] 459349000874 Lipopolysaccharide-assembly; Region: LptE; pfam04390 459349000875 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 459349000876 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 459349000877 RNA binding surface [nucleotide binding]; other site 459349000878 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 459349000879 active site 459349000880 GTP-binding protein YchF; Reviewed; Region: PRK09601 459349000881 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 459349000882 G1 box; other site 459349000883 GTP/Mg2+ binding site [chemical binding]; other site 459349000884 G2 box; other site 459349000885 Switch I region; other site 459349000886 G3 box; other site 459349000887 Switch II region; other site 459349000888 G4 box; other site 459349000889 G5 box; other site 459349000890 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 459349000891 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 459349000892 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 459349000893 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 459349000894 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 459349000895 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 459349000896 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 459349000897 Substrate binding site; other site 459349000898 Cupin domain; Region: Cupin_2; cl17218 459349000899 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 459349000900 putative FMN binding site [chemical binding]; other site 459349000901 NADPH bind site [chemical binding]; other site 459349000902 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349000903 DNA methylase; Region: N6_N4_Mtase; cl17433 459349000904 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349000905 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 459349000906 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349000907 Walker A/P-loop; other site 459349000908 ATP binding site [chemical binding]; other site 459349000909 Q-loop/lid; other site 459349000910 ABC transporter signature motif; other site 459349000911 Walker B; other site 459349000912 D-loop; other site 459349000913 H-loop/switch region; other site 459349000914 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 459349000915 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 459349000916 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 459349000917 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 459349000918 protein binding site [polypeptide binding]; other site 459349000919 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 459349000920 Catalytic dyad [active] 459349000921 thymidylate kinase; Validated; Region: tmk; PRK00698 459349000922 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 459349000923 TMP-binding site; other site 459349000924 ATP-binding site [chemical binding]; other site 459349000925 L-aspartate oxidase; Provisional; Region: PRK09077 459349000926 L-aspartate oxidase; Provisional; Region: PRK06175 459349000927 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 459349000928 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 459349000929 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349000930 Coenzyme A binding pocket [chemical binding]; other site 459349000931 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 459349000932 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 459349000933 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 459349000934 active site 459349000935 HIGH motif; other site 459349000936 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 459349000937 KMSK motif region; other site 459349000938 tRNA binding surface [nucleotide binding]; other site 459349000939 DALR anticodon binding domain; Region: DALR_1; smart00836 459349000940 anticodon binding site; other site 459349000941 Oligomerisation domain; Region: Oligomerisation; pfam02410 459349000942 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 459349000943 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 459349000944 nucleotide binding site/active site [active] 459349000945 HIT family signature motif; other site 459349000946 catalytic residue [active] 459349000947 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 459349000948 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 459349000949 Substrate binding site; other site 459349000950 Mg++ binding site; other site 459349000951 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 459349000952 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 459349000953 catalytic center binding site [active] 459349000954 ATP binding site [chemical binding]; other site 459349000955 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 459349000956 homooctamer interface [polypeptide binding]; other site 459349000957 active site 459349000958 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 459349000959 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 459349000960 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 459349000961 active site 459349000962 nucleotide binding site [chemical binding]; other site 459349000963 HIGH motif; other site 459349000964 KMSKS motif; other site 459349000965 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 459349000966 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 459349000967 putative ribose interaction site [chemical binding]; other site 459349000968 putative ADP binding site [chemical binding]; other site 459349000969 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 459349000970 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 459349000971 active site 459349000972 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 459349000973 active site 459349000974 Prokaryotic RING finger family 2; Region: Prok-RING_2; pfam14445 459349000975 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 459349000976 GTP-binding protein Der; Reviewed; Region: PRK00093 459349000977 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 459349000978 G1 box; other site 459349000979 GTP/Mg2+ binding site [chemical binding]; other site 459349000980 Switch I region; other site 459349000981 G2 box; other site 459349000982 Switch II region; other site 459349000983 G3 box; other site 459349000984 G4 box; other site 459349000985 G5 box; other site 459349000986 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 459349000987 G1 box; other site 459349000988 GTP/Mg2+ binding site [chemical binding]; other site 459349000989 Switch I region; other site 459349000990 G2 box; other site 459349000991 G3 box; other site 459349000992 Switch II region; other site 459349000993 G4 box; other site 459349000994 G5 box; other site 459349000995 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 459349000996 four helix bundle protein; Region: TIGR02436 459349000997 Winged helix-turn helix; Region: HTH_29; pfam13551 459349000998 Helix-turn-helix domain; Region: HTH_28; pfam13518 459349000999 Homeodomain-like domain; Region: HTH_32; pfam13565 459349001000 Integrase core domain; Region: rve; pfam00665 459349001001 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 459349001002 homodimer interface [polypeptide binding]; other site 459349001003 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 459349001004 active site pocket [active] 459349001005 Chromate transporter; Region: Chromate_transp; pfam02417 459349001006 Chromate transporter; Region: Chromate_transp; pfam02417 459349001007 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 459349001008 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 459349001009 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 459349001010 Uncharacterized conserved protein [Function unknown]; Region: COG0327 459349001011 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 459349001012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 459349001013 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 459349001014 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 459349001015 Radical SAM superfamily; Region: Radical_SAM; pfam04055 459349001016 FeS/SAM binding site; other site 459349001017 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 459349001018 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 459349001019 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 459349001020 Competence protein; Region: Competence; pfam03772 459349001021 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 459349001022 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 459349001023 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 459349001024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349001025 Walker A/P-loop; other site 459349001026 ATP binding site [chemical binding]; other site 459349001027 Q-loop/lid; other site 459349001028 ABC transporter signature motif; other site 459349001029 Walker B; other site 459349001030 D-loop; other site 459349001031 H-loop/switch region; other site 459349001032 Uncharacterized conserved protein [Function unknown]; Region: COG2966 459349001033 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 459349001034 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 459349001035 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 459349001036 HD supefamily hydrolase [General function prediction only]; Region: COG3294 459349001037 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 459349001038 butyrate kinase; Provisional; Region: PRK03011 459349001039 Clostripain family; Region: Peptidase_C11; pfam03415 459349001040 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349001041 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 459349001042 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 459349001043 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 459349001044 TRL-like protein family; Region: TRL; pfam13146 459349001045 thymidine kinase; Provisional; Region: PRK04296 459349001046 YGGT family; Region: YGGT; pfam02325 459349001047 DivIVA domain; Region: DivI1A_domain; TIGR03544 459349001048 DivIVA protein; Region: DivIVA; pfam05103 459349001049 purine nucleoside phosphorylase; Provisional; Region: PRK08202 459349001050 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 459349001051 lipoprotein signal peptidase; Provisional; Region: PRK14787 459349001052 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 459349001053 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 459349001054 generic binding surface II; other site 459349001055 generic binding surface I; other site 459349001056 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349001057 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 459349001058 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 459349001059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349001060 Walker A/P-loop; other site 459349001061 ATP binding site [chemical binding]; other site 459349001062 Q-loop/lid; other site 459349001063 ABC transporter signature motif; other site 459349001064 Walker B; other site 459349001065 D-loop; other site 459349001066 H-loop/switch region; other site 459349001067 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349001068 active site 459349001069 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 459349001070 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349001071 active site 459349001072 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 459349001073 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001074 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 459349001075 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 459349001076 putative metal binding site; other site 459349001077 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 459349001078 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001079 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 459349001080 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 459349001081 putative active site [active] 459349001082 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 459349001083 active site 459349001084 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 459349001085 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 459349001086 putative ATP binding site [chemical binding]; other site 459349001087 putative substrate interface [chemical binding]; other site 459349001088 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349001089 active site 459349001090 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 459349001091 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 459349001092 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 459349001093 imidazolonepropionase; Validated; Region: PRK09356 459349001094 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 459349001095 active site 459349001096 Protein kinase domain; Region: Pkinase; pfam00069 459349001097 Catalytic domain of Protein Kinases; Region: PKc; cd00180 459349001098 active site 459349001099 ATP binding site [chemical binding]; other site 459349001100 substrate binding site [chemical binding]; other site 459349001101 activation loop (A-loop); other site 459349001102 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 459349001103 Uncharacterized conserved protein [Function unknown]; Region: COG1262 459349001104 prolyl-tRNA synthetase; Provisional; Region: PRK08661 459349001105 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 459349001106 dimer interface [polypeptide binding]; other site 459349001107 motif 1; other site 459349001108 active site 459349001109 motif 2; other site 459349001110 motif 3; other site 459349001111 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 459349001112 anticodon binding site; other site 459349001113 zinc-binding site [ion binding]; other site 459349001114 competence damage-inducible protein A; Provisional; Region: PRK00549 459349001115 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 459349001116 putative MPT binding site; other site 459349001117 Competence-damaged protein; Region: CinA; pfam02464 459349001118 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 459349001119 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 459349001120 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 459349001121 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 459349001122 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349001123 Peptidase family C25; Region: Peptidase_C25; pfam01364 459349001124 active site 459349001125 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349001126 Uncharacterized protein family (UPF0164); Region: UPF0164; pfam03687 459349001127 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 459349001128 SLBB domain; Region: SLBB; pfam10531 459349001129 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 459349001130 Chain length determinant protein; Region: Wzz; cl15801 459349001131 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 459349001132 Chain length determinant protein; Region: Wzz; cl15801 459349001133 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 459349001134 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 459349001135 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 459349001136 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 459349001137 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 459349001138 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 459349001139 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 459349001140 active site 459349001141 Family description; Region: VCBS; pfam13517 459349001142 Family description; Region: VCBS; pfam13517 459349001143 Family description; Region: VCBS; pfam13517 459349001144 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 459349001145 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 459349001146 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 459349001147 dimerization interface [polypeptide binding]; other site 459349001148 domain crossover interface; other site 459349001149 redox-dependent activation switch; other site 459349001150 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 459349001151 Stage II sporulation protein; Region: SpoIID; pfam08486 459349001152 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 459349001153 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 459349001154 active site 459349001155 HIGH motif; other site 459349001156 KMSKS motif; other site 459349001157 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 459349001158 tRNA binding surface [nucleotide binding]; other site 459349001159 anticodon binding site; other site 459349001160 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 459349001161 dimer interface [polypeptide binding]; other site 459349001162 putative tRNA-binding site [nucleotide binding]; other site 459349001163 aspartate kinase I; Reviewed; Region: PRK08210 459349001164 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 459349001165 putative catalytic residues [active] 459349001166 putative nucleotide binding site [chemical binding]; other site 459349001167 putative aspartate binding site [chemical binding]; other site 459349001168 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349001169 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349001170 active site 459349001171 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 459349001172 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 459349001173 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349001174 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349001175 Cytokine receptor motif; other site 459349001176 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349001177 Uncharacterized conserved protein [Function unknown]; Region: COG5276 459349001178 LVIVD repeat; Region: LVIVD; pfam08309 459349001179 hybrid cluster protein; Provisional; Region: PRK05290 459349001180 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349001181 ACS interaction site; other site 459349001182 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 459349001183 hybrid metal cluster; other site 459349001184 Cupin domain; Region: Cupin_2; pfam07883 459349001185 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 459349001186 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 459349001187 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 459349001188 biotin synthase; Provisional; Region: PRK07094 459349001189 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 459349001190 FeS/SAM binding site; other site 459349001191 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 459349001192 hypothetical protein; Validated; Region: PRK00153 459349001193 recombination protein RecR; Reviewed; Region: recR; PRK00076 459349001194 RecR protein; Region: RecR; pfam02132 459349001195 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 459349001196 putative active site [active] 459349001197 putative metal-binding site [ion binding]; other site 459349001198 tetramer interface [polypeptide binding]; other site 459349001199 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 459349001200 Lumazine binding domain; Region: Lum_binding; pfam00677 459349001201 Lumazine binding domain; Region: Lum_binding; pfam00677 459349001202 Bacterial Ig-like domain; Region: Big_5; pfam13205 459349001203 Bacterial Ig-like domain; Region: Big_5; pfam13205 459349001204 30S ribosomal protein S7; Validated; Region: PRK05302 459349001205 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 459349001206 S17 interaction site [polypeptide binding]; other site 459349001207 S8 interaction site; other site 459349001208 16S rRNA interaction site [nucleotide binding]; other site 459349001209 streptomycin interaction site [chemical binding]; other site 459349001210 23S rRNA interaction site [nucleotide binding]; other site 459349001211 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 459349001212 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 459349001213 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 459349001214 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 459349001215 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 459349001216 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 459349001217 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 459349001218 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 459349001219 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 459349001220 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 459349001221 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 459349001222 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 459349001223 DNA binding site [nucleotide binding] 459349001224 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 459349001225 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 459349001226 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 459349001227 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 459349001228 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 459349001229 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 459349001230 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 459349001231 RPB3 interaction site [polypeptide binding]; other site 459349001232 RPB1 interaction site [polypeptide binding]; other site 459349001233 RPB11 interaction site [polypeptide binding]; other site 459349001234 RPB10 interaction site [polypeptide binding]; other site 459349001235 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 459349001236 peripheral dimer interface [polypeptide binding]; other site 459349001237 core dimer interface [polypeptide binding]; other site 459349001238 L10 interface [polypeptide binding]; other site 459349001239 L11 interface [polypeptide binding]; other site 459349001240 putative EF-Tu interaction site [polypeptide binding]; other site 459349001241 putative EF-G interaction site [polypeptide binding]; other site 459349001242 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 459349001243 23S rRNA interface [nucleotide binding]; other site 459349001244 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 459349001245 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 459349001246 mRNA/rRNA interface [nucleotide binding]; other site 459349001247 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 459349001248 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 459349001249 23S rRNA interface [nucleotide binding]; other site 459349001250 L7/L12 interface [polypeptide binding]; other site 459349001251 putative thiostrepton binding site; other site 459349001252 L25 interface [polypeptide binding]; other site 459349001253 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 459349001254 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 459349001255 putative homodimer interface [polypeptide binding]; other site 459349001256 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 459349001257 heterodimer interface [polypeptide binding]; other site 459349001258 homodimer interface [polypeptide binding]; other site 459349001259 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 459349001260 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 459349001261 elongation factor Tu; Reviewed; Region: PRK00049 459349001262 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 459349001263 G1 box; other site 459349001264 GEF interaction site [polypeptide binding]; other site 459349001265 GTP/Mg2+ binding site [chemical binding]; other site 459349001266 Switch I region; other site 459349001267 G2 box; other site 459349001268 G3 box; other site 459349001269 Switch II region; other site 459349001270 G4 box; other site 459349001271 G5 box; other site 459349001272 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 459349001273 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 459349001274 Antibiotic Binding Site [chemical binding]; other site 459349001275 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 459349001276 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 459349001277 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349001278 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349001279 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349001280 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 459349001281 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 459349001282 non-specific DNA binding site [nucleotide binding]; other site 459349001283 salt bridge; other site 459349001284 sequence-specific DNA binding site [nucleotide binding]; other site 459349001285 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 459349001286 Catalytic site [active] 459349001287 Helix-turn-helix domain; Region: HTH_17; pfam12728 459349001288 Integrase core domain; Region: rve; pfam00665 459349001289 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 459349001290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349001291 AAA domain; Region: AAA_22; pfam13401 459349001292 Walker A/P-loop; other site 459349001293 ATP binding site [chemical binding]; other site 459349001294 ABC transporter signature motif; other site 459349001295 Walker B; other site 459349001296 D-loop; other site 459349001297 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 459349001298 Helix-turn-helix domain; Region: HTH_17; pfam12728 459349001299 Terminase-like family; Region: Terminase_6; pfam03237 459349001300 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 459349001301 AAA domain; Region: AAA_23; pfam13476 459349001302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349001303 Walker A/P-loop; other site 459349001304 ATP binding site [chemical binding]; other site 459349001305 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 459349001306 putative active site [active] 459349001307 putative metal-binding site [ion binding]; other site 459349001308 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 459349001309 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 459349001310 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 459349001311 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 459349001312 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 459349001313 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 459349001314 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 459349001315 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 459349001316 ATP binding site [chemical binding]; other site 459349001317 putative Mg++ binding site [ion binding]; other site 459349001318 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 459349001319 catalytic residue [active] 459349001320 Phage-related protein [Function unknown]; Region: COG4695; cl01923 459349001321 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 459349001322 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 459349001323 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 459349001324 active sites [active] 459349001325 tetramer interface [polypeptide binding]; other site 459349001326 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 459349001327 TPR motif; other site 459349001328 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 459349001329 binding surface 459349001330 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 459349001331 binding surface 459349001332 TPR motif; other site 459349001333 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 459349001334 binding surface 459349001335 TPR motif; other site 459349001336 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 459349001337 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 459349001338 dimerization interface 3.5A [polypeptide binding]; other site 459349001339 active site 459349001340 histidyl-tRNA synthetase; Region: hisS; TIGR00442 459349001341 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 459349001342 dimer interface [polypeptide binding]; other site 459349001343 motif 1; other site 459349001344 active site 459349001345 motif 2; other site 459349001346 motif 3; other site 459349001347 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 459349001348 anticodon binding site; other site 459349001349 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 459349001350 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 459349001351 active site 459349001352 substrate binding site [chemical binding]; other site 459349001353 metal binding site [ion binding]; metal-binding site 459349001354 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 459349001355 active site 459349001356 dimerization interface [polypeptide binding]; other site 459349001357 Uncharacterized conserved protein [Function unknown]; Region: COG3339 459349001358 pyruvate phosphate dikinase; Provisional; Region: PRK09279 459349001359 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 459349001360 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 459349001361 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 459349001362 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349001363 Interdomain contacts; other site 459349001364 Cytokine receptor motif; other site 459349001365 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 459349001366 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349001367 Interdomain contacts; other site 459349001368 Cytokine receptor motif; other site 459349001369 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349001370 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 459349001371 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 459349001372 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 459349001373 active site 459349001374 metal binding site [ion binding]; metal-binding site 459349001375 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 459349001376 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 459349001377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349001378 Coenzyme A binding pocket [chemical binding]; other site 459349001379 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 459349001380 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 459349001381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 459349001382 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 459349001383 ABC transporter; Region: ABC_tran_2; pfam12848 459349001384 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 459349001385 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 459349001386 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 459349001387 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 459349001388 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 459349001389 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 459349001390 23S rRNA binding site [nucleotide binding]; other site 459349001391 L21 binding site [polypeptide binding]; other site 459349001392 L13 binding site [polypeptide binding]; other site 459349001393 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 459349001394 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 459349001395 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 459349001396 dimer interface [polypeptide binding]; other site 459349001397 motif 1; other site 459349001398 active site 459349001399 motif 2; other site 459349001400 motif 3; other site 459349001401 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 459349001402 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 459349001403 putative tRNA-binding site [nucleotide binding]; other site 459349001404 B3/4 domain; Region: B3_4; pfam03483 459349001405 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 459349001406 dimer interface [polypeptide binding]; other site 459349001407 motif 1; other site 459349001408 motif 3; other site 459349001409 motif 2; other site 459349001410 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 459349001411 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 459349001412 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 459349001413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349001414 Zn2+ binding site [ion binding]; other site 459349001415 Mg2+ binding site [ion binding]; other site 459349001416 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 459349001417 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 459349001418 putative active site [active] 459349001419 metal binding site [ion binding]; metal-binding site 459349001420 homodimer binding site [polypeptide binding]; other site 459349001421 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 459349001422 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 459349001423 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 459349001424 homodimer interface [polypeptide binding]; other site 459349001425 NADP binding site [chemical binding]; other site 459349001426 substrate binding site [chemical binding]; other site 459349001427 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 459349001428 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 459349001429 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 459349001430 G-X-X-G motif; other site 459349001431 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 459349001432 RxxxH motif; other site 459349001433 membrane protein insertase; Provisional; Region: PRK01318 459349001434 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 459349001435 Haemolytic domain; Region: Haemolytic; pfam01809 459349001436 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 9628904; Product type pe : putative enzyme 459349001437 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 459349001438 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 459349001439 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 459349001440 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 459349001441 ATP binding site [chemical binding]; other site 459349001442 putative Mg++ binding site [ion binding]; other site 459349001443 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 459349001444 nucleotide binding region [chemical binding]; other site 459349001445 ATP-binding site [chemical binding]; other site 459349001446 TRCF domain; Region: TRCF; pfam03461 459349001447 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 459349001448 Part of AAA domain; Region: AAA_19; pfam13245 459349001449 Family description; Region: UvrD_C_2; pfam13538 459349001450 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 459349001451 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 459349001452 binding surface 459349001453 TPR motif; other site 459349001454 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 459349001455 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 459349001456 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 459349001457 Mg++ binding site [ion binding]; other site 459349001458 putative catalytic motif [active] 459349001459 substrate binding site [chemical binding]; other site 459349001460 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349001461 Transposase IS200 like; Region: Y1_Tnp; cl00848 459349001462 Transposase IS200 like; Region: Y1_Tnp; cl00848 459349001463 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349001464 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349001465 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 459349001466 CARDB; Region: CARDB; pfam07705 459349001467 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349001468 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 459349001469 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 459349001470 active site 459349001471 ATP binding site [chemical binding]; other site 459349001472 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 459349001473 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 459349001474 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 459349001475 active site 459349001476 HIGH motif; other site 459349001477 nucleotide binding site [chemical binding]; other site 459349001478 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 459349001479 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 459349001480 active site 459349001481 KMSKS motif; other site 459349001482 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 459349001483 tRNA binding surface [nucleotide binding]; other site 459349001484 anticodon binding site; other site 459349001485 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 459349001486 elongation factor P; Validated; Region: PRK00529 459349001487 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 459349001488 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 459349001489 RNA binding site [nucleotide binding]; other site 459349001490 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 459349001491 RNA binding site [nucleotide binding]; other site 459349001492 M6 family metalloprotease domain; Region: M6dom_TIGR03296 459349001493 Family description; Region: VCBS; pfam13517 459349001494 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349001495 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 459349001496 catalytic triad [active] 459349001497 putative active site [active] 459349001498 Family description; Region: VCBS; pfam13517 459349001499 Family description; Region: VCBS; pfam13517 459349001500 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349001501 Bacterial Ig-like domain; Region: Big_5; pfam13205 459349001502 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349001503 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349001504 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349001505 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349001506 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349001507 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349001508 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 459349001509 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 459349001510 metal-binding site [ion binding] 459349001511 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 459349001512 Soluble P-type ATPase [General function prediction only]; Region: COG4087 459349001513 Transposase IS200 like; Region: Y1_Tnp; pfam01797 459349001514 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 459349001515 active site 459349001516 MutL protein; Region: MutL; pfam13941 459349001517 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 459349001518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 459349001519 active site 459349001520 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 459349001521 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 459349001522 putative active site [active] 459349001523 catalytic triad [active] 459349001524 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 459349001525 putative recombination protein RecB; Provisional; Region: PRK13909 459349001526 Family description; Region: UvrD_C_2; pfam13538 459349001527 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 459349001528 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 459349001529 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 459349001530 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 459349001531 putative active site [active] 459349001532 catalytic site [active] 459349001533 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 459349001534 putative active site [active] 459349001535 catalytic site [active] 459349001536 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 459349001537 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 459349001538 cobalamin binding residues [chemical binding]; other site 459349001539 putative BtuC binding residues; other site 459349001540 dimer interface [polypeptide binding]; other site 459349001541 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 459349001542 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 459349001543 ABC-ATPase subunit interface; other site 459349001544 dimer interface [polypeptide binding]; other site 459349001545 putative PBP binding regions; other site 459349001546 Homeodomain-like domain; Region: HTH_23; pfam13384 459349001547 Winged helix-turn helix; Region: HTH_29; pfam13551 459349001548 Winged helix-turn helix; Region: HTH_33; pfam13592 459349001549 DDE superfamily endonuclease; Region: DDE_3; pfam13358 459349001550 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349001551 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 459349001552 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 459349001553 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 459349001554 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 459349001555 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349001556 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 459349001557 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 459349001558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 459349001559 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 459349001560 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 459349001561 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 459349001562 dimerization interface [polypeptide binding]; other site 459349001563 putative ATP binding site [chemical binding]; other site 459349001564 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 459349001565 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 459349001566 substrate binding site [chemical binding]; other site 459349001567 ATP binding site [chemical binding]; other site 459349001568 aspartate aminotransferase; Provisional; Region: PRK05764 459349001569 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 459349001570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349001571 homodimer interface [polypeptide binding]; other site 459349001572 catalytic residue [active] 459349001573 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 459349001574 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 459349001575 DALR anticodon binding domain; Region: DALR_1; pfam05746 459349001576 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 459349001577 active site 459349001578 phosphorylation site [posttranslational modification] 459349001579 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 459349001580 HlyD family secretion protein; Region: HlyD_3; pfam13437 459349001581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349001582 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 459349001583 Walker A/P-loop; other site 459349001584 ATP binding site [chemical binding]; other site 459349001585 Q-loop/lid; other site 459349001586 ABC transporter signature motif; other site 459349001587 Walker B; other site 459349001588 D-loop; other site 459349001589 H-loop/switch region; other site 459349001590 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 459349001591 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 459349001592 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 459349001593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349001594 Coenzyme A binding pocket [chemical binding]; other site 459349001595 6-phosphofructokinase; Provisional; Region: PRK03202 459349001596 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 459349001597 active site 459349001598 ADP/pyrophosphate binding site [chemical binding]; other site 459349001599 dimerization interface [polypeptide binding]; other site 459349001600 allosteric effector site; other site 459349001601 fructose-1,6-bisphosphate binding site; other site 459349001602 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 459349001603 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 459349001604 active site 459349001605 HIGH motif; other site 459349001606 dimer interface [polypeptide binding]; other site 459349001607 KMSKS motif; other site 459349001608 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 459349001609 RNA binding surface [nucleotide binding]; other site 459349001610 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 459349001611 Peptidase family M50; Region: Peptidase_M50; pfam02163 459349001612 active site 459349001613 putative substrate binding region [chemical binding]; other site 459349001614 glutamine synthetase, type I; Region: GlnA; TIGR00653 459349001615 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 459349001616 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 459349001617 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349001618 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349001619 active site 459349001620 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 459349001621 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349001622 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 459349001623 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 459349001624 metal binding site [ion binding]; metal-binding site 459349001625 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 459349001626 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 459349001627 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 459349001628 RNB domain; Region: RNB; pfam00773 459349001629 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349001630 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 459349001631 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 459349001632 Mg++ binding site [ion binding]; other site 459349001633 putative catalytic motif [active] 459349001634 substrate binding site [chemical binding]; other site 459349001635 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001636 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 459349001637 putative ADP-binding pocket [chemical binding]; other site 459349001638 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 459349001639 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 459349001640 four helix bundle protein; Region: TIGR02436 459349001641 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 459349001642 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 459349001643 substrate binding site; other site 459349001644 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 459349001645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349001646 NAD(P) binding site [chemical binding]; other site 459349001647 active site 459349001648 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 459349001649 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 459349001650 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 459349001651 inhibitor-cofactor binding pocket; inhibition site 459349001652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349001653 catalytic residue [active] 459349001654 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 459349001655 FAD binding pocket [chemical binding]; other site 459349001656 conserved FAD binding motif [chemical binding]; other site 459349001657 phosphate binding motif [ion binding]; other site 459349001658 beta-alpha-beta structure motif; other site 459349001659 NAD binding pocket [chemical binding]; other site 459349001660 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 459349001661 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 459349001662 inhibitor-cofactor binding pocket; inhibition site 459349001663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349001664 catalytic residue [active] 459349001665 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 459349001666 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 459349001667 Probable Catalytic site; other site 459349001668 metal-binding site 459349001669 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 459349001670 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 459349001671 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 459349001672 Preprotein translocase subunit; Region: YajC; cl00806 459349001673 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 459349001674 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 459349001675 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 459349001676 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001677 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 459349001678 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 459349001679 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349001680 active site 459349001681 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 459349001682 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 459349001683 NAD binding site [chemical binding]; other site 459349001684 substrate binding site [chemical binding]; other site 459349001685 active site 459349001686 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 459349001687 four helix bundle protein; Region: TIGR02436 459349001688 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 459349001689 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 459349001690 inhibitor-cofactor binding pocket; inhibition site 459349001691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349001692 catalytic residue [active] 459349001693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 459349001694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349001695 Coenzyme A binding pocket [chemical binding]; other site 459349001696 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 459349001697 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 459349001698 putative trimer interface [polypeptide binding]; other site 459349001699 putative CoA binding site [chemical binding]; other site 459349001700 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 459349001701 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 459349001702 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 459349001703 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 459349001704 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 459349001705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001706 ATP-grasp domain; Region: ATP-grasp_4; cl17255 459349001707 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 459349001708 putative ADP-binding pocket [chemical binding]; other site 459349001709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001710 ATP-grasp domain; Region: ATP-grasp_4; cl17255 459349001711 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u5; cd10929 459349001712 putative active site [active] 459349001713 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 459349001714 active site 459349001715 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349001716 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 459349001717 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 459349001718 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 459349001719 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 459349001720 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 459349001721 catalytic residue [active] 459349001722 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 459349001723 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 459349001724 active site 459349001725 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 459349001726 homodimer interface [polypeptide binding]; other site 459349001727 GxxExxY protein; Region: GxxExxY; TIGR04256 459349001728 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 459349001729 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 459349001730 putative active site [active] 459349001731 Phosphopantetheine attachment site; Region: PP-binding; cl09936 459349001732 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 459349001733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 459349001734 AMP binding site [chemical binding]; other site 459349001735 active site 459349001736 acyl-activating enzyme (AAE) consensus motif; other site 459349001737 CoA binding site [chemical binding]; other site 459349001738 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 459349001739 classical (c) SDRs; Region: SDR_c; cd05233 459349001740 NAD(P) binding site [chemical binding]; other site 459349001741 active site 459349001742 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 459349001743 VanZ like family; Region: VanZ; pfam04892 459349001744 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 459349001745 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 459349001746 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 459349001747 putative active site [active] 459349001748 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 459349001749 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 459349001750 trimer interface [polypeptide binding]; other site 459349001751 active site 459349001752 substrate binding site [chemical binding]; other site 459349001753 CoA binding site [chemical binding]; other site 459349001754 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 459349001755 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 459349001756 dimer interface [polypeptide binding]; other site 459349001757 active site 459349001758 CoA binding pocket [chemical binding]; other site 459349001759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349001760 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 459349001761 NAD(P) binding site [chemical binding]; other site 459349001762 active site 459349001763 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 459349001764 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 459349001765 NAD binding site [chemical binding]; other site 459349001766 substrate binding site [chemical binding]; other site 459349001767 homodimer interface [polypeptide binding]; other site 459349001768 active site 459349001769 GxxExxY protein; Region: GxxExxY; TIGR04256 459349001770 GxxExxY protein; Region: GxxExxY; TIGR04256 459349001771 Bacterial sugar transferase; Region: Bac_transf; cl00939 459349001772 Transposase IS200 like; Region: Y1_Tnp; pfam01797 459349001773 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 459349001774 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 459349001775 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349001776 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 459349001777 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 459349001778 GxxExxY protein; Region: GxxExxY; TIGR04256 459349001779 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 459349001780 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 459349001781 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 459349001782 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 459349001783 MOFRL family; Region: MOFRL; pfam05161 459349001784 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 459349001785 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349001786 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349001787 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349001788 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 459349001789 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 459349001790 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 459349001791 DNA repair protein RadA; Provisional; Region: PRK11823 459349001792 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 459349001793 Walker A motif/ATP binding site; other site 459349001794 ATP binding site [chemical binding]; other site 459349001795 Walker B motif; other site 459349001796 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 459349001797 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 459349001798 catalytic residues [active] 459349001799 MarR family; Region: MarR_2; pfam12802 459349001800 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 459349001801 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 459349001802 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 459349001803 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 459349001804 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 459349001805 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 459349001806 active site 459349001807 peptidase; Reviewed; Region: PRK13004 459349001808 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 459349001809 putative metal binding site [ion binding]; other site 459349001810 putative dimer interface [polypeptide binding]; other site 459349001811 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 459349001812 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 459349001813 homodimer interface [polypeptide binding]; other site 459349001814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349001815 catalytic residue [active] 459349001816 Amidohydrolase; Region: Amidohydro_4; pfam13147 459349001817 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 459349001818 active site 459349001819 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 459349001820 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 459349001821 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 459349001822 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 459349001823 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 459349001824 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 459349001825 GxxExxY protein; Region: GxxExxY; TIGR04256 459349001826 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 459349001827 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 459349001828 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 459349001829 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 459349001830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349001831 NAD(P) binding site [chemical binding]; other site 459349001832 active site 459349001833 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 459349001834 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 459349001835 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 459349001836 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 459349001837 Dimer interface [polypeptide binding]; other site 459349001838 anticodon binding site; other site 459349001839 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 459349001840 homodimer interface [polypeptide binding]; other site 459349001841 motif 1; other site 459349001842 motif 2; other site 459349001843 active site 459349001844 motif 3; other site 459349001845 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 459349001846 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 459349001847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349001848 homodimer interface [polypeptide binding]; other site 459349001849 catalytic residue [active] 459349001850 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 459349001851 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 459349001852 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 459349001853 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 459349001854 active site 459349001855 ATP binding site [chemical binding]; other site 459349001856 Phosphotransferase enzyme family; Region: APH; pfam01636 459349001857 substrate binding site [chemical binding]; other site 459349001858 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 459349001859 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 459349001860 active site 459349001861 HIGH motif; other site 459349001862 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 459349001863 KMSKS motif; other site 459349001864 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 459349001865 tRNA binding surface [nucleotide binding]; other site 459349001866 anticodon binding site; other site 459349001867 Peptidase family C25; Region: Peptidase_C25; pfam01364 459349001868 active site 459349001869 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349001870 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 459349001871 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 459349001872 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 459349001873 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 459349001874 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 459349001875 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 459349001876 DNA binding residues [nucleotide binding] 459349001877 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 459349001878 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 459349001879 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 459349001880 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 459349001881 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 459349001882 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 459349001883 Peptidase family M23; Region: Peptidase_M23; pfam01551 459349001884 Acylphosphatase; Region: Acylphosphatase; pfam00708 459349001885 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 459349001886 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 459349001887 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 459349001888 PhoU domain; Region: PhoU; pfam01895 459349001889 PhoU domain; Region: PhoU; pfam01895 459349001890 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 459349001891 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 459349001892 putative active site [active] 459349001893 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 459349001894 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 459349001895 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 459349001896 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 459349001897 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 459349001898 active site 459349001899 dimer interface [polypeptide binding]; other site 459349001900 motif 1; other site 459349001901 motif 2; other site 459349001902 motif 3; other site 459349001903 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 459349001904 anticodon binding site; other site 459349001905 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 459349001906 Heavy-metal-associated domain; Region: HMA; pfam00403 459349001907 metal-binding site [ion binding] 459349001908 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 459349001909 Soluble P-type ATPase [General function prediction only]; Region: COG4087 459349001910 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 459349001911 dimerization interface [polypeptide binding]; other site 459349001912 putative DNA binding site [nucleotide binding]; other site 459349001913 putative Zn2+ binding site [ion binding]; other site 459349001914 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 459349001915 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 459349001916 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 459349001917 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 459349001918 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 459349001919 dimer interface [polypeptide binding]; other site 459349001920 active site 459349001921 glycine-pyridoxal phosphate binding site [chemical binding]; other site 459349001922 folate binding site [chemical binding]; other site 459349001923 exopolyphosphatase; Region: exo_poly_only; TIGR03706 459349001924 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 459349001925 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 459349001926 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 459349001927 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 459349001928 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 459349001929 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 459349001930 motif II; other site 459349001931 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 459349001932 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 459349001933 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 459349001934 GrpE; Region: GrpE; pfam01025 459349001935 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 459349001936 dimer interface [polypeptide binding]; other site 459349001937 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 459349001938 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 459349001939 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 459349001940 nucleotide binding site [chemical binding]; other site 459349001941 NEF interaction site [polypeptide binding]; other site 459349001942 SBD interface [polypeptide binding]; other site 459349001943 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 459349001944 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 459349001945 HSP70 interaction site [polypeptide binding]; other site 459349001946 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 459349001947 substrate binding site [polypeptide binding]; other site 459349001948 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 459349001949 Zn binding sites [ion binding]; other site 459349001950 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 459349001951 dimer interface [polypeptide binding]; other site 459349001952 RNA methyltransferase, RsmE family; Region: TIGR00046 459349001953 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 459349001954 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 459349001955 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 459349001956 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 459349001957 Response regulator receiver domain; Region: Response_reg; pfam00072 459349001958 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 459349001959 active site 459349001960 phosphorylation site [posttranslational modification] 459349001961 intermolecular recognition site; other site 459349001962 dimerization interface [polypeptide binding]; other site 459349001963 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 459349001964 active site 459349001965 ATP binding site [chemical binding]; other site 459349001966 substrate binding site [chemical binding]; other site 459349001967 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 459349001968 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 459349001969 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 459349001970 dimer interface [polypeptide binding]; other site 459349001971 conserved gate region; other site 459349001972 putative PBP binding loops; other site 459349001973 ABC-ATPase subunit interface; other site 459349001974 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 459349001975 dimer interface [polypeptide binding]; other site 459349001976 conserved gate region; other site 459349001977 putative PBP binding loops; other site 459349001978 ABC-ATPase subunit interface; other site 459349001979 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 459349001980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349001981 Walker A/P-loop; other site 459349001982 ATP binding site [chemical binding]; other site 459349001983 Q-loop/lid; other site 459349001984 ABC transporter signature motif; other site 459349001985 Walker B; other site 459349001986 D-loop; other site 459349001987 H-loop/switch region; other site 459349001988 TOBE domain; Region: TOBE_2; pfam08402 459349001989 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 459349001990 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 459349001991 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349001992 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 459349001993 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 459349001994 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 459349001995 motif II; other site 459349001996 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 459349001997 AMMECR1; Region: AMMECR1; pfam01871 459349001998 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 459349001999 putative ligand binding pocket/active site [active] 459349002000 putative metal binding site [ion binding]; other site 459349002001 Protein of unknown function, DUF399; Region: DUF399; pfam04187 459349002002 Uncharacterized conserved protein [Function unknown]; Region: COG1739 459349002003 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 459349002004 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 459349002005 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 459349002006 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 459349002007 active site 459349002008 DNA binding site [nucleotide binding] 459349002009 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 459349002010 cell division protein FtsZ; Validated; Region: PRK09330 459349002011 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 459349002012 nucleotide binding site [chemical binding]; other site 459349002013 SulA interaction site; other site 459349002014 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 459349002015 Cell division protein FtsA; Region: FtsA; smart00842 459349002016 Cell division protein FtsA; Region: FtsA; pfam14450 459349002017 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 459349002018 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 459349002019 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 459349002020 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 459349002021 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 459349002022 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 459349002023 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 459349002024 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 459349002025 active site 459349002026 homodimer interface [polypeptide binding]; other site 459349002027 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 459349002028 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 459349002029 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 459349002030 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 459349002031 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 459349002032 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 459349002033 Mg++ binding site [ion binding]; other site 459349002034 putative catalytic motif [active] 459349002035 putative substrate binding site [chemical binding]; other site 459349002036 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 459349002037 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 459349002038 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 459349002039 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 459349002040 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 459349002041 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 459349002042 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 459349002043 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 459349002044 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 459349002045 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 459349002046 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 459349002047 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 459349002048 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 459349002049 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 459349002050 S-adenosylmethionine binding site [chemical binding]; other site 459349002051 cell division protein MraZ; Reviewed; Region: PRK00326 459349002052 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 459349002053 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 459349002054 GIY-YIG motif/motif A; other site 459349002055 active site 459349002056 catalytic site [active] 459349002057 putative DNA binding site [nucleotide binding]; other site 459349002058 metal binding site [ion binding]; metal-binding site 459349002059 UvrB/uvrC motif; Region: UVR; pfam02151 459349002060 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 459349002061 Helix-hairpin-helix motif; Region: HHH; pfam00633 459349002062 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 459349002063 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 459349002064 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 459349002065 DNA polymerase III subunit delta'; Validated; Region: PRK08485 459349002066 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 459349002067 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 459349002068 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 459349002069 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 459349002070 FMN binding site [chemical binding]; other site 459349002071 active site 459349002072 catalytic residues [active] 459349002073 substrate binding site [chemical binding]; other site 459349002074 GAF domain; Region: GAF; pfam01590 459349002075 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349002076 Zn2+ binding site [ion binding]; other site 459349002077 Mg2+ binding site [ion binding]; other site 459349002078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349002079 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 459349002080 S-adenosylmethionine binding site [chemical binding]; other site 459349002081 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 459349002082 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 459349002083 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 459349002084 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 459349002085 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349002086 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; cl00198 459349002087 Phosphoglycerate kinase; Region: PGK; pfam00162 459349002088 substrate binding site [chemical binding]; other site 459349002089 ADP binding site [chemical binding]; other site 459349002090 catalytic site [active] 459349002091 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 459349002092 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 459349002093 heterodimer interface [polypeptide binding]; other site 459349002094 substrate interaction site [chemical binding]; other site 459349002095 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 459349002096 B12 binding site [chemical binding]; other site 459349002097 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 459349002098 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 459349002099 active site 459349002100 substrate binding site [chemical binding]; other site 459349002101 coenzyme B12 binding site [chemical binding]; other site 459349002102 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 459349002103 B12 binding site [chemical binding]; other site 459349002104 cobalt ligand [ion binding]; other site 459349002105 membrane ATPase/protein kinase; Provisional; Region: PRK09435 459349002106 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 459349002107 Walker A; other site 459349002108 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 459349002109 Cache domain; Region: Cache_1; pfam02743 459349002110 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 459349002111 dimerization interface [polypeptide binding]; other site 459349002112 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 459349002113 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 459349002114 NMT1/THI5 like; Region: NMT1; pfam09084 459349002115 CTP synthetase; Validated; Region: pyrG; PRK05380 459349002116 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 459349002117 Catalytic site [active] 459349002118 active site 459349002119 UTP binding site [chemical binding]; other site 459349002120 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 459349002121 active site 459349002122 putative oxyanion hole; other site 459349002123 catalytic triad [active] 459349002124 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 459349002125 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 459349002126 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 459349002127 catalytic residue [active] 459349002128 putative acyltransferase; Provisional; Region: PRK05790 459349002129 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 459349002130 dimer interface [polypeptide binding]; other site 459349002131 active site 459349002132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 459349002133 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 459349002134 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cl02479 459349002135 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349002136 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 459349002137 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 459349002138 catalytic residues [active] 459349002139 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 459349002140 oligomerisation interface [polypeptide binding]; other site 459349002141 mobile loop; other site 459349002142 roof hairpin; other site 459349002143 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 459349002144 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 459349002145 ATP-binding site [chemical binding]; other site 459349002146 Sugar specificity; other site 459349002147 Pyrimidine base specificity; other site 459349002148 excinuclease ABC subunit B; Provisional; Region: PRK05298 459349002149 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 459349002150 ATP binding site [chemical binding]; other site 459349002151 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 459349002152 putative Mg++ binding site [ion binding]; other site 459349002153 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 459349002154 nucleotide binding region [chemical binding]; other site 459349002155 ATP-binding site [chemical binding]; other site 459349002156 Ultra-violet resistance protein B; Region: UvrB; pfam12344 459349002157 UvrB/uvrC motif; Region: UVR; pfam02151 459349002158 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 459349002159 active site 459349002160 multimer interface [polypeptide binding]; other site 459349002161 TPR repeat; Region: TPR_11; pfam13414 459349002162 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 459349002163 binding surface 459349002164 TPR motif; other site 459349002165 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 459349002166 binding surface 459349002167 TPR motif; other site 459349002168 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 459349002169 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 459349002170 binding surface 459349002171 TPR motif; other site 459349002172 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 459349002173 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 459349002174 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 459349002175 Domain interface; other site 459349002176 Peptide binding site; other site 459349002177 Active site tetrad [active] 459349002178 Protein of unknown function (DUF342); Region: DUF342; pfam03961 459349002179 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 459349002180 H+ Antiporter protein; Region: 2A0121; TIGR00900 459349002181 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 459349002182 putative substrate translocation pore; other site 459349002183 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 459349002184 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 459349002185 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 459349002186 Walker A motif; other site 459349002187 ATP binding site [chemical binding]; other site 459349002188 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 459349002189 Walker B motif; other site 459349002190 arginine finger; other site 459349002191 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 459349002192 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 459349002193 active site 459349002194 HslU subunit interaction site [polypeptide binding]; other site 459349002195 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 459349002196 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 459349002197 Walker A motif; other site 459349002198 ATP binding site [chemical binding]; other site 459349002199 Walker B motif; other site 459349002200 arginine finger; other site 459349002201 Peptidase family M41; Region: Peptidase_M41; pfam01434 459349002202 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 459349002203 active site 459349002204 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 459349002205 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 459349002206 Ligand Binding Site [chemical binding]; other site 459349002207 TilS substrate C-terminal domain; Region: TilS_C; smart00977 459349002208 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 459349002209 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 459349002210 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 459349002211 nucleotide binding site [chemical binding]; other site 459349002212 polymerase nucleotide-binding site; other site 459349002213 primase nucleotide-binding site [nucleotide binding]; other site 459349002214 DNA-binding residues [nucleotide binding]; DNA binding site 459349002215 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 459349002216 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 459349002217 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 459349002218 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 459349002219 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 459349002220 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 459349002221 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 459349002222 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 459349002223 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl09839 459349002224 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 459349002225 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 459349002226 active site 459349002227 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 459349002228 binding surface 459349002229 TPR motif; other site 459349002230 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 459349002231 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 459349002232 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 459349002233 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 459349002234 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 459349002235 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 459349002236 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 459349002237 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 459349002238 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 459349002239 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 459349002240 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 459349002241 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 459349002242 putative active site [active] 459349002243 putative metal binding site [ion binding]; other site 459349002244 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349002245 UGMP family protein; Validated; Region: PRK09604 459349002246 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 459349002247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 459349002248 YbbR-like protein; Region: YbbR; pfam07949 459349002249 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 459349002250 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 459349002251 active site 459349002252 phosphorylation site [posttranslational modification] 459349002253 intermolecular recognition site; other site 459349002254 dimerization interface [polypeptide binding]; other site 459349002255 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 459349002256 Walker A motif; other site 459349002257 ATP binding site [chemical binding]; other site 459349002258 Walker B motif; other site 459349002259 arginine finger; other site 459349002260 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 459349002261 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 459349002262 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 459349002263 putative active site [active] 459349002264 catalytic site [active] 459349002265 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 459349002266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349002267 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 459349002268 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 459349002269 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 459349002270 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 459349002271 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 459349002272 alanine racemase; Reviewed; Region: alr; PRK00053 459349002273 active site 459349002274 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 459349002275 dimer interface [polypeptide binding]; other site 459349002276 substrate binding site [chemical binding]; other site 459349002277 catalytic residues [active] 459349002278 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 459349002279 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 459349002280 putative active site [active] 459349002281 PhoH-like protein; Region: PhoH; pfam02562 459349002282 Predicted GTPase [General function prediction only]; Region: COG2403 459349002283 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 459349002284 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 459349002285 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 459349002286 putative substrate binding site [chemical binding]; other site 459349002287 nucleotide binding site [chemical binding]; other site 459349002288 nucleotide binding site [chemical binding]; other site 459349002289 homodimer interface [polypeptide binding]; other site 459349002290 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349002291 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349002292 active site 459349002293 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 459349002294 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 459349002295 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 459349002296 NAD-dependent deacetylase; Provisional; Region: PRK00481 459349002297 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 459349002298 NAD+ binding site [chemical binding]; other site 459349002299 substrate binding site [chemical binding]; other site 459349002300 Zn binding site [ion binding]; other site 459349002301 uncharacterized subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_2; cd10915 459349002302 putative active site [active] 459349002303 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349002304 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 459349002305 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349002306 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 459349002307 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 459349002308 Ligand Binding Site [chemical binding]; other site 459349002309 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 459349002310 GMP synthase; Reviewed; Region: guaA; PRK00074 459349002311 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 459349002312 AMP/PPi binding site [chemical binding]; other site 459349002313 candidate oxyanion hole; other site 459349002314 catalytic triad [active] 459349002315 potential glutamine specificity residues [chemical binding]; other site 459349002316 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 459349002317 ATP Binding subdomain [chemical binding]; other site 459349002318 Ligand Binding sites [chemical binding]; other site 459349002319 Dimerization subdomain; other site 459349002320 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 459349002321 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 459349002322 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 459349002323 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 459349002324 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 459349002325 FeS/SAM binding site; other site 459349002326 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 459349002327 trimer interface [polypeptide binding]; other site 459349002328 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 459349002329 exopolyphosphatase; Region: exo_poly_only; TIGR03706 459349002330 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 459349002331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 459349002332 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 459349002333 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 459349002334 FeS/SAM binding site; other site 459349002335 hypothetical protein; Provisional; Region: PRK11820 459349002336 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 459349002337 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 459349002338 ribonuclease R; Region: RNase_R; TIGR02063 459349002339 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 459349002340 RNB domain; Region: RNB; pfam00773 459349002341 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 459349002342 RNA binding site [nucleotide binding]; other site 459349002343 glutamate racemase; Provisional; Region: PRK00865 459349002344 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 459349002345 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 459349002346 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 459349002347 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 459349002348 active site 459349002349 dimer interface [polypeptide binding]; other site 459349002350 effector binding site; other site 459349002351 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 459349002352 TSCPD domain; Region: TSCPD; pfam12637 459349002353 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 459349002354 ApbE family; Region: ApbE; pfam02424 459349002355 putative GTP cyclohydrolase; Provisional; Region: PRK13674 459349002356 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 459349002357 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 459349002358 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 459349002359 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 459349002360 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 459349002361 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 459349002362 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 459349002363 hypothetical protein; Provisional; Region: PRK07329 459349002364 active site 459349002365 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 459349002366 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 459349002367 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 459349002368 FeS/SAM binding site; other site 459349002369 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 459349002370 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 459349002371 Ligand Binding Site [chemical binding]; other site 459349002372 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 459349002373 active site 459349002374 homotetramer interface [polypeptide binding]; other site 459349002375 homodimer interface [polypeptide binding]; other site 459349002376 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349002377 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 459349002378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349002379 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 459349002380 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 459349002381 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 459349002382 16S rRNA methyltransferase B; Provisional; Region: PRK14902 459349002383 NusB family; Region: NusB; pfam01029 459349002384 putative RNA binding site [nucleotide binding]; other site 459349002385 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 459349002386 S-adenosylmethionine binding site [chemical binding]; other site 459349002387 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 459349002388 RuvA N terminal domain; Region: RuvA_N; pfam01330 459349002389 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 459349002390 active site 459349002391 putative DNA-binding cleft [nucleotide binding]; other site 459349002392 dimer interface [polypeptide binding]; other site 459349002393 hypothetical protein; Validated; Region: PRK00110 459349002394 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 459349002395 elongation factor G; Reviewed; Region: PRK12740 459349002396 G1 box; other site 459349002397 putative GEF interaction site [polypeptide binding]; other site 459349002398 GTP/Mg2+ binding site [chemical binding]; other site 459349002399 Switch I region; other site 459349002400 G2 box; other site 459349002401 G3 box; other site 459349002402 Switch II region; other site 459349002403 G4 box; other site 459349002404 G5 box; other site 459349002405 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 459349002406 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 459349002407 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 459349002408 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 459349002409 Transglycosylase; Region: Transgly; cl17702 459349002410 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 459349002411 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 459349002412 PLD-like domain; Region: PLDc_2; pfam13091 459349002413 putative homodimer interface [polypeptide binding]; other site 459349002414 putative active site [active] 459349002415 catalytic site [active] 459349002416 DEAD-like helicases superfamily; Region: DEXDc; smart00487 459349002417 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 459349002418 ATP binding site [chemical binding]; other site 459349002419 putative Mg++ binding site [ion binding]; other site 459349002420 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 459349002421 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 459349002422 nucleotide binding region [chemical binding]; other site 459349002423 ATP-binding site [chemical binding]; other site 459349002424 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 459349002425 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 459349002426 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 459349002427 AAA domain; Region: AAA_21; pfam13304 459349002428 RloB-like protein; Region: RloB; pfam13707 459349002429 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 459349002430 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349002431 ABC transporter signature motif; other site 459349002432 Walker B; other site 459349002433 D-loop; other site 459349002434 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 459349002435 nucleoside/Zn binding site; other site 459349002436 dimer interface [polypeptide binding]; other site 459349002437 catalytic motif [active] 459349002438 SurA N-terminal domain; Region: SurA_N_3; cl07813 459349002439 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 459349002440 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 459349002441 MutS domain I; Region: MutS_I; pfam01624 459349002442 MutS domain II; Region: MutS_II; pfam05188 459349002443 MutS domain III; Region: MutS_III; pfam05192 459349002444 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 459349002445 Walker A/P-loop; other site 459349002446 ATP binding site [chemical binding]; other site 459349002447 Q-loop/lid; other site 459349002448 ABC transporter signature motif; other site 459349002449 Walker B; other site 459349002450 D-loop; other site 459349002451 H-loop/switch region; other site 459349002452 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 459349002453 TPR motif; other site 459349002454 binding surface 459349002455 Sporulation related domain; Region: SPOR; pfam05036 459349002456 transcription termination factor Rho; Provisional; Region: rho; PRK09376 459349002457 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 459349002458 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 459349002459 RNA binding site [nucleotide binding]; other site 459349002460 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 459349002461 multimer interface [polypeptide binding]; other site 459349002462 Walker A motif; other site 459349002463 ATP binding site [chemical binding]; other site 459349002464 Walker B motif; other site 459349002465 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 459349002466 S-adenosylmethionine binding site [chemical binding]; other site 459349002467 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 459349002468 nucleophile elbow; other site 459349002469 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 459349002470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349002471 Walker A/P-loop; other site 459349002472 ATP binding site [chemical binding]; other site 459349002473 Q-loop/lid; other site 459349002474 ABC transporter signature motif; other site 459349002475 Walker B; other site 459349002476 D-loop; other site 459349002477 H-loop/switch region; other site 459349002478 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 459349002479 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 459349002480 CAAX protease self-immunity; Region: Abi; pfam02517 459349002481 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 459349002482 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 459349002483 glutaminase active site [active] 459349002484 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 459349002485 dimer interface [polypeptide binding]; other site 459349002486 active site 459349002487 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 459349002488 dimer interface [polypeptide binding]; other site 459349002489 active site 459349002490 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 459349002491 generic binding surface I; other site 459349002492 generic binding surface II; other site 459349002493 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 459349002494 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 459349002495 substrate-cofactor binding pocket; other site 459349002496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349002497 catalytic residue [active] 459349002498 Predicted methyltransferases [General function prediction only]; Region: COG0313 459349002499 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 459349002500 putative SAM binding site [chemical binding]; other site 459349002501 putative homodimer interface [polypeptide binding]; other site 459349002502 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 459349002503 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 459349002504 motif II; other site 459349002505 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 459349002506 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 459349002507 hydroxyglutarate oxidase; Provisional; Region: PRK11728 459349002508 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 459349002509 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 459349002510 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 459349002511 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 459349002512 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 459349002513 Predicted permeases [General function prediction only]; Region: COG0795 459349002514 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 459349002515 Predicted permeases [General function prediction only]; Region: COG0795 459349002516 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 459349002517 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 459349002518 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 459349002519 nucleotide binding pocket [chemical binding]; other site 459349002520 K-X-D-G motif; other site 459349002521 catalytic site [active] 459349002522 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 459349002523 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 459349002524 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 459349002525 Dimer interface [polypeptide binding]; other site 459349002526 BRCT sequence motif; other site 459349002527 Predicted amidohydrolase [General function prediction only]; Region: COG0388 459349002528 Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Ph0642_like; cd07577 459349002529 putative active site [active] 459349002530 catalytic triad [active] 459349002531 dimer interface [polypeptide binding]; other site 459349002532 putative tetramer interface [polypeptide binding]; other site 459349002533 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 459349002534 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 459349002535 G1 box; other site 459349002536 GTP/Mg2+ binding site [chemical binding]; other site 459349002537 Switch I region; other site 459349002538 G2 box; other site 459349002539 Switch II region; other site 459349002540 G3 box; other site 459349002541 G4 box; other site 459349002542 G5 box; other site 459349002543 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 459349002544 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 459349002545 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 459349002546 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 459349002547 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 459349002548 glycogen binding site [chemical binding]; other site 459349002549 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 459349002550 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 459349002551 active site 459349002552 homodimer interface [polypeptide binding]; other site 459349002553 catalytic site [active] 459349002554 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 459349002555 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 459349002556 IHF dimer interface [polypeptide binding]; other site 459349002557 IHF - DNA interface [nucleotide binding]; other site 459349002558 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349002559 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 459349002560 binding surface 459349002561 TPR motif; other site 459349002562 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349002563 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 459349002564 binding surface 459349002565 TPR motif; other site 459349002566 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349002567 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 459349002568 binding surface 459349002569 TPR motif; other site 459349002570 TPR repeat; Region: TPR_11; pfam13414 459349002571 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 459349002572 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 459349002573 Catalytic site [active] 459349002574 hypothetical protein; Provisional; Region: PRK10621 459349002575 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 459349002576 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 459349002577 TPR repeat; Region: TPR_11; pfam13414 459349002578 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 459349002579 binding surface 459349002580 TPR motif; other site 459349002581 TPR repeat; Region: TPR_11; pfam13414 459349002582 EamA-like transporter family; Region: EamA; pfam00892 459349002583 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 459349002584 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 459349002585 active site 459349002586 DNA polymerase IV; Validated; Region: PRK02406 459349002587 DNA binding site [nucleotide binding] 459349002588 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 459349002589 FMN binding site [chemical binding]; other site 459349002590 dimer interface [polypeptide binding]; other site 459349002591 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 459349002592 metal-binding site 459349002593 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 459349002594 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 459349002595 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349002596 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349002597 active site 459349002598 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 459349002599 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349002600 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349002601 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349002602 active site 459349002603 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349002604 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 459349002605 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 459349002606 CoA-binding site [chemical binding]; other site 459349002607 ATP-binding [chemical binding]; other site 459349002608 Uncharacterized conserved protein [Function unknown]; Region: COG1624 459349002609 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 459349002610 dihydropteroate synthase; Region: DHPS; TIGR01496 459349002611 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 459349002612 substrate binding pocket [chemical binding]; other site 459349002613 dimer interface [polypeptide binding]; other site 459349002614 inhibitor binding site; inhibition site 459349002615 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 459349002616 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 459349002617 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 459349002618 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 459349002619 catalytic residue [active] 459349002620 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 459349002621 active site 459349002622 dimer interface [polypeptide binding]; other site 459349002623 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 459349002624 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 459349002625 Amidohydrolase family; Region: Amidohydro_3; pfam07969 459349002626 active site 459349002627 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 459349002628 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 459349002629 HIGH motif; other site 459349002630 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 459349002631 active site 459349002632 KMSKS motif; other site 459349002633 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_2; cd08769 459349002634 SxDxEG motif; other site 459349002635 putative active site [active] 459349002636 putative metal binding site [ion binding]; other site 459349002637 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 459349002638 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 459349002639 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 459349002640 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 459349002641 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349002642 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 459349002643 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 459349002644 dimer interface [polypeptide binding]; other site 459349002645 PYR/PP interface [polypeptide binding]; other site 459349002646 TPP binding site [chemical binding]; other site 459349002647 substrate binding site [chemical binding]; other site 459349002648 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 459349002649 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 459349002650 TPP-binding site [chemical binding]; other site 459349002651 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 459349002652 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 459349002653 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 459349002654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 459349002655 active site 459349002656 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 459349002657 S-adenosylmethionine binding site [chemical binding]; other site 459349002658 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 459349002659 RNA/DNA hybrid binding site [nucleotide binding]; other site 459349002660 active site 459349002661 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349002662 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 459349002663 Protein export membrane protein; Region: SecD_SecF; pfam02355 459349002664 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 459349002665 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 459349002666 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 459349002667 SurA N-terminal domain; Region: SurA_N_3; cl07813 459349002668 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 459349002669 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 459349002670 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 459349002671 active site 459349002672 substrate binding site [chemical binding]; other site 459349002673 metal binding site [ion binding]; metal-binding site 459349002674 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 459349002675 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 459349002676 active site 459349002677 nucleophile elbow; other site 459349002678 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 459349002679 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349002680 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 459349002681 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 459349002682 dimerization interface [polypeptide binding]; other site 459349002683 ATP binding site [chemical binding]; other site 459349002684 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 459349002685 dimerization interface [polypeptide binding]; other site 459349002686 ATP binding site [chemical binding]; other site 459349002687 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 459349002688 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 459349002689 Low molecular weight phosphatase family; Region: LMWPc; cd00115 459349002690 active site 459349002691 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 459349002692 Peptidase family M23; Region: Peptidase_M23; pfam01551 459349002693 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 459349002694 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 459349002695 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 459349002696 Walker A/P-loop; other site 459349002697 ATP binding site [chemical binding]; other site 459349002698 Q-loop/lid; other site 459349002699 ABC transporter signature motif; other site 459349002700 Walker B; other site 459349002701 D-loop; other site 459349002702 H-loop/switch region; other site 459349002703 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 459349002704 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 459349002705 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 459349002706 Walker A/P-loop; other site 459349002707 ATP binding site [chemical binding]; other site 459349002708 Q-loop/lid; other site 459349002709 ABC transporter signature motif; other site 459349002710 Walker B; other site 459349002711 D-loop; other site 459349002712 H-loop/switch region; other site 459349002713 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 459349002714 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 459349002715 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 459349002716 putative active site [active] 459349002717 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 459349002718 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 459349002719 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 459349002720 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 459349002721 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 459349002722 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 459349002723 trimer interface [polypeptide binding]; other site 459349002724 active site 459349002725 substrate binding site [chemical binding]; other site 459349002726 CoA binding site [chemical binding]; other site 459349002727 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 459349002728 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 459349002729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349002730 homodimer interface [polypeptide binding]; other site 459349002731 catalytic residue [active] 459349002732 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 459349002733 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 459349002734 active site 459349002735 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 459349002736 Methyltransferase domain; Region: Methyltransf_23; pfam13489 459349002737 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 459349002738 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 459349002739 tandem repeat interface [polypeptide binding]; other site 459349002740 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 459349002741 oligomer interface [polypeptide binding]; other site 459349002742 active site residues [active] 459349002743 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 459349002744 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 459349002745 tandem repeat interface [polypeptide binding]; other site 459349002746 oligomer interface [polypeptide binding]; other site 459349002747 active site residues [active] 459349002748 NifU-like domain; Region: NifU; cl00484 459349002749 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 459349002750 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 459349002751 Protein export membrane protein; Region: SecD_SecF; cl14618 459349002752 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 459349002753 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 459349002754 HlyD family secretion protein; Region: HlyD_3; pfam13437 459349002755 SLA1 homology domain 1, SHD1; Region: SHD1; pfam03983 459349002756 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 459349002757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 459349002758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 459349002759 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 459349002760 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 459349002761 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 459349002762 dimer interface [polypeptide binding]; other site 459349002763 PYR/PP interface [polypeptide binding]; other site 459349002764 TPP binding site [chemical binding]; other site 459349002765 substrate binding site [chemical binding]; other site 459349002766 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 459349002767 TPP-binding site; other site 459349002768 4-alpha-glucanotransferase; Provisional; Region: PRK14508 459349002769 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 459349002770 DNA polymerase III, delta subunit; Region: holA; TIGR01128 459349002771 Bacitracin resistance protein BacA; Region: BacA; pfam02673 459349002772 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 459349002773 NodB motif; other site 459349002774 putative active site [active] 459349002775 putative catalytic site [active] 459349002776 Zn binding site [ion binding]; other site 459349002777 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349002778 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 459349002779 TPR motif; other site 459349002780 binding surface 459349002781 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349002782 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 459349002783 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 459349002784 binding surface 459349002785 TPR motif; other site 459349002786 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 459349002787 binding surface 459349002788 TPR motif; other site 459349002789 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 459349002790 Catalytic domain of Protein Kinases; Region: PKc; cd00180 459349002791 active site 459349002792 ATP binding site [chemical binding]; other site 459349002793 substrate binding site [chemical binding]; other site 459349002794 activation loop (A-loop); other site 459349002795 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 459349002796 GAF domain; Region: GAF; cl17456 459349002797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 459349002798 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 459349002799 dimer interface [polypeptide binding]; other site 459349002800 phosphorylation site [posttranslational modification] 459349002801 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 459349002802 ATP binding site [chemical binding]; other site 459349002803 Mg2+ binding site [ion binding]; other site 459349002804 G-X-G motif; other site 459349002805 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 459349002806 putative acyl-acceptor binding pocket; other site 459349002807 V-type ATP synthase subunit E; Provisional; Region: PRK01558 459349002808 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 459349002809 V-type ATP synthase subunit A; Provisional; Region: PRK04192 459349002810 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 459349002811 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 459349002812 Walker A motif/ATP binding site; other site 459349002813 Walker B motif; other site 459349002814 V-type ATP synthase subunit B; Provisional; Region: PRK02118 459349002815 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 459349002816 Walker A motif homologous position; other site 459349002817 Walker B motif; other site 459349002818 ATP synthase subunit D; Region: ATP-synt_D; cl00613 459349002819 V-type ATP synthase subunit I; Validated; Region: PRK05771 459349002820 V-type ATP synthase subunit K; Validated; Region: PRK06558 459349002821 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 459349002822 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 459349002823 hypothetical protein; Validated; Region: PRK09039 459349002824 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 459349002825 Domain of unknown function (DUF814); Region: DUF814; pfam05670 459349002826 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 459349002827 Recombination protein O N terminal; Region: RecO_N; pfam11967 459349002828 Recombination protein O C terminal; Region: RecO_C; pfam02565 459349002829 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 459349002830 Protein of unknown function, DUF488; Region: DUF488; pfam04343 459349002831 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 459349002832 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 459349002833 PLD-like domain; Region: PLDc_2; pfam13091 459349002834 putative homodimer interface [polypeptide binding]; other site 459349002835 putative active site [active] 459349002836 catalytic site [active] 459349002837 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 459349002838 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 459349002839 ATP binding site [chemical binding]; other site 459349002840 putative Mg++ binding site [ion binding]; other site 459349002841 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 459349002842 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 459349002843 nucleotide binding region [chemical binding]; other site 459349002844 ATP-binding site [chemical binding]; other site 459349002845 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 459349002846 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 459349002847 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 459349002848 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 459349002849 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 459349002850 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 459349002851 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 459349002852 putative acyl-acceptor binding pocket; other site 459349002853 Peptidase C10 family; Region: Peptidase_C10; pfam01640 459349002854 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 459349002855 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 459349002856 dockerin binding interface; other site 459349002857 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349002858 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 459349002859 tetramerization interface [polypeptide binding]; other site 459349002860 active site 459349002861 Pantoate-beta-alanine ligase; Region: PanC; cd00560 459349002862 pantoate--beta-alanine ligase; Region: panC; TIGR00018 459349002863 active site 459349002864 ATP-binding site [chemical binding]; other site 459349002865 pantoate-binding site; other site 459349002866 HXXH motif; other site 459349002867 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 459349002868 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 459349002869 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 459349002870 oligomer interface [polypeptide binding]; other site 459349002871 active site residues [active] 459349002872 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 459349002873 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 459349002874 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 459349002875 Walker A motif; other site 459349002876 ATP binding site [chemical binding]; other site 459349002877 Walker B motif; other site 459349002878 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 459349002879 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 459349002880 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 459349002881 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 459349002882 active site 459349002883 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 459349002884 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 459349002885 active site 459349002886 (T/H)XGH motif; other site 459349002887 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 459349002888 replicative DNA helicase; Region: DnaB; TIGR00665 459349002889 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 459349002890 Walker A motif; other site 459349002891 ATP binding site [chemical binding]; other site 459349002892 Walker B motif; other site 459349002893 DNA binding loops [nucleotide binding] 459349002894 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 459349002895 Permease; Region: Permease; pfam02405 459349002896 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 459349002897 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 459349002898 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 459349002899 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 459349002900 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 459349002901 folate binding site [chemical binding]; other site 459349002902 NADP+ binding site [chemical binding]; other site 459349002903 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 459349002904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349002905 Walker A/P-loop; other site 459349002906 ATP binding site [chemical binding]; other site 459349002907 Q-loop/lid; other site 459349002908 ABC transporter signature motif; other site 459349002909 Walker B; other site 459349002910 D-loop; other site 459349002911 H-loop/switch region; other site 459349002912 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 459349002913 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 459349002914 Permease; Region: Permease; pfam02405 459349002915 Protein of unknown function (DUF330); Region: DUF330; cl01135 459349002916 Protein of unknown function, DUF481; Region: DUF481; cl01213 459349002917 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 459349002918 mce related protein; Region: MCE; pfam02470 459349002919 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349002920 active site 459349002921 urocanate hydratase; Provisional; Region: PRK05414 459349002922 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 459349002923 DEAD-like helicases superfamily; Region: DEXDc; smart00487 459349002924 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 459349002925 ATP binding site [chemical binding]; other site 459349002926 putative Mg++ binding site [ion binding]; other site 459349002927 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 459349002928 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349002929 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 459349002930 Predicted membrane protein [Function unknown]; Region: COG3304 459349002931 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 459349002932 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 459349002933 HIGH motif; other site 459349002934 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 459349002935 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 459349002936 active site 459349002937 KMSKS motif; other site 459349002938 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 459349002939 tRNA binding surface [nucleotide binding]; other site 459349002940 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 459349002941 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 459349002942 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 459349002943 alphaNTD homodimer interface [polypeptide binding]; other site 459349002944 alphaNTD - beta interaction site [polypeptide binding]; other site 459349002945 alphaNTD - beta' interaction site [polypeptide binding]; other site 459349002946 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 459349002947 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 459349002948 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 459349002949 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 459349002950 RNA binding surface [nucleotide binding]; other site 459349002951 30S ribosomal protein S11; Validated; Region: PRK05309 459349002952 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 459349002953 30S ribosomal protein S13; Region: bact_S13; TIGR03631 459349002954 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 459349002955 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 459349002956 rRNA binding site [nucleotide binding]; other site 459349002957 predicted 30S ribosome binding site; other site 459349002958 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 459349002959 active site 459349002960 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 459349002961 SecY translocase; Region: SecY; pfam00344 459349002962 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 459349002963 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 459349002964 23S rRNA binding site [nucleotide binding]; other site 459349002965 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 459349002966 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 459349002967 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 459349002968 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 459349002969 23S rRNA interface [nucleotide binding]; other site 459349002970 L21e interface [polypeptide binding]; other site 459349002971 5S rRNA interface [nucleotide binding]; other site 459349002972 L27 interface [polypeptide binding]; other site 459349002973 L5 interface [polypeptide binding]; other site 459349002974 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 459349002975 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 459349002976 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 459349002977 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 459349002978 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 459349002979 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 459349002980 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 459349002981 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 459349002982 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 459349002983 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 459349002984 RNA binding site [nucleotide binding]; other site 459349002985 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 459349002986 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 459349002987 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 459349002988 putative translocon interaction site; other site 459349002989 23S rRNA interface [nucleotide binding]; other site 459349002990 signal recognition particle (SRP54) interaction site; other site 459349002991 L23 interface [polypeptide binding]; other site 459349002992 trigger factor interaction site; other site 459349002993 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 459349002994 23S rRNA interface [nucleotide binding]; other site 459349002995 5S rRNA interface [nucleotide binding]; other site 459349002996 putative antibiotic binding site [chemical binding]; other site 459349002997 L25 interface [polypeptide binding]; other site 459349002998 L27 interface [polypeptide binding]; other site 459349002999 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 459349003000 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 459349003001 G-X-X-G motif; other site 459349003002 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 459349003003 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 459349003004 putative translocon binding site; other site 459349003005 protein-rRNA interface [nucleotide binding]; other site 459349003006 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 459349003007 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 459349003008 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 459349003009 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 459349003010 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 459349003011 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 459349003012 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 459349003013 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 459349003014 Methyltransferase domain; Region: Methyltransf_23; pfam13489 459349003015 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 459349003016 S-adenosylmethionine binding site [chemical binding]; other site 459349003017 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 459349003018 TRAM domain; Region: TRAM; cl01282 459349003019 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 459349003020 S-adenosylmethionine binding site [chemical binding]; other site 459349003021 Peptidase family M48; Region: Peptidase_M48; cl12018 459349003022 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 459349003023 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 459349003024 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 459349003025 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 459349003026 inhibitor-cofactor binding pocket; inhibition site 459349003027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349003028 catalytic residue [active] 459349003029 GTPase Era; Reviewed; Region: era; PRK00089 459349003030 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 459349003031 G1 box; other site 459349003032 GTP/Mg2+ binding site [chemical binding]; other site 459349003033 Switch I region; other site 459349003034 G2 box; other site 459349003035 Switch II region; other site 459349003036 G3 box; other site 459349003037 G4 box; other site 459349003038 G5 box; other site 459349003039 KH domain; Region: KH_2; pfam07650 459349003040 Motility related/secretion protein; Region: SprA_N; pfam14349 459349003041 cell surface protein SprA; Region: surface_SprA; TIGR04189 459349003042 Motility related/secretion protein; Region: SprA_N; pfam14349 459349003043 Type III pantothenate kinase; Region: Pan_kinase; cl17198 459349003044 CHASE2 domain; Region: CHASE2; pfam05226 459349003045 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 459349003046 cyclase homology domain; Region: CHD; cd07302 459349003047 nucleotidyl binding site; other site 459349003048 metal binding site [ion binding]; metal-binding site 459349003049 dimer interface [polypeptide binding]; other site 459349003050 FecR protein; Region: FecR; pfam04773 459349003051 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 459349003052 TPR motif; other site 459349003053 NHL repeat; Region: NHL; pfam01436 459349003054 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 459349003055 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 459349003056 binding surface 459349003057 TPR motif; other site 459349003058 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 459349003059 binding surface 459349003060 TPR motif; other site 459349003061 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 459349003062 TPR motif; other site 459349003063 binding surface 459349003064 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 459349003065 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 459349003066 Glutamate binding site [chemical binding]; other site 459349003067 NAD binding site [chemical binding]; other site 459349003068 catalytic residues [active] 459349003069 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 459349003070 arsenical-resistance protein; Region: acr3; TIGR00832 459349003071 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 459349003072 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 459349003073 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 459349003074 dimer interface [polypeptide binding]; other site 459349003075 active site 459349003076 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 459349003077 catalytic residues [active] 459349003078 substrate binding site [chemical binding]; other site 459349003079 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 459349003080 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 459349003081 Ligand Binding Site [chemical binding]; other site 459349003082 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 459349003083 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 459349003084 substrate-cofactor binding pocket; other site 459349003085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349003086 catalytic residue [active] 459349003087 Domain of unknown function DUF20; Region: UPF0118; pfam01594 459349003088 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 459349003089 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 459349003090 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 459349003091 ligand binding site [chemical binding]; other site 459349003092 flexible hinge region; other site 459349003093 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 459349003094 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 459349003095 S-adenosylmethionine binding site [chemical binding]; other site 459349003096 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 459349003097 Branched-chain-amino-acid aminotransferase; Provisional; Region: PLN03117 459349003098 Preprotein translocase SecG subunit; Region: SecG; pfam03840 459349003099 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 459349003100 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 459349003101 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 459349003102 active site 459349003103 putative catalytic site [active] 459349003104 phosphate binding site A [ion binding]; other site 459349003105 DNA binding site [nucleotide binding] 459349003106 metal binding site A [ion binding]; metal-binding site 459349003107 putative AP binding site [nucleotide binding]; other site 459349003108 putative metal binding site B [ion binding]; other site 459349003109 phosphate binding site B [ion binding]; other site 459349003110 OstA-like protein; Region: OstA; cl00844 459349003111 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 459349003112 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 459349003113 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 459349003114 active site 459349003115 motif I; other site 459349003116 motif II; other site 459349003117 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 459349003118 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 459349003119 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 459349003120 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 459349003121 XdhC Rossmann domain; Region: XdhC_C; pfam13478 459349003122 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 459349003123 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 459349003124 catalytic loop [active] 459349003125 iron binding site [ion binding]; other site 459349003126 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 459349003127 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349003128 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 459349003129 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 459349003130 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 459349003131 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 459349003132 dimer interface [polypeptide binding]; other site 459349003133 [2Fe-2S] cluster binding site [ion binding]; other site 459349003134 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 459349003135 SLBB domain; Region: SLBB; pfam10531 459349003136 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 459349003137 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 459349003138 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 459349003139 putative dimer interface [polypeptide binding]; other site 459349003140 [2Fe-2S] cluster binding site [ion binding]; other site 459349003141 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 459349003142 dimer interface [polypeptide binding]; other site 459349003143 [2Fe-2S] cluster binding site [ion binding]; other site 459349003144 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 459349003145 SLBB domain; Region: SLBB; pfam10531 459349003146 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 459349003147 4Fe-4S binding domain; Region: Fer4; pfam00037 459349003148 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 459349003149 4Fe-4S binding domain; Region: Fer4; pfam00037 459349003150 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349003151 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 459349003152 dimer interface [polypeptide binding]; other site 459349003153 [2Fe-2S] cluster binding site [ion binding]; other site 459349003154 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 459349003155 ATP binding site [chemical binding]; other site 459349003156 Mg2+ binding site [ion binding]; other site 459349003157 G-X-G motif; other site 459349003158 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 459349003159 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 459349003160 putative dimer interface [polypeptide binding]; other site 459349003161 [2Fe-2S] cluster binding site [ion binding]; other site 459349003162 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 459349003163 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 459349003164 active site 459349003165 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 459349003166 PHP-associated; Region: PHP_C; pfam13263 459349003167 DRTGG domain; Region: DRTGG; pfam07085 459349003168 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 459349003169 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349003170 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 459349003171 Putative Fe-S cluster; Region: FeS; cl17515 459349003172 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 459349003173 DRTGG domain; Region: DRTGG; pfam07085 459349003174 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 459349003175 metal-dependent hydrolase; Provisional; Region: PRK00685 459349003176 Putative helicase; Region: TraI_2; pfam07514 459349003177 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 459349003178 intersubunit interface [polypeptide binding]; other site 459349003179 active site 459349003180 Zn2+ binding site [ion binding]; other site 459349003181 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 459349003182 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 459349003183 putative active site [active] 459349003184 putative NTP binding site [chemical binding]; other site 459349003185 putative nucleic acid binding site [nucleotide binding]; other site 459349003186 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 459349003187 HRDC domain; Region: HRDC; pfam00570 459349003188 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 459349003189 Uncharacterized conserved protein [Function unknown]; Region: COG1262 459349003190 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349003191 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 459349003192 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 459349003193 active site 459349003194 HIGH motif; other site 459349003195 KMSKS motif; other site 459349003196 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 459349003197 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cl02432 459349003198 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 459349003199 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 459349003200 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 459349003201 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 459349003202 Walker A motif; other site 459349003203 ATP binding site [chemical binding]; other site 459349003204 Walker B motif; other site 459349003205 arginine finger; other site 459349003206 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 459349003207 6-phosphofructokinase; Provisional; Region: PRK14072 459349003208 active site 459349003209 ADP/pyrophosphate binding site [chemical binding]; other site 459349003210 allosteric effector site; other site 459349003211 dimerization interface [polypeptide binding]; other site 459349003212 fructose-1,6-bisphosphate binding site; other site 459349003213 glutamate dehydrogenase; Provisional; Region: PRK09414 459349003214 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 459349003215 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 459349003216 NAD(P) binding site [chemical binding]; other site 459349003217 LemA family; Region: LemA; cl00742 459349003218 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 459349003219 Mechanosensitive ion channel; Region: MS_channel; pfam00924 459349003220 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 459349003221 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 459349003222 motif II; other site 459349003223 Uncharacterized conserved protein [Function unknown]; Region: COG0432 459349003224 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 459349003225 active site 459349003226 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 459349003227 homodimer interface [polypeptide binding]; other site 459349003228 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349003229 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349003230 active site 459349003231 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 459349003232 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 459349003233 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 459349003234 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 459349003235 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 459349003236 RNA binding site [nucleotide binding]; other site 459349003237 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 459349003238 RNA binding site [nucleotide binding]; other site 459349003239 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 459349003240 RNA binding site [nucleotide binding]; other site 459349003241 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 459349003242 RNA binding site [nucleotide binding]; other site 459349003243 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 459349003244 RNA binding site [nucleotide binding]; other site 459349003245 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 459349003246 RNA binding site [nucleotide binding]; other site 459349003247 cytidylate kinase; Provisional; Region: cmk; PRK00023 459349003248 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 459349003249 CMP-binding site; other site 459349003250 The sites determining sugar specificity; other site 459349003251 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 459349003252 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 459349003253 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349003254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349003255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 459349003256 Coenzyme A binding pocket [chemical binding]; other site 459349003257 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 459349003258 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 459349003259 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349003260 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 459349003261 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 459349003262 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 459349003263 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349003264 Zn2+ binding site [ion binding]; other site 459349003265 Mg2+ binding site [ion binding]; other site 459349003266 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 459349003267 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 459349003268 Domain of unknown function DUF21; Region: DUF21; pfam01595 459349003269 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 459349003270 Transporter associated domain; Region: CorC_HlyC; pfam03471 459349003271 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 459349003272 Predicted integral membrane protein [Function unknown]; Region: COG5652 459349003273 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 459349003274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349003275 Walker A/P-loop; other site 459349003276 ATP binding site [chemical binding]; other site 459349003277 Q-loop/lid; other site 459349003278 ABC transporter signature motif; other site 459349003279 Walker B; other site 459349003280 D-loop; other site 459349003281 H-loop/switch region; other site 459349003282 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 459349003283 Transglycosylase; Region: Transgly; pfam00912 459349003284 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 459349003285 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 459349003286 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 459349003287 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349003288 active site 459349003289 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 459349003290 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 459349003291 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 459349003292 PSP1 C-terminal conserved region; Region: PSP1; cl00770 459349003293 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 459349003294 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 459349003295 FeS/SAM binding site; other site 459349003296 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 459349003297 intersubunit interface [polypeptide binding]; other site 459349003298 active site 459349003299 catalytic residue [active] 459349003300 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 459349003301 Thymidylate synthase complementing protein; Region: Thy1; cl03630 459349003302 aspartate aminotransferase; Provisional; Region: PRK07568 459349003303 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 459349003304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349003305 homodimer interface [polypeptide binding]; other site 459349003306 catalytic residue [active] 459349003307 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 459349003308 dimer interface [polypeptide binding]; other site 459349003309 conserved gate region; other site 459349003310 putative PBP binding loops; other site 459349003311 ABC-ATPase subunit interface; other site 459349003312 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 459349003313 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 459349003314 dimer interface [polypeptide binding]; other site 459349003315 conserved gate region; other site 459349003316 putative PBP binding loops; other site 459349003317 ABC-ATPase subunit interface; other site 459349003318 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 459349003319 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 459349003320 4Fe-4S binding domain; Region: Fer4_5; pfam12801 459349003321 4Fe-4S binding domain; Region: Fer4_5; pfam12801 459349003322 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 459349003323 4Fe-4S binding domain; Region: Fer4; pfam00037 459349003324 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349003325 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 459349003326 ATP cone domain; Region: ATP-cone; pfam03477 459349003327 Class III ribonucleotide reductase; Region: RNR_III; cd01675 459349003328 effector binding site; other site 459349003329 active site 459349003330 Zn binding site [ion binding]; other site 459349003331 glycine loop; other site 459349003332 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 459349003333 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 459349003334 FeS/SAM binding site; other site 459349003335 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 459349003336 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 459349003337 FeS/SAM binding site; other site 459349003338 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 459349003339 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 459349003340 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349003341 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349003342 transketolase; Reviewed; Region: PRK05899 459349003343 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 459349003344 TPP-binding site [chemical binding]; other site 459349003345 dimer interface [polypeptide binding]; other site 459349003346 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 459349003347 PYR/PP interface [polypeptide binding]; other site 459349003348 dimer interface [polypeptide binding]; other site 459349003349 TPP binding site [chemical binding]; other site 459349003350 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 459349003351 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 459349003352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349003353 NAD(P) binding site [chemical binding]; other site 459349003354 active site 459349003355 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 459349003356 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 459349003357 active site 459349003358 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 459349003359 DHH family; Region: DHH; pfam01368 459349003360 DHHA1 domain; Region: DHHA1; pfam02272 459349003361 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 459349003362 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 459349003363 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 459349003364 Ligand binding site; other site 459349003365 Putative Catalytic site; other site 459349003366 DXD motif; other site 459349003367 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 459349003368 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 459349003369 FtsX-like permease family; Region: FtsX; pfam02687 459349003370 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 459349003371 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 459349003372 Walker A/P-loop; other site 459349003373 ATP binding site [chemical binding]; other site 459349003374 Q-loop/lid; other site 459349003375 ABC transporter signature motif; other site 459349003376 Walker B; other site 459349003377 D-loop; other site 459349003378 H-loop/switch region; other site 459349003379 Family of unknown function (DUF490); Region: DUF490; pfam04357 459349003380 TIGR00300 family protein; Region: TIGR00300 459349003381 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 459349003382 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 459349003383 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 459349003384 active site 459349003385 Fic family protein [Function unknown]; Region: COG3177 459349003386 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 459349003387 Fic/DOC family; Region: Fic; pfam02661 459349003388 Uncharacterized conserved protein [Function unknown]; Region: COG3391 459349003389 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 459349003390 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349003391 Transposase [DNA replication, recombination, and repair]; Region: COG5421 459349003392 DNA replication protein DnaC; Validated; Region: PRK06835 459349003393 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 459349003394 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 459349003395 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 459349003396 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 459349003397 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 459349003398 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 459349003399 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 459349003400 Family of unknown function (DUF694); Region: DUF694; pfam05107 459349003401 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 459349003402 LPP20 lipoprotein; Region: LPP20; pfam02169 459349003403 SurA N-terminal domain; Region: SurA_N_3; cl07813 459349003404 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 459349003405 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 459349003406 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 459349003407 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 459349003408 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 459349003409 ATP binding site [chemical binding]; other site 459349003410 Mg2+ binding site [ion binding]; other site 459349003411 G-X-G motif; other site 459349003412 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 459349003413 ATP binding site [chemical binding]; other site 459349003414 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 459349003415 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 459349003416 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 459349003417 active site 459349003418 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 459349003419 Uncharacterized conserved protein [Function unknown]; Region: COG1284 459349003420 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 459349003421 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 459349003422 putative active site [active] 459349003423 putative catalytic site [active] 459349003424 putative Mg binding site IVb [ion binding]; other site 459349003425 putative phosphate binding site [ion binding]; other site 459349003426 putative DNA binding site [nucleotide binding]; other site 459349003427 putative Mg binding site IVa [ion binding]; other site 459349003428 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349003429 active site 459349003430 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 459349003431 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349003432 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 459349003433 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 459349003434 heterodimer interface [polypeptide binding]; other site 459349003435 active site 459349003436 FMN binding site [chemical binding]; other site 459349003437 homodimer interface [polypeptide binding]; other site 459349003438 substrate binding site [chemical binding]; other site 459349003439 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 459349003440 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 459349003441 FAD binding pocket [chemical binding]; other site 459349003442 FAD binding motif [chemical binding]; other site 459349003443 phosphate binding motif [ion binding]; other site 459349003444 beta-alpha-beta structure motif; other site 459349003445 NAD binding pocket [chemical binding]; other site 459349003446 Iron coordination center [ion binding]; other site 459349003447 dihydroorotase; Validated; Region: pyrC; PRK09357 459349003448 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 459349003449 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 459349003450 active site 459349003451 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 459349003452 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 459349003453 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 459349003454 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 459349003455 active site 459349003456 catalytic triad [active] 459349003457 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 459349003458 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349003459 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 459349003460 LPP20 lipoprotein; Region: LPP20; pfam02169 459349003461 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 459349003462 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 459349003463 N-terminal plug; other site 459349003464 ligand-binding site [chemical binding]; other site 459349003465 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 459349003466 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 459349003467 substrate binding pocket [chemical binding]; other site 459349003468 chain length determination region; other site 459349003469 substrate-Mg2+ binding site; other site 459349003470 catalytic residues [active] 459349003471 aspartate-rich region 1; other site 459349003472 active site lid residues [active] 459349003473 aspartate-rich region 2; other site 459349003474 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 459349003475 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 459349003476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349003477 NAD(P) binding site [chemical binding]; other site 459349003478 active site 459349003479 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 459349003480 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 459349003481 MoxR-like ATPases [General function prediction only]; Region: COG0714 459349003482 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 459349003483 Walker A motif; other site 459349003484 ATP binding site [chemical binding]; other site 459349003485 Walker B motif; other site 459349003486 arginine finger; other site 459349003487 Uncharacterized conserved protein [Function unknown]; Region: COG5276 459349003488 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 459349003489 DpnII restriction endonuclease; Region: DpnII; pfam04556 459349003490 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349003491 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349003492 DNA gyrase subunit A; Validated; Region: PRK05560 459349003493 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 459349003494 CAP-like domain; other site 459349003495 active site 459349003496 primary dimer interface [polypeptide binding]; other site 459349003497 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 459349003498 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 459349003499 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 459349003500 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 459349003501 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 459349003502 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 459349003503 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 459349003504 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 459349003505 ATP binding site [chemical binding]; other site 459349003506 Mg2+ binding site [ion binding]; other site 459349003507 G-X-G motif; other site 459349003508 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 459349003509 anchoring element; other site 459349003510 dimer interface [polypeptide binding]; other site 459349003511 ATP binding site [chemical binding]; other site 459349003512 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 459349003513 active site 459349003514 putative metal-binding site [ion binding]; other site 459349003515 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 459349003516 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 459349003517 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 459349003518 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 459349003519 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 459349003520 DNA-binding site [nucleotide binding]; DNA binding site 459349003521 RNA-binding motif; other site 459349003522 Response regulator receiver domain; Region: Response_reg; pfam00072 459349003523 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 459349003524 active site 459349003525 phosphorylation site [posttranslational modification] 459349003526 intermolecular recognition site; other site 459349003527 dimerization interface [polypeptide binding]; other site 459349003528 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 459349003529 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 459349003530 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 459349003531 ATP-grasp domain; Region: ATP-grasp_4; cl17255 459349003532 FecR protein; Region: FecR; pfam04773 459349003533 CHASE2 domain; Region: CHASE2; pfam05226 459349003534 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 459349003535 cyclase homology domain; Region: CHD; cd07302 459349003536 nucleotidyl binding site; other site 459349003537 metal binding site [ion binding]; metal-binding site 459349003538 dimer interface [polypeptide binding]; other site 459349003539 RloB-like protein; Region: RloB; pfam13707 459349003540 Predicted ATPases [General function prediction only]; Region: COG1106 459349003541 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 459349003542 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 459349003543 NAD(P) binding site [chemical binding]; other site 459349003544 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 459349003545 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 459349003546 FeS/SAM binding site; other site 459349003547 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 459349003548 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 459349003549 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 459349003550 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 459349003551 Peptidase family M23; Region: Peptidase_M23; pfam01551 459349003552 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 459349003553 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 459349003554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349003555 Walker A/P-loop; other site 459349003556 ATP binding site [chemical binding]; other site 459349003557 Q-loop/lid; other site 459349003558 ABC transporter signature motif; other site 459349003559 Walker B; other site 459349003560 D-loop; other site 459349003561 H-loop/switch region; other site 459349003562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349003563 Walker A/P-loop; other site 459349003564 ATP binding site [chemical binding]; other site 459349003565 Q-loop/lid; other site 459349003566 ABC transporter signature motif; other site 459349003567 Walker B; other site 459349003568 D-loop; other site 459349003569 H-loop/switch region; other site 459349003570 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 459349003571 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 459349003572 catalytic motif [active] 459349003573 Zn binding site [ion binding]; other site 459349003574 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 459349003575 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 459349003576 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 459349003577 DNA polymerase I; Provisional; Region: PRK05755 459349003578 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 459349003579 active site 459349003580 metal binding site 1 [ion binding]; metal-binding site 459349003581 putative 5' ssDNA interaction site; other site 459349003582 metal binding site 3; metal-binding site 459349003583 metal binding site 2 [ion binding]; metal-binding site 459349003584 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 459349003585 putative DNA binding site [nucleotide binding]; other site 459349003586 putative metal binding site [ion binding]; other site 459349003587 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 459349003588 active site 459349003589 catalytic site [active] 459349003590 substrate binding site [chemical binding]; other site 459349003591 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 459349003592 active site 459349003593 DNA binding site [nucleotide binding] 459349003594 catalytic site [active] 459349003595 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 459349003596 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 459349003597 non-heme iron binding site [ion binding]; other site 459349003598 dimer interface [polypeptide binding]; other site 459349003599 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 459349003600 non-heme iron binding site [ion binding]; other site 459349003601 Rubrerythrin [Energy production and conversion]; Region: COG1592 459349003602 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 459349003603 binuclear metal center [ion binding]; other site 459349003604 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 459349003605 iron binding site [ion binding]; other site 459349003606 Rubredoxin [Energy production and conversion]; Region: COG1773 459349003607 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 459349003608 iron binding site [ion binding]; other site 459349003609 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 459349003610 diiron binding motif [ion binding]; other site 459349003611 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 459349003612 Glycoprotease family; Region: Peptidase_M22; pfam00814 459349003613 Endonuclease I; Region: Endonuclease_1; pfam04231 459349003614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349003615 Walker A/P-loop; other site 459349003616 Q-loop/lid; other site 459349003617 Permease; Region: Permease; pfam02405 459349003618 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 459349003619 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 459349003620 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 459349003621 nucleotide binding site [chemical binding]; other site 459349003622 Uncharacterized conserved protein [Function unknown]; Region: COG1633 459349003623 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 459349003624 diiron binding motif [ion binding]; other site 459349003625 recombination factor protein RarA; Reviewed; Region: PRK13342 459349003626 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 459349003627 Walker A motif; other site 459349003628 ATP binding site [chemical binding]; other site 459349003629 Walker B motif; other site 459349003630 arginine finger; other site 459349003631 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 459349003632 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 459349003633 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 459349003634 active site 459349003635 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 459349003636 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 459349003637 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 459349003638 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 459349003639 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 459349003640 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 459349003641 trimer interface [polypeptide binding]; other site 459349003642 active site 459349003643 UDP-GlcNAc binding site [chemical binding]; other site 459349003644 lipid binding site [chemical binding]; lipid-binding site 459349003645 periplasmic chaperone; Provisional; Region: PRK10780 459349003646 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 459349003647 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 459349003648 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 459349003649 tetramer interface [polypeptide binding]; other site 459349003650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349003651 catalytic residue [active] 459349003652 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 459349003653 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 459349003654 tetramer interface [polypeptide binding]; other site 459349003655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349003656 catalytic residue [active] 459349003657 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349003658 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 459349003659 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 459349003660 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 459349003661 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 459349003662 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 459349003663 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 459349003664 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 459349003665 Walker A motif; other site 459349003666 ATP binding site [chemical binding]; other site 459349003667 Walker B motif; other site 459349003668 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 459349003669 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 459349003670 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 459349003671 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 459349003672 Competence protein A; Region: Competence_A; pfam11104 459349003673 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 459349003674 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 459349003675 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 459349003676 Walker A motif; other site 459349003677 ATP binding site [chemical binding]; other site 459349003678 Walker B motif; other site 459349003679 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 459349003680 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 459349003681 binding surface 459349003682 Tetratricopeptide repeat; Region: TPR_16; pfam13432 459349003683 TPR motif; other site 459349003684 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 459349003685 Oxygen tolerance; Region: BatD; pfam13584 459349003686 TPR repeat; Region: TPR_11; pfam13414 459349003687 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 459349003688 binding surface 459349003689 TPR motif; other site 459349003690 von Willebrand factor type A domain; Region: VWA_2; pfam13519 459349003691 metal ion-dependent adhesion site (MIDAS); other site 459349003692 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 459349003693 metal ion-dependent adhesion site (MIDAS); other site 459349003694 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 459349003695 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 459349003696 metal ion-dependent adhesion site (MIDAS); other site 459349003697 MoxR-like ATPases [General function prediction only]; Region: COG0714 459349003698 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 459349003699 Walker A motif; other site 459349003700 ATP binding site [chemical binding]; other site 459349003701 Walker B motif; other site 459349003702 arginine finger; other site 459349003703 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 459349003704 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 459349003705 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 459349003706 ligand binding site [chemical binding]; other site 459349003707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 459349003708 flexible hinge region; other site 459349003709 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 459349003710 dimer interface [polypeptide binding]; other site 459349003711 phosphorylation site [posttranslational modification] 459349003712 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 459349003713 ATP binding site [chemical binding]; other site 459349003714 Mg2+ binding site [ion binding]; other site 459349003715 G-X-G motif; other site 459349003716 glyoxylate reductase; Reviewed; Region: PRK13243 459349003717 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 459349003718 dimerization interface [polypeptide binding]; other site 459349003719 ligand binding site [chemical binding]; other site 459349003720 NADP binding site [chemical binding]; other site 459349003721 catalytic site [active] 459349003722 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 459349003723 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 459349003724 FMN binding site [chemical binding]; other site 459349003725 dimer interface [polypeptide binding]; other site 459349003726 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 459349003727 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 459349003728 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 459349003729 active site 459349003730 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 459349003731 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 459349003732 putative active site [active] 459349003733 putative metal binding site [ion binding]; other site 459349003734 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 459349003735 PQQ-like domain; Region: PQQ_2; pfam13360 459349003736 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 459349003737 Radical SAM superfamily; Region: Radical_SAM; pfam04055 459349003738 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 459349003739 FeS/SAM binding site; other site 459349003740 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 459349003741 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 459349003742 active site 459349003743 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 459349003744 transcription antitermination factor NusB; Region: nusB; TIGR01951 459349003745 putative RNA binding site [nucleotide binding]; other site 459349003746 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 459349003747 homopentamer interface [polypeptide binding]; other site 459349003748 active site 459349003749 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 459349003750 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 459349003751 active site 459349003752 metal binding site [ion binding]; metal-binding site 459349003753 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 459349003754 four helix bundle protein; Region: TIGR02436 459349003755 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 459349003756 Uncharacterized conserved protein [Function unknown]; Region: COG4198 459349003757 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 459349003758 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 459349003759 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 459349003760 FeS/SAM binding site; other site 459349003761 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 459349003762 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 459349003763 active site 459349003764 HIGH motif; other site 459349003765 dimer interface [polypeptide binding]; other site 459349003766 KMSKS motif; other site 459349003767 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 459349003768 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 459349003769 ABC transporter; Region: ABC_tran_2; pfam12848 459349003770 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 459349003771 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 459349003772 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; Region: CE4_DAC_u1_6s; cd10970 459349003773 putative active site [active] 459349003774 putative metal binding site [ion binding]; other site 459349003775 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 459349003776 Flavoprotein; Region: Flavoprotein; pfam02441 459349003777 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 459349003778 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 459349003779 classical (c) SDRs; Region: SDR_c; cd05233 459349003780 NAD(P) binding site [chemical binding]; other site 459349003781 active site 459349003782 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 459349003783 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 459349003784 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 459349003785 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 459349003786 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 459349003787 TPR motif; other site 459349003788 Tetratricopeptide repeat; Region: TPR_16; pfam13432 459349003789 binding surface 459349003790 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 459349003791 binding surface 459349003792 TPR motif; other site 459349003793 Tetratricopeptide repeat; Region: TPR_16; pfam13432 459349003794 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 459349003795 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 459349003796 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 459349003797 putative acyl-acceptor binding pocket; other site 459349003798 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 459349003799 putative active site [active] 459349003800 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 459349003801 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 459349003802 Walker A motif; other site 459349003803 ATP binding site [chemical binding]; other site 459349003804 Walker B motif; other site 459349003805 arginine finger; other site 459349003806 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 459349003807 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 459349003808 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 459349003809 ligand binding site [chemical binding]; other site 459349003810 flexible hinge region; other site 459349003811 Ion channel; Region: Ion_trans_2; pfam07885 459349003812 TrkA-N domain; Region: TrkA_N; pfam02254 459349003813 Repair protein; Region: Repair_PSII; pfam04536 459349003814 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 459349003815 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 459349003816 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 459349003817 dimerization interface [polypeptide binding]; other site 459349003818 active site 459349003819 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 459349003820 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 459349003821 RNA binding surface [nucleotide binding]; other site 459349003822 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 459349003823 active site 459349003824 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 459349003825 TrkA-N domain; Region: TrkA_N; pfam02254 459349003826 TrkA-C domain; Region: TrkA_C; pfam02080 459349003827 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 459349003828 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 459349003829 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 459349003830 adenylate kinase; Reviewed; Region: adk; PRK00279 459349003831 AMP-binding site [chemical binding]; other site 459349003832 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 459349003833 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349003834 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349003835 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 459349003836 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 459349003837 DNA binding site [nucleotide binding] 459349003838 active site 459349003839 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 459349003840 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 459349003841 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 459349003842 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 459349003843 KH domain; Region: KH_4; pfam13083 459349003844 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 459349003845 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 459349003846 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 459349003847 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 459349003848 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 459349003849 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 459349003850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349003851 NAD(P) binding site [chemical binding]; other site 459349003852 active site 459349003853 Transcription antiterminator [Transcription]; Region: NusG; COG0250 459349003854 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 459349003855 Adenosylhomocysteinase; Provisional; Region: PTZ00075 459349003856 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 459349003857 homotetramer interface [polypeptide binding]; other site 459349003858 ligand binding site [chemical binding]; other site 459349003859 catalytic site [active] 459349003860 NAD binding site [chemical binding]; other site 459349003861 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 459349003862 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 459349003863 RNase E interface [polypeptide binding]; other site 459349003864 trimer interface [polypeptide binding]; other site 459349003865 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 459349003866 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 459349003867 RNase E interface [polypeptide binding]; other site 459349003868 trimer interface [polypeptide binding]; other site 459349003869 active site 459349003870 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 459349003871 putative nucleic acid binding region [nucleotide binding]; other site 459349003872 G-X-X-G motif; other site 459349003873 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 459349003874 RNA binding site [nucleotide binding]; other site 459349003875 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 459349003876 16S/18S rRNA binding site [nucleotide binding]; other site 459349003877 S13e-L30e interaction site [polypeptide binding]; other site 459349003878 25S rRNA binding site [nucleotide binding]; other site 459349003879 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 459349003880 Domain of unknown function DUF20; Region: UPF0118; pfam01594 459349003881 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 459349003882 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 459349003883 Major Facilitator Superfamily; Region: MFS_1; pfam07690 459349003884 putative substrate translocation pore; other site 459349003885 4Fe-4S binding domain; Region: Fer4; cl02805 459349003886 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349003887 4Fe-4S binding domain; Region: Fer4; pfam00037 459349003888 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 459349003889 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 459349003890 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 459349003891 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 459349003892 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 459349003893 active site 459349003894 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 459349003895 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 459349003896 FeS/SAM binding site; other site 459349003897 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 459349003898 thiS-thiF/thiG interaction site; other site 459349003899 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 459349003900 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 459349003901 ATP binding site [chemical binding]; other site 459349003902 substrate interface [chemical binding]; other site 459349003903 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 459349003904 Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]; Region: MobB; COG1763 459349003905 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 459349003906 homotrimer interaction site [polypeptide binding]; other site 459349003907 zinc binding site [ion binding]; other site 459349003908 CDP-binding sites; other site 459349003909 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 459349003910 active site 459349003911 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 459349003912 dimer interface [polypeptide binding]; other site 459349003913 active site 459349003914 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 459349003915 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 459349003916 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 459349003917 substrate binding site; other site 459349003918 dimer interface; other site 459349003919 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 459349003920 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 459349003921 FeS/SAM binding site; other site 459349003922 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 459349003923 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349003924 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349003925 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349003926 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349003927 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 459349003928 Surface antigen; Region: Bac_surface_Ag; pfam01103 459349003929 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 459349003930 non-specific DNA binding site [nucleotide binding]; other site 459349003931 salt bridge; other site 459349003932 sequence-specific DNA binding site [nucleotide binding]; other site 459349003933 Peptidase family M1; Region: Peptidase_M1; pfam01433 459349003934 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 459349003935 Zn binding site [ion binding]; other site 459349003936 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349003937 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 459349003938 dimer interface [polypeptide binding]; other site 459349003939 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 459349003940 active site 459349003941 metal binding site [ion binding]; metal-binding site 459349003942 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 459349003943 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 459349003944 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 459349003945 RIP metalloprotease RseP; Region: TIGR00054 459349003946 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 459349003947 active site 459349003948 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 459349003949 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 459349003950 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 459349003951 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 459349003952 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 459349003953 B12 binding site [chemical binding]; other site 459349003954 cobalt ligand [ion binding]; other site 459349003955 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 459349003956 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349003957 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349003958 YceG-like family; Region: YceG; pfam02618 459349003959 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 459349003960 dimerization interface [polypeptide binding]; other site 459349003961 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 459349003962 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 459349003963 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 459349003964 active site 459349003965 catalytic motif [active] 459349003966 Zn binding site [ion binding]; other site 459349003967 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 459349003968 FeS/SAM binding site; other site 459349003969 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 459349003970 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 459349003971 active site 459349003972 metal binding site [ion binding]; metal-binding site 459349003973 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 459349003974 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 459349003975 Protein of unknown function (DUF512); Region: DUF512; pfam04459 459349003976 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 459349003977 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 459349003978 substrate binding pocket [chemical binding]; other site 459349003979 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 459349003980 membrane-bound complex binding site; other site 459349003981 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 459349003982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349003983 Walker A/P-loop; other site 459349003984 ATP binding site [chemical binding]; other site 459349003985 Q-loop/lid; other site 459349003986 ABC transporter signature motif; other site 459349003987 Walker B; other site 459349003988 D-loop; other site 459349003989 H-loop/switch region; other site 459349003990 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 459349003991 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349003992 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 459349003993 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 459349003994 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 459349003995 Walker A/P-loop; other site 459349003996 ATP binding site [chemical binding]; other site 459349003997 Q-loop/lid; other site 459349003998 ABC transporter signature motif; other site 459349003999 Walker B; other site 459349004000 D-loop; other site 459349004001 H-loop/switch region; other site 459349004002 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 459349004003 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 459349004004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349004005 Walker A/P-loop; other site 459349004006 ATP binding site [chemical binding]; other site 459349004007 Q-loop/lid; other site 459349004008 ABC transporter signature motif; other site 459349004009 Walker B; other site 459349004010 D-loop; other site 459349004011 H-loop/switch region; other site 459349004012 ferredoxin; Validated; Region: PRK07118 459349004013 Putative Fe-S cluster; Region: FeS; cl17515 459349004014 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 459349004015 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349004016 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 459349004017 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 459349004018 electron transport complex RsxE subunit; Provisional; Region: PRK12405 459349004019 FMN-binding domain; Region: FMN_bind; cl01081 459349004020 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 459349004021 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 459349004022 SLBB domain; Region: SLBB; pfam10531 459349004023 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 459349004024 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 459349004025 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 459349004026 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 459349004027 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 459349004028 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 459349004029 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 459349004030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 459349004031 Coenzyme A binding pocket [chemical binding]; other site 459349004032 DNA polymerase III subunit beta; Validated; Region: PRK05643 459349004033 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 459349004034 putative DNA binding surface [nucleotide binding]; other site 459349004035 dimer interface [polypeptide binding]; other site 459349004036 beta-clamp/clamp loader binding surface; other site 459349004037 beta-clamp/translesion DNA polymerase binding surface; other site 459349004038 recombination protein F; Reviewed; Region: recF; PRK00064 459349004039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349004040 Walker A/P-loop; other site 459349004041 ATP binding site [chemical binding]; other site 459349004042 Q-loop/lid; other site 459349004043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349004044 ABC transporter signature motif; other site 459349004045 Walker B; other site 459349004046 D-loop; other site 459349004047 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 459349004048 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 459349004049 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 459349004050 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 459349004051 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 459349004052 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 459349004053 dimer interface [polypeptide binding]; other site 459349004054 anticodon binding site; other site 459349004055 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 459349004056 homodimer interface [polypeptide binding]; other site 459349004057 motif 1; other site 459349004058 active site 459349004059 motif 2; other site 459349004060 GAD domain; Region: GAD; pfam02938 459349004061 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 459349004062 active site 459349004063 motif 3; other site 459349004064 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 459349004065 active site 459349004066 cosubstrate binding site; other site 459349004067 substrate binding site [chemical binding]; other site 459349004068 catalytic site [active] 459349004069 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 459349004070 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 459349004071 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 459349004072 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 459349004073 dimer interface [polypeptide binding]; other site 459349004074 conserved gate region; other site 459349004075 ABC-ATPase subunit interface; other site 459349004076 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 459349004077 FAD binding domain; Region: FAD_binding_4; pfam01565 459349004078 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 459349004079 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 459349004080 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 459349004081 active site 459349004082 catalytic site [active] 459349004083 substrate binding site [chemical binding]; other site 459349004084 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 459349004085 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 459349004086 AAA ATPase domain; Region: AAA_16; pfam13191 459349004087 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349004088 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 459349004089 binding surface 459349004090 TPR motif; other site 459349004091 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349004092 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 459349004093 binding surface 459349004094 TPR motif; other site 459349004095 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349004096 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 459349004097 binding surface 459349004098 TPR motif; other site 459349004099 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349004100 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349004101 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 459349004102 GAF domain; Region: GAF_3; pfam13492 459349004103 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 459349004104 Walker A motif; other site 459349004105 ATP binding site [chemical binding]; other site 459349004106 Walker B motif; other site 459349004107 arginine finger; other site 459349004108 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 459349004109 Winged helix-turn helix; Region: HTH_29; pfam13551 459349004110 Helix-turn-helix domain; Region: HTH_28; pfam13518 459349004111 Homeodomain-like domain; Region: HTH_32; pfam13565 459349004112 Integrase core domain; Region: rve; pfam00665 459349004113 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349004114 peroxiredoxin; Provisional; Region: PRK13189 459349004115 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 459349004116 dimer interface [polypeptide binding]; other site 459349004117 decamer (pentamer of dimers) interface [polypeptide binding]; other site 459349004118 catalytic triad [active] 459349004119 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 459349004120 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 459349004121 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 459349004122 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 459349004123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 459349004124 NAD(P) binding site [chemical binding]; other site 459349004125 active site 459349004126 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 459349004127 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 459349004128 DXD motif; other site 459349004129 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 459349004130 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 459349004131 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 459349004132 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 459349004133 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 459349004134 putative active site [active] 459349004135 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 459349004136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349004137 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349004138 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 459349004139 Lamin Tail Domain; Region: LTD; pfam00932 459349004140 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 459349004141 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349004142 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 459349004143 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 459349004144 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 459349004145 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 459349004146 catalytic residue [active] 459349004147 putative FPP diphosphate binding site; other site 459349004148 putative FPP binding hydrophobic cleft; other site 459349004149 dimer interface [polypeptide binding]; other site 459349004150 putative IPP diphosphate binding site; other site 459349004151 peptide chain release factor 2; Validated; Region: prfB; PRK00578 459349004152 PCRF domain; Region: PCRF; pfam03462 459349004153 RF-1 domain; Region: RF-1; pfam00472 459349004154 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 459349004155 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 459349004156 active site 459349004157 oxyanion hole [active] 459349004158 catalytic triad [active] 459349004159 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 459349004160 active site 459349004161 oxyanion hole [active] 459349004162 catalytic triad [active] 459349004163 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 459349004164 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 459349004165 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 459349004166 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 459349004167 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 459349004168 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 459349004169 active site 459349004170 dimer interface [polypeptide binding]; other site 459349004171 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 459349004172 Ligand Binding Site [chemical binding]; other site 459349004173 Molecular Tunnel; other site 459349004174 Alpha-2-macroglobulin RAP, C-terminal domain; Region: Alpha-2-MRAP_C; pfam06401 459349004175 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 459349004176 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 459349004177 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 459349004178 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 459349004179 active site 459349004180 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 459349004181 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 459349004182 active site 459349004183 DNA binding site [nucleotide binding] 459349004184 Int/Topo IB signature motif; other site 459349004185 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 459349004186 NMT1/THI5 like; Region: NMT1; pfam09084 459349004187 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 459349004188 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 459349004189 Walker A/P-loop; other site 459349004190 ATP binding site [chemical binding]; other site 459349004191 Q-loop/lid; other site 459349004192 ABC transporter signature motif; other site 459349004193 Walker B; other site 459349004194 D-loop; other site 459349004195 H-loop/switch region; other site 459349004196 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 459349004197 Amidase; Region: Amidase; cl11426 459349004198 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 459349004199 CoA-transferase family III; Region: CoA_transf_3; pfam02515 459349004200 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 459349004201 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 459349004202 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 459349004203 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 459349004204 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 459349004205 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 459349004206 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 459349004207 Putative cyclase; Region: Cyclase; pfam04199 459349004208 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 459349004209 CoA binding domain; Region: CoA_binding; pfam02629 459349004210 CoA-ligase; Region: Ligase_CoA; pfam00549 459349004211 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 459349004212 signal recognition particle protein; Provisional; Region: PRK10867 459349004213 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 459349004214 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 459349004215 P loop; other site 459349004216 GTP binding site [chemical binding]; other site 459349004217 Signal peptide binding domain; Region: SRP_SPB; pfam02978 459349004218 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 459349004219 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 459349004220 substrate binding site [chemical binding]; other site 459349004221 hexamer interface [polypeptide binding]; other site 459349004222 metal binding site [ion binding]; metal-binding site 459349004223 Protein of unknown function (DUF721); Region: DUF721; pfam05258 459349004224 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 459349004225 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 459349004226 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 459349004227 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 459349004228 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 459349004229 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 459349004230 dimer interface [polypeptide binding]; other site 459349004231 ssDNA binding site [nucleotide binding]; other site 459349004232 tetramer (dimer of dimers) interface [polypeptide binding]; other site 459349004233 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 459349004234 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 459349004235 putative active site [active] 459349004236 catalytic residue [active] 459349004237 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 459349004238 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 459349004239 5S rRNA interface [nucleotide binding]; other site 459349004240 CTC domain interface [polypeptide binding]; other site 459349004241 L16 interface [polypeptide binding]; other site 459349004242 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 459349004243 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 459349004244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 459349004245 active site 459349004246 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349004247 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 459349004248 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 459349004249 hinge; other site 459349004250 active site 459349004251 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 459349004252 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 459349004253 S-adenosylmethionine binding site [chemical binding]; other site 459349004254 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 459349004255 Response regulator receiver domain; Region: Response_reg; pfam00072 459349004256 active site 459349004257 phosphorylation site [posttranslational modification] 459349004258 intermolecular recognition site; other site 459349004259 dimerization interface [polypeptide binding]; other site 459349004260 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 459349004261 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 459349004262 anti sigma factor interaction site; other site 459349004263 regulatory phosphorylation site [posttranslational modification]; other site 459349004264 elongation factor G; Reviewed; Region: PRK12739 459349004265 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 459349004266 G1 box; other site 459349004267 putative GEF interaction site [polypeptide binding]; other site 459349004268 GTP/Mg2+ binding site [chemical binding]; other site 459349004269 Switch I region; other site 459349004270 G2 box; other site 459349004271 G3 box; other site 459349004272 Switch II region; other site 459349004273 G4 box; other site 459349004274 G5 box; other site 459349004275 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 459349004276 Elongation factor G, domain IV; Region: EFG_IV; smart00889 459349004277 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 459349004278 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 459349004279 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 459349004280 Zn2+ binding site [ion binding]; other site 459349004281 Mg2+ binding site [ion binding]; other site 459349004282 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 459349004283 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 459349004284 Interdomain contacts; other site 459349004285 Cytokine receptor motif; other site 459349004286 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349004287 Tetratricopeptide repeat; Region: TPR_16; pfam13432 459349004288 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 459349004289 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349004290 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 459349004291 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 459349004292 ligand binding site [chemical binding]; other site 459349004293 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 459349004294 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349004295 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 459349004296 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 459349004297 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 459349004298 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 459349004299 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 459349004300 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 459349004301 phosphate binding site [ion binding]; other site 459349004302 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 459349004303 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 459349004304 substrate binding pocket [chemical binding]; other site 459349004305 membrane-bound complex binding site; other site 459349004306 hinge residues; other site 459349004307 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349004308 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 459349004309 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 459349004310 substrate binding pocket [chemical binding]; other site 459349004311 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 459349004312 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 459349004313 Response regulator receiver domain; Region: Response_reg; pfam00072 459349004314 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 459349004315 active site 459349004316 phosphorylation site [posttranslational modification] 459349004317 intermolecular recognition site; other site 459349004318 dimerization interface [polypeptide binding]; other site 459349004319 PglZ domain; Region: PglZ; pfam08665 459349004320 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 459349004321 oligomerization interface [polypeptide binding]; other site 459349004322 active site 459349004323 metal binding site [ion binding]; metal-binding site 459349004324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 459349004325 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 459349004326 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 459349004327 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 459349004328 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 459349004329 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 459349004330 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 459349004331 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 459349004332 binding surface 459349004333 TPR motif; other site 459349004334 TPR repeat; Region: TPR_11; pfam13414 459349004335 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 459349004336 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 459349004337 ring oligomerisation interface [polypeptide binding]; other site 459349004338 ATP/Mg binding site [chemical binding]; other site 459349004339 stacking interactions; other site 459349004340 hinge regions; other site 459349004341 Fic family protein [Function unknown]; Region: COG3177 459349004342 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 459349004343 Fic/DOC family; Region: Fic; pfam02661 459349004344 enolase; Provisional; Region: eno; PRK00077 459349004345 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 459349004346 dimer interface [polypeptide binding]; other site 459349004347 metal binding site [ion binding]; metal-binding site 459349004348 substrate binding pocket [chemical binding]; other site 459349004349 Major Facilitator Superfamily; Region: MFS_1; pfam07690 459349004350 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 459349004351 putative substrate translocation pore; other site 459349004352 Protein of unknown function (DUF975); Region: DUF975; cl10504 459349004353 Staphylococcal nuclease homologues; Region: SNc; smart00318 459349004354 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 459349004355 Catalytic site; other site 459349004356 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 459349004357 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 459349004358 ligand binding site [chemical binding]; other site 459349004359 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 459349004360 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 459349004361 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 459349004362 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 459349004363 RNase_H superfamily; Region: RNase_H_2; pfam13482 459349004364 active site 459349004365 substrate binding site [chemical binding]; other site 459349004366 catalytic site [active] 459349004367 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 459349004368 binding surface 459349004369 TPR motif; other site 459349004370 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 459349004371 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 459349004372 tetramer interface [polypeptide binding]; other site 459349004373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 459349004374 catalytic residue [active] 459349004375 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 459349004376 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 459349004377 triosephosphate isomerase; Provisional; Region: PRK14567 459349004378 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 459349004379 substrate binding site [chemical binding]; other site 459349004380 dimer interface [polypeptide binding]; other site 459349004381 catalytic triad [active] 459349004382 seryl-tRNA synthetase; Provisional; Region: PRK05431 459349004383 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 459349004384 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 459349004385 dimer interface [polypeptide binding]; other site 459349004386 active site 459349004387 motif 1; other site 459349004388 motif 2; other site 459349004389 motif 3; other site 459349004390 Chain length determinant protein; Region: Wzz; pfam02706 459349004391 O-Antigen ligase; Region: Wzy_C; pfam04932 459349004392 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 459349004393 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 459349004394 homodimer interface [polypeptide binding]; other site 459349004395 metal binding site [ion binding]; metal-binding site 459349004396 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 459349004397 homodimer interface [polypeptide binding]; other site 459349004398 active site 459349004399 putative chemical substrate binding site [chemical binding]; other site 459349004400 metal binding site [ion binding]; metal-binding site 459349004401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 459349004402 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 459349004403 ATP binding site [chemical binding]; other site 459349004404 Mg2+ binding site [ion binding]; other site 459349004405 G-X-G motif; other site 459349004406 putative carbohydrate kinase; Provisional; Region: PRK10565 459349004407 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 459349004408 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 459349004409 putative substrate binding site [chemical binding]; other site 459349004410 putative ATP binding site [chemical binding]; other site 459349004411 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 459349004412 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 459349004413 Catalytic site [active] 459349004414 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 459349004415 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 459349004416 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 459349004417 FeS/SAM binding site; other site 459349004418 HemN C-terminal domain; Region: HemN_C; pfam06969 459349004419 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 459349004420 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 459349004421 active site 459349004422 NTP binding site [chemical binding]; other site 459349004423 metal binding triad [ion binding]; metal-binding site 459349004424 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 459349004425 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 459349004426 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 459349004427 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 459349004428 Walker A motif; other site 459349004429 ATP binding site [chemical binding]; other site 459349004430 Walker B motif; other site 459349004431 arginine finger; other site 459349004432 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 459349004433 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 459349004434 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 459349004435 Ligand binding site; other site 459349004436 Putative Catalytic site; other site 459349004437 DXD motif; other site 459349004438 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 459349004439 putative trimer interface [polypeptide binding]; other site 459349004440 putative CoA binding site [chemical binding]; other site 459349004441 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 459349004442 putative trimer interface [polypeptide binding]; other site 459349004443 putative active site [active] 459349004444 putative substrate binding site [chemical binding]; other site 459349004445 putative CoA binding site [chemical binding]; other site 459349004446 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 459349004447 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 459349004448 active site 459349004449 DNA binding site [nucleotide binding] 459349004450 Int/Topo IB signature motif; other site 459349004451 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 459349004452 B12 binding site [chemical binding]; other site 459349004453 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 459349004454 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 459349004455 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 459349004456 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 459349004457 catalytic loop [active] 459349004458 iron binding site [ion binding]; other site 459349004459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 459349004460 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 459349004461 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 459349004462 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 459349004463 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 459349004464 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 459349004465 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 459349004466 SLBB domain; Region: SLBB; pfam10531 459349004467 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 459349004468 4Fe-4S binding domain; Region: Fer4; pfam00037 459349004469 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 459349004470 4Fe-4S binding domain; Region: Fer4; pfam00037 459349004471 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 459349004472 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 459349004473 putative dimer interface [polypeptide binding]; other site 459349004474 [2Fe-2S] cluster binding site [ion binding]; other site 459349004475 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 459349004476 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 459349004477 RNA binding site [nucleotide binding]; other site 459349004478 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 459349004479 RNA binding site [nucleotide binding]; other site 459349004480 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 459349004481 RNA binding site [nucleotide binding]; other site 459349004482 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 459349004483 RNA binding site [nucleotide binding]; other site 459349004484 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 459349004485 RNA binding site [nucleotide binding]; other site 459349004486 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 459349004487 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 459349004488 dimer interface [polypeptide binding]; other site 459349004489 putative anticodon binding site; other site 459349004490 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 459349004491 motif 1; other site 459349004492 active site 459349004493 motif 2; other site 459349004494 motif 3; other site 459349004495 heat shock protein 90; Provisional; Region: PRK05218 459349004496 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 459349004497 ATP binding site [chemical binding]; other site 459349004498 Mg2+ binding site [ion binding]; other site 459349004499 G-X-G motif; other site 459349004500 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349004501 Interdomain contacts; other site 459349004502 Cytokine receptor motif; other site 459349004503 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349004504 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 459349004505 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 459349004506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 459349004507 catalytic residue [active] 459349004508 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 459349004509 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 459349004510 trimerization site [polypeptide binding]; other site 459349004511 active site 459349004512 Domain of unknown function DUF59; Region: DUF59; pfam01883 459349004513 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349004514 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 459349004515 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 459349004516 putative active site [active] 459349004517 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 459349004518 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 459349004519 motif 1; other site 459349004520 active site 459349004521 motif 2; other site 459349004522 motif 3; other site 459349004523 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 459349004524 DHHA1 domain; Region: DHHA1; pfam02272 459349004525 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 459349004526 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 459349004527 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 459349004528 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 459349004529 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 459349004530 ssDNA binding site; other site 459349004531 generic binding surface II; other site 459349004532 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 459349004533 ATP binding site [chemical binding]; other site 459349004534 putative Mg++ binding site [ion binding]; other site 459349004535 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 459349004536 nucleotide binding region [chemical binding]; other site 459349004537 ATP-binding site [chemical binding]; other site 459349004538 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 459349004539 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 459349004540 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 459349004541 Helix-hairpin-helix motif; Region: HHH; pfam00633 459349004542 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 459349004543 Endonuclease I; Region: Endonuclease_1; cl01003 459349004544 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349004545 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 459349004546 dimer interface [polypeptide binding]; other site 459349004547 active site 459349004548 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 459349004549 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 459349004550 active site 459349004551 purine riboside binding site [chemical binding]; other site 459349004552 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 459349004553 AAA domain; Region: AAA_21; pfam13304 459349004554 AAA domain; Region: AAA_21; pfam13304 459349004555 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 459349004556 RNA/DNA hybrid binding site [nucleotide binding]; other site 459349004557 active site 459349004558 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 459349004559 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 459349004560 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 459349004561 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 459349004562 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 459349004563 N-acetyl-D-glucosamine binding site [chemical binding]; other site 459349004564 catalytic residue [active] 459349004565 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 459349004566 diiron binding motif [ion binding]; other site 459349004567 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 459349004568 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 459349004569 Moco binding site; other site 459349004570 metal coordination site [ion binding]; other site 459349004571 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 459349004572 EamA-like transporter family; Region: EamA; pfam00892 459349004573 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 459349004574 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 459349004575 Malic enzyme, N-terminal domain; Region: malic; pfam00390 459349004576 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 459349004577 putative NAD(P) binding site [chemical binding]; other site 459349004578 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 459349004579 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 459349004580 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 459349004581 pyruvate carboxylase subunit B; Validated; Region: PRK09282 459349004582 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 459349004583 active site 459349004584 catalytic residues [active] 459349004585 metal binding site [ion binding]; metal-binding site 459349004586 homodimer binding site [polypeptide binding]; other site 459349004587 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 459349004588 carboxyltransferase (CT) interaction site; other site 459349004589 biotinylation site [posttranslational modification]; other site 459349004590 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 459349004591 four helix bundle protein; Region: TIGR02436 459349004592 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 459349004593 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 459349004594 active site 459349004595 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 459349004596 active site 459349004597 dimer interface [polypeptide binding]; other site 459349004598 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349004599 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 459349004600 active site 459349004601 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 459349004602 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 459349004603 Ligand Binding Site [chemical binding]; other site 459349004604 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 459349004605 active site 459349004606 Zn binding site [ion binding]; other site 459349004607 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cd11308 459349004608 Propeptide_C25; Region: Propeptide_C25; pfam08126 459349004609 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 459349004610 active site 459349004611 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 459349004612 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349004613 Interdomain contacts; other site 459349004614 Cytokine receptor motif; other site 459349004615 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 459349004616 IHF dimer interface [polypeptide binding]; other site 459349004617 IHF - DNA interface [nucleotide binding]; other site 459349004618 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 459349004619 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 459349004620 dimer interface [polypeptide binding]; other site 459349004621 active site 459349004622 metal binding site [ion binding]; metal-binding site 459349004623 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 459349004624 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 459349004625 ATP binding site [chemical binding]; other site 459349004626 putative Mg++ binding site [ion binding]; other site 459349004627 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 459349004628 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 459349004629 nucleotide binding region [chemical binding]; other site 459349004630 ATP-binding site [chemical binding]; other site 459349004631 DNA topoisomerase I; Validated; Region: PRK06599 459349004632 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 459349004633 active site 459349004634 interdomain interaction site; other site 459349004635 putative metal-binding site [ion binding]; other site 459349004636 nucleotide binding site [chemical binding]; other site 459349004637 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 459349004638 domain I; other site 459349004639 DNA binding groove [nucleotide binding] 459349004640 phosphate binding site [ion binding]; other site 459349004641 domain II; other site 459349004642 domain III; other site 459349004643 nucleotide binding site [chemical binding]; other site 459349004644 catalytic site [active] 459349004645 domain IV; other site 459349004646 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 459349004647 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 459349004648 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 459349004649 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 459349004650 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 459349004651 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 459349004652 FtsX-like permease family; Region: FtsX; pfam02687 459349004653 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 459349004654 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 459349004655 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 459349004656 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 459349004657 RNA polymerase I-specific transcription-initiation factor; Region: Rrn6; pfam10214 459349004658 Tetratricopeptide repeat; Region: TPR_12; pfam13424 459349004659 G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors; Region: GGL; cl00069 459349004660 hypothetical protein; Reviewed; Region: PRK12497 459349004661 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 459349004662 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 459349004663 active site 459349004664 PHP Thumb interface [polypeptide binding]; other site 459349004665 metal binding site [ion binding]; metal-binding site 459349004666 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 459349004667 generic binding surface II; other site 459349004668 generic binding surface I; other site 459349004669 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349004670 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 459349004671 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 459349004672 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 459349004673 PcfJ-like protein; Region: PcfJ; pfam14284 459349004674 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 459349004675 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 459349004676 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 459349004677 active site 459349004678 dimer interface [polypeptide binding]; other site 459349004679 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 459349004680 dimer interface [polypeptide binding]; other site 459349004681 active site 459349004682 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 459349004683 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 459349004684 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 459349004685 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 459349004686 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 459349004687 dimerization domain swap beta strand [polypeptide binding]; other site 459349004688 regulatory protein interface [polypeptide binding]; other site 459349004689 active site 459349004690 regulatory phosphorylation site [posttranslational modification]; other site 459349004691 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 459349004692 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 459349004693 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 459349004694 Hpr binding site; other site 459349004695 active site 459349004696 homohexamer subunit interaction site [polypeptide binding]; other site 459349004697 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 459349004698 30S subunit binding site; other site 459349004699 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 459349004700 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 459349004701 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 459349004702 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 459349004703 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 459349004704 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 459349004705 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 459349004706 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 459349004707 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 459349004708 Walker A/P-loop; other site 459349004709 ATP binding site [chemical binding]; other site 459349004710 Q-loop/lid; other site 459349004711 ABC transporter signature motif; other site 459349004712 Walker B; other site 459349004713 D-loop; other site 459349004714 H-loop/switch region; other site 459349004715 OstA-like protein; Region: OstA_2; pfam13100 459349004716 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 459349004717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 459349004718 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 459349004719 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 459349004720 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 459349004721 S-adenosylmethionine synthetase; Validated; Region: PRK05250 459349004722 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 459349004723 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 459349004724 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 459349004725 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 459349004726 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 459349004727 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 459349004728 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 459349004729 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 459349004730 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 459349004731 carboxyltransferase (CT) interaction site; other site 459349004732 biotinylation site [posttranslational modification]; other site 459349004733 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 459349004734 carboxyltransferase (CT) interaction site; other site 459349004735 biotinylation site [posttranslational modification]; other site 459349004736 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 459349004737 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 459349004738 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 459349004739 putative ligand binding site [chemical binding]; other site 459349004740 putative NAD binding site [chemical binding]; other site 459349004741 putative catalytic site [active] 459349004742 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 459349004743 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 459349004744 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 459349004745 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 459349004746 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 459349004747 active site 459349004748 putative substrate binding pocket [chemical binding]; other site 459349004749 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 459349004750 SmpB-tmRNA interface; other site 459349004751 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 459349004752 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 459349004753 catalytic loop [active] 459349004754 iron binding site [ion binding]; other site 459349004755 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 459349004756 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 459349004757 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 459349004758 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 459349004759 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 459349004760 Family description; Region: VCBS; pfam13517 459349004761 Family description; Region: VCBS; pfam13517 459349004762 Family description; Region: VCBS; pfam13517 459349004763 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 459349004764 Interdomain contacts; other site 459349004765 Cytokine receptor motif; other site 459349004766 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349004767 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 459349004768 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 459349004769 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 459349004770 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 459349004771 Walker A motif; other site 459349004772 ATP binding site [chemical binding]; other site 459349004773 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 459349004774 PqqD family protein, HPr-rel-A system; Region: PqqD_rel_X; TIGR04353 459349004775 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 459349004776 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 459349004777 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 459349004778 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 459349004779 dimer interface [polypeptide binding]; other site 459349004780 active site 459349004781 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 459349004782 catalytic residues [active] 459349004783 substrate binding site [chemical binding]; other site 459349004784 Urea transporter; Region: UT; pfam03253 459349004785 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 459349004786 Peptidase family M23; Region: Peptidase_M23; pfam01551 459349004787 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 459349004788 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 459349004789 binding surface 459349004790 TPR motif; other site 459349004791 CARDB; Region: CARDB; pfam07705 459349004792 CARDB; Region: CARDB; pfam07705 459349004793 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349004794 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 459349004795 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349004796 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349004797 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349004798 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 459349004799 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 459349004800 Cl binding site [ion binding]; other site 459349004801 oligomer interface [polypeptide binding]; other site 459349004802 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 459349004803 active site 459349004804 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 459349004805 G1 box; other site 459349004806 GTP/Mg2+ binding site [chemical binding]; other site 459349004807 Switch I region; other site 459349004808 G2 box; other site 459349004809 G3 box; other site 459349004810 Switch II region; other site 459349004811 G4 box; other site 459349004812 G5 box; other site 459349004813 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 459349004814 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 459349004815 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 459349004816 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 459349004817 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 459349004818 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 459349004819 Ligand binding site; other site 459349004820 oligomer interface; other site 459349004821 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 459349004822 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 459349004823 active site 459349004824 metal binding site [ion binding]; metal-binding site 459349004825 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 459349004826 Predicted amidohydrolase [General function prediction only]; Region: COG0388 459349004827 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 459349004828 active site 459349004829 catalytic triad [active] 459349004830 dimer interface [polypeptide binding]; other site 459349004831 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 459349004832 putative active site [active] 459349004833 dimerization interface [polypeptide binding]; other site 459349004834 putative tRNAtyr binding site [nucleotide binding]; other site 459349004835 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 459349004836 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 459349004837 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 459349004838 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 459349004839 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 459349004840 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 459349004841 rod shape-determining protein MreC; Provisional; Region: PRK13922 459349004842 rod shape-determining protein MreC; Region: MreC; pfam04085 459349004843 rod shape-determining protein MreB; Provisional; Region: PRK13927 459349004844 MreB and similar proteins; Region: MreB_like; cd10225 459349004845 nucleotide binding site [chemical binding]; other site 459349004846 Mg binding site [ion binding]; other site 459349004847 putative protofilament interaction site [polypeptide binding]; other site 459349004848 RodZ interaction site [polypeptide binding]; other site 459349004849 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 459349004850 NodB motif; other site 459349004851 putative active site [active] 459349004852 putative catalytic site [active] 459349004853 Zn binding site [ion binding]; other site 459349004854 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 459349004855 Peptidase M14 carboxypeptidase subfamily N/E-like; Region: M14_CP_N-E_like; cd03858 459349004856 active site 459349004857 Zn binding site [ion binding]; other site 459349004858 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cd11308 459349004859 Cna protein B-type domain; Region: Cna_B_2; pfam13715 459349004860 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 459349004861 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 459349004862 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 459349004863 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 459349004864 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 459349004865 Cupin domain; Region: Cupin_2; pfam07883 459349004866 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 459349004867 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 459349004868 catalytic motif [active] 459349004869 Zn binding site [ion binding]; other site 459349004870 RibD C-terminal domain; Region: RibD_C; cl17279 459349004871 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 459349004872 binding surface 459349004873 TPR motif; other site 459349004874 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 459349004875 Colicin V production protein; Region: Colicin_V; pfam02674 459349004876 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 459349004877 MutS domain III; Region: MutS_III; pfam05192 459349004878 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 459349004879 Walker A/P-loop; other site 459349004880 ATP binding site [chemical binding]; other site 459349004881 Q-loop/lid; other site 459349004882 ABC transporter signature motif; other site 459349004883 Walker B; other site 459349004884 D-loop; other site 459349004885 H-loop/switch region; other site 459349004886 Smr domain; Region: Smr; pfam01713 459349004887 CHC2 zinc finger; Region: zf-CHC2; pfam01807 459349004888 DNA primase; Validated; Region: dnaG; PRK05667 459349004889 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 459349004890 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 459349004891 active site 459349004892 metal binding site [ion binding]; metal-binding site 459349004893 interdomain interaction site; other site 459349004894 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 459349004895 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 459349004896 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 459349004897 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 459349004898 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 459349004899 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 459349004900 DNA binding residues [nucleotide binding] 459349004901 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 459349004902 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 459349004903 active site 459349004904 Zn binding site [ion binding]; other site 459349004905 Zn binding site [ion binding]; other site 459349004906 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 459349004907 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 459349004908 Walker A/P-loop; other site 459349004909 ATP binding site [chemical binding]; other site 459349004910 Q-loop/lid; other site 459349004911 ABC transporter signature motif; other site 459349004912 Walker B; other site 459349004913 D-loop; other site 459349004914 H-loop/switch region; other site 459349004915 ABC transporter; Region: ABC_tran_2; pfam12848 459349004916 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 459349004917 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 459349004918 putative ADP-ribose binding site [chemical binding]; other site 459349004919 putative active site [active] 459349004920 Lamin Tail Domain; Region: LTD; pfam00932 459349004921 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 459349004922 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 459349004923 homodimer interface [polypeptide binding]; other site 459349004924 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 459349004925 active site pocket [active] 459349004926 DGC domain; Region: DGC; cl01742 459349004927 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 459349004928 putative DNA binding site [nucleotide binding]; other site 459349004929 dimerization interface [polypeptide binding]; other site 459349004930 putative Zn2+ binding site [ion binding]; other site 459349004931 Archaeal ATPase; Region: Arch_ATPase; pfam01637 459349004932 AAA domain; Region: AAA_14; pfam13173 459349004933 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 459349004934 Lamin Tail Domain; Region: LTD; pfam00932 459349004935 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 459349004936 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 459349004937 Fructose-bisphosphate aldolase class-II; Region: F_bP_aldolase; pfam01116 459349004938 active site 459349004939 intersubunit interface [polypeptide binding]; other site 459349004940 zinc binding site [ion binding]; other site 459349004941 Na+ binding site [ion binding]; other site 459349004942 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349004943 DNA methylase; Region: N6_N4_Mtase; pfam01555 459349004944 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 459349004945 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 459349004946 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 459349004947 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 459349004948 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 459349004949 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 459349004950 putative active site [active] 459349004951 putative catalytic site [active] 459349004952 Methyltransferase domain; Region: Methyltransf_31; pfam13847 459349004953 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 459349004954 S-adenosylmethionine binding site [chemical binding]; other site 459349004955 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 459349004956 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 459349004957 Walker A/P-loop; other site 459349004958 ATP binding site [chemical binding]; other site 459349004959 Q-loop/lid; other site 459349004960 ABC transporter signature motif; other site 459349004961 Walker B; other site 459349004962 D-loop; other site 459349004963 H-loop/switch region; other site 459349004964 TOBE domain; Region: TOBE_2; pfam08402 459349004965 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 459349004966 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 459349004967 metal binding site [ion binding]; metal-binding site 459349004968 active site 459349004969 I-site; other site 459349004970 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 459349004971 Septum formation initiator; Region: DivIC; pfam04977 459349004972 Uncharacterized conserved protein [Function unknown]; Region: COG2006 459349004973 Domain of unknown function (DUF362); Region: DUF362; pfam04015 459349004974 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 459349004975 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 459349004976 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 459349004977 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 459349004978 GDP-binding site [chemical binding]; other site 459349004979 ACT binding site; other site 459349004980 IMP binding site; other site 459349004981 Uncharacterized conserved protein [Function unknown]; Region: COG5316 459349004982 Sm and related proteins; Region: Sm_like; cl00259 459349004983 Sm1 motif; other site 459349004984 RNA binding site [nucleotide binding]; other site 459349004985 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 459349004986 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 459349004987 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 459349004988 putative dimer interface [polypeptide binding]; other site 459349004989 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 459349004990 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 459349004991 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 459349004992 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 459349004993 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 459349004994 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 459349004995 dimerization interface [polypeptide binding]; other site 459349004996 active site 459349004997 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 459349004998 Putative zinc ribbon domain; Region: DUF164; pfam02591 459349004999 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 459349005000 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 459349005001 active site 459349005002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 459349005003 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 459349005004 nudix motif; other site 459349005005 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 459349005006 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 459349005007 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 459349005008 protein binding site [polypeptide binding]; other site 459349005009 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 459349005010 protein binding site [polypeptide binding]; other site 459349005011 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349005012 CARDB; Region: CARDB; pfam07705 459349005013 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349005014 Cna protein B-type domain; Region: Cna_B_2; pfam13715 459349005015 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 459349005016 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349005017 recombination regulator RecX; Reviewed; Region: recX; PRK00117 459349005018 recombinase A; Provisional; Region: recA; PRK09354 459349005019 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 459349005020 hexamer interface [polypeptide binding]; other site 459349005021 Walker A motif; other site 459349005022 ATP binding site [chemical binding]; other site 459349005023 Walker B motif; other site 459349005024 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 459349005025 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 459349005026 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 459349005027 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 459349005028 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 459349005029 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 459349005030 S-adenosylmethionine binding site [chemical binding]; other site 459349005031 PAS domain S-box; Region: sensory_box; TIGR00229 459349005032 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 459349005033 putative active site [active] 459349005034 heme pocket [chemical binding]; other site 459349005035 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 459349005036 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 459349005037 metal binding site [ion binding]; metal-binding site 459349005038 active site 459349005039 I-site; other site 459349005040 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 459349005041 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 459349005042 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 459349005043 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 459349005044 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 459349005045 DNA binding site [nucleotide binding] 459349005046 catalytic residue [active] 459349005047 H2TH interface [polypeptide binding]; other site 459349005048 putative catalytic residues [active] 459349005049 turnover-facilitating residue; other site 459349005050 intercalation triad [nucleotide binding]; other site 459349005051 8OG recognition residue [nucleotide binding]; other site 459349005052 putative reading head residues; other site 459349005053 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 459349005054 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 459349005055 DEAD-like helicases superfamily; Region: DEXDc; smart00487 459349005056 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 459349005057 putative Mg++ binding site [ion binding]; other site 459349005058 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 459349005059 nucleotide binding region [chemical binding]; other site 459349005060 ATP-binding site [chemical binding]; other site 459349005061 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 459349005062 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 459349005063 active site 459349005064 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 459349005065 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 459349005066 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 459349005067 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 459349005068 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 459349005069 catalytic residues [active] 459349005070 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 459349005071 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 459349005072 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 459349005073 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 459349005074 ribosome recycling factor; Reviewed; Region: frr; PRK00083 459349005075 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 459349005076 hinge region; other site 459349005077 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 459349005078 putative nucleotide binding site [chemical binding]; other site 459349005079 uridine monophosphate binding site [chemical binding]; other site 459349005080 homohexameric interface [polypeptide binding]; other site 459349005081 elongation factor Ts; Reviewed; Region: tsf; PRK12332 459349005082 UBA/TS-N domain; Region: UBA; pfam00627 459349005083 Elongation factor TS; Region: EF_TS; pfam00889 459349005084 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 459349005085 rRNA interaction site [nucleotide binding]; other site 459349005086 S8 interaction site; other site 459349005087 putative laminin-1 binding site; other site 459349005088 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 459349005089 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 459349005090 23S rRNA interface [nucleotide binding]; other site 459349005091 L3 interface [polypeptide binding]; other site 459349005092 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 459349005093 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 459349005094 Walker A/P-loop; other site 459349005095 ATP binding site [chemical binding]; other site 459349005096 Q-loop/lid; other site 459349005097 ABC transporter signature motif; other site 459349005098 Walker B; other site 459349005099 D-loop; other site 459349005100 H-loop/switch region; other site 459349005101 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 459349005102 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 459349005103 FtsX-like permease family; Region: FtsX; pfam02687 459349005104 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 459349005105 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 459349005106 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 459349005107 purine monophosphate binding site [chemical binding]; other site 459349005108 dimer interface [polypeptide binding]; other site 459349005109 putative catalytic residues [active] 459349005110 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 459349005111 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 459349005112 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 459349005113 DNA methylase; Region: N6_N4_Mtase; cl17433 459349005114 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 459349005115 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 459349005116 tandem repeat interface [polypeptide binding]; other site 459349005117 oligomer interface [polypeptide binding]; other site 459349005118 active site residues [active] 459349005119 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 459349005120 tandem repeat interface [polypeptide binding]; other site 459349005121 oligomer interface [polypeptide binding]; other site 459349005122 active site residues [active] 459349005123 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 459349005124 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 459349005125 homodimer interface [polypeptide binding]; other site 459349005126 oligonucleotide binding site [chemical binding]; other site 459349005127 FeoA domain; Region: FeoA; pfam04023 459349005128 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 459349005129 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 459349005130 G1 box; other site 459349005131 GTP/Mg2+ binding site [chemical binding]; other site 459349005132 Switch I region; other site 459349005133 G2 box; other site 459349005134 G3 box; other site 459349005135 Switch II region; other site 459349005136 G4 box; other site 459349005137 G5 box; other site 459349005138 Nucleoside recognition; Region: Gate; pfam07670 459349005139 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 459349005140 Nucleoside recognition; Region: Gate; pfam07670 459349005141 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 459349005142 putative DNA binding helix; other site 459349005143 metal binding site 2 [ion binding]; metal-binding site 459349005144 metal binding site 1 [ion binding]; metal-binding site 459349005145 dimer interface [polypeptide binding]; other site 459349005146 structural Zn2+ binding site [ion binding]; other site 459349005147 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 456827005148 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 456827005149 DnaA N-terminal domain; Region: DnaA_N; pfam11638 456827005150 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 456827005151 Walker A motif; other site 456827005152 ATP binding site [chemical binding]; other site 456827005153 Walker B motif; other site 456827005154 arginine finger; other site 456827005155 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 456827005156 DnaA box-binding interface [nucleotide binding]; other site 456827005157 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 456827005158 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 456827005159 SurA N-terminal domain; Region: SurA_N_3; cl07813 456827005160 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 456827005161 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 456827005162 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 456827005163 tetramer interfaces [polypeptide binding]; other site 456827005164 binuclear metal-binding site [ion binding]; other site 456827005165 Preprotein translocase subunit; Region: YajC; pfam02699 456827005166 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 456827005167 active site 456827005168 catalytic residues [active] 456827005169 metal binding site [ion binding]; metal-binding site 456827005170 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 456827005171 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 456827005172 putative active site [active] 456827005173 substrate binding site [chemical binding]; other site 456827005174 putative cosubstrate binding site; other site 456827005175 catalytic site [active] 456827005176 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 456827005177 substrate binding site [chemical binding]; other site 456827005178 Protein of unknown function DUF116; Region: DUF116; pfam01976 456827005179 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 456827005180 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 456827005181 generic binding surface I; other site 456827005182 generic binding surface II; other site 456827005183 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 456827005184 dockerin binding interface; other site 456827005185 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 456827005186 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827005187 active site 456827005188 metal binding site [ion binding]; metal-binding site 456827005189 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005190 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 456827005191 Radical SAM superfamily; Region: Radical_SAM; pfam04055 456827005192 FeS/SAM binding site; other site 456827005193 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 456827005194 PAP2_like_5 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_5; cd03394 456827005195 active site 456827005196 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 456827005197 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 456827005198 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 456827005199 FeS/SAM binding site; other site 456827005200 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 456827005201 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 456827005202 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 456827005203 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 456827005204 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827005205 active site 456827005206 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005207 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005208 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 456827005209 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 456827005210 putative acyl-acceptor binding pocket; other site 456827005211 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 456827005212 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 456827005213 Protein of unknown function DUF58; Region: DUF58; pfam01882 456827005214 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 456827005215 fumarate hydratase; Provisional; Region: PRK06246 456827005216 Fumarase C-terminus; Region: Fumerase_C; cl00795 456827005217 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 456827005218 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827005219 Interdomain contacts; other site 456827005220 Cytokine receptor motif; other site 456827005221 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005222 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 456827005223 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 456827005224 dihydrodipicolinate synthase; Region: dapA; TIGR00674 456827005225 dimer interface [polypeptide binding]; other site 456827005226 active site 456827005227 catalytic residue [active] 456827005228 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 456827005229 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 456827005230 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827005231 Peptidase M16C associated; Region: M16C_assoc; pfam08367 456827005232 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827005233 ribosome small subunit-dependent GTPase A; Region: TIGR00157 456827005234 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 456827005235 GTPase/Zn-binding domain interface [polypeptide binding]; other site 456827005236 GTP/Mg2+ binding site [chemical binding]; other site 456827005237 G4 box; other site 456827005238 G5 box; other site 456827005239 G1 box; other site 456827005240 Switch I region; other site 456827005241 G2 box; other site 456827005242 G3 box; other site 456827005243 Switch II region; other site 456827005244 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 456827005245 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 456827005246 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 456827005247 Walker A/P-loop; other site 456827005248 ATP binding site [chemical binding]; other site 456827005249 Q-loop/lid; other site 456827005250 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 456827005251 ABC transporter signature motif; other site 456827005252 Walker B; other site 456827005253 D-loop; other site 456827005254 H-loop/switch region; other site 456827005255 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 456827005256 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 456827005257 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 456827005258 minor groove reading motif; other site 456827005259 helix-hairpin-helix signature motif; other site 456827005260 substrate binding pocket [chemical binding]; other site 456827005261 active site 456827005262 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 456827005263 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 456827005264 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 456827005265 active site 456827005266 phosphorylation site [posttranslational modification] 456827005267 intermolecular recognition site; other site 456827005268 dimerization interface [polypeptide binding]; other site 456827005269 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827005270 Zn2+ binding site [ion binding]; other site 456827005271 Mg2+ binding site [ion binding]; other site 456827005272 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 456827005273 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 456827005274 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 456827005275 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 456827005276 HflX GTPase family; Region: HflX; cd01878 456827005277 G1 box; other site 456827005278 GTP/Mg2+ binding site [chemical binding]; other site 456827005279 Switch I region; other site 456827005280 G2 box; other site 456827005281 G3 box; other site 456827005282 Switch II region; other site 456827005283 G4 box; other site 456827005284 G5 box; other site 456827005285 DNA primase; Validated; Region: dnaG; PRK05667 456827005286 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 456827005287 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 456827005288 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 456827005289 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 456827005290 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 456827005291 oligomer interface [polypeptide binding]; other site 456827005292 putative active site [active] 456827005293 metal binding site [ion binding]; metal-binding site 456827005294 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827005295 Tetratricopeptide repeat; Region: TPR_6; pfam13174 456827005296 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 456827005297 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 456827005298 active site 456827005299 (T/H)XGH motif; other site 456827005300 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005301 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005302 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 456827005303 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 456827005304 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 456827005305 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 456827005306 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 456827005307 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 456827005308 ATP binding site [chemical binding]; other site 456827005309 putative Mg++ binding site [ion binding]; other site 456827005310 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 456827005311 nucleotide binding region [chemical binding]; other site 456827005312 ATP-binding site [chemical binding]; other site 456827005313 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 456827005314 dimerization interface [polypeptide binding]; other site 456827005315 putative DNA binding site [nucleotide binding]; other site 456827005316 putative Zn2+ binding site [ion binding]; other site 456827005317 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 456827005318 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827005319 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005320 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005321 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 456827005322 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 456827005323 Walker A/P-loop; other site 456827005324 ATP binding site [chemical binding]; other site 456827005325 Q-loop/lid; other site 456827005326 ABC transporter signature motif; other site 456827005327 Walker B; other site 456827005328 D-loop; other site 456827005329 H-loop/switch region; other site 456827005330 Cna protein B-type domain; Region: Cna_B_2; pfam13715 456827005331 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 456827005332 N-terminal plug; other site 456827005333 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 456827005334 ligand-binding site [chemical binding]; other site 456827005335 Homeodomain-like domain; Region: HTH_23; pfam13384 456827005336 Winged helix-turn helix; Region: HTH_29; pfam13551 456827005337 Winged helix-turn helix; Region: HTH_33; pfam13592 456827005338 Integrase core domain; Region: rve; cl01316 456827005339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 456827005340 Helix-turn-helix domains; Region: HTH; cl00088 456827005341 Winged helix-turn helix; Region: HTH_29; pfam13551 456827005342 Helix-turn-helix domain; Region: HTH_28; pfam13518 456827005343 Homeodomain-like domain; Region: HTH_32; pfam13565 456827005344 Integrase core domain; Region: rve; pfam00665 456827005345 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 456827005346 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827005347 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 456827005348 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 456827005349 ligand binding site [chemical binding]; other site 456827005350 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 456827005351 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827005352 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 456827005353 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827005354 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827005355 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827005356 Right handed beta helix region; Region: Beta_helix; pfam13229 456827005357 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827005358 Interdomain contacts; other site 456827005359 Cytokine receptor motif; other site 456827005360 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005361 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827005362 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827005363 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827005364 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 456827005365 FtsX-like permease family; Region: FtsX; pfam02687 456827005366 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827005367 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 456827005368 Walker A/P-loop; other site 456827005369 ATP binding site [chemical binding]; other site 456827005370 Q-loop/lid; other site 456827005371 ABC transporter signature motif; other site 456827005372 Walker B; other site 456827005373 D-loop; other site 456827005374 H-loop/switch region; other site 456827005375 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 456827005376 HlyD family secretion protein; Region: HlyD_3; pfam13437 456827005377 Outer membrane efflux protein; Region: OEP; pfam02321 456827005378 Outer membrane efflux protein; Region: OEP; pfam02321 456827005379 ornithine carbamoyltransferase; Validated; Region: PRK02102 456827005380 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 456827005381 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 456827005382 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827005383 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827005384 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 456827005385 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 456827005386 non-specific DNA binding site [nucleotide binding]; other site 456827005387 salt bridge; other site 456827005388 sequence-specific DNA binding site [nucleotide binding]; other site 456827005389 Domain of unknown function (DUF955); Region: DUF955; pfam06114 456827005390 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 456827005391 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827005392 Active site serine [active] 456827005393 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 456827005394 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 456827005395 metal binding site [ion binding]; metal-binding site 456827005396 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827005397 Interdomain contacts; other site 456827005398 Cytokine receptor motif; other site 456827005399 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005400 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005401 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827005402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827005403 NAD(P) binding site [chemical binding]; other site 456827005404 active site 456827005405 SLBB domain; Region: SLBB; pfam10531 456827005406 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 456827005407 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 456827005408 inhibitor-cofactor binding pocket; inhibition site 456827005409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827005410 catalytic residue [active] 456827005411 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 456827005412 Ligand binding site [chemical binding]; other site 456827005413 Electron transfer flavoprotein domain; Region: ETF; pfam01012 456827005414 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 456827005415 adenylosuccinate lyase; Provisional; Region: PRK07492 456827005416 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 456827005417 tetramer interface [polypeptide binding]; other site 456827005418 active site 456827005419 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 456827005420 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 456827005421 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 456827005422 putative dimer interface [polypeptide binding]; other site 456827005423 GTP-binding protein LepA; Provisional; Region: PRK05433 456827005424 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 456827005425 G1 box; other site 456827005426 putative GEF interaction site [polypeptide binding]; other site 456827005427 GTP/Mg2+ binding site [chemical binding]; other site 456827005428 Switch I region; other site 456827005429 G2 box; other site 456827005430 G3 box; other site 456827005431 Switch II region; other site 456827005432 G4 box; other site 456827005433 G5 box; other site 456827005434 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 456827005435 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 456827005436 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 456827005437 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827005438 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827005439 Surface antigen; Region: Bac_surface_Ag; cl03097 456827005440 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 456827005441 non-specific DNA binding site [nucleotide binding]; other site 456827005442 Predicted transcriptional regulator [Transcription]; Region: COG2932 456827005443 salt bridge; other site 456827005444 sequence-specific DNA binding site [nucleotide binding]; other site 456827005445 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 456827005446 Catalytic site [active] 456827005447 RmuC family; Region: RmuC; pfam02646 456827005448 Thiamine pyrophosphokinase; Region: TPK; cd07995 456827005449 active site 456827005450 dimerization interface [polypeptide binding]; other site 456827005451 thiamine binding site [chemical binding]; other site 456827005452 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 456827005453 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827005454 DNA protecting protein DprA; Region: dprA; TIGR00732 456827005455 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 456827005456 GTPase CgtA; Reviewed; Region: obgE; PRK12299 456827005457 GTP1/OBG; Region: GTP1_OBG; pfam01018 456827005458 Obg GTPase; Region: Obg; cd01898 456827005459 G1 box; other site 456827005460 GTP/Mg2+ binding site [chemical binding]; other site 456827005461 Switch I region; other site 456827005462 G2 box; other site 456827005463 G3 box; other site 456827005464 Switch II region; other site 456827005465 G4 box; other site 456827005466 G5 box; other site 456827005467 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005468 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005469 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005470 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 456827005471 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 456827005472 ABC-ATPase subunit interface; other site 456827005473 dimer interface [polypeptide binding]; other site 456827005474 putative PBP binding regions; other site 456827005475 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 456827005476 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 456827005477 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 456827005478 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 456827005479 intersubunit interface [polypeptide binding]; other site 456827005480 multifunctional aminopeptidase A; Provisional; Region: PRK00913 456827005481 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 456827005482 interface (dimer of trimers) [polypeptide binding]; other site 456827005483 Substrate-binding/catalytic site; other site 456827005484 Zn-binding sites [ion binding]; other site 456827005485 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 456827005486 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827005487 Surface antigen; Region: Bac_surface_Ag; cl03097 456827005488 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 456827005489 mce related protein; Region: MCE; pfam02470 456827005490 Predicted permeases [General function prediction only]; Region: COG0679 456827005491 Phosphate transporter family; Region: PHO4; pfam01384 456827005492 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 456827005493 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 456827005494 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 456827005495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827005496 homodimer interface [polypeptide binding]; other site 456827005497 catalytic residue [active] 456827005498 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 456827005499 dimer interface [polypeptide binding]; other site 456827005500 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 456827005501 Putative zinc-finger; Region: zf-HC2; pfam13490 456827005502 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 456827005503 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 456827005504 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 456827005505 DNA binding residues [nucleotide binding] 456827005506 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 456827005507 putative transposase OrfB; Reviewed; Region: PHA02517 456827005508 Integrase core domain; Region: rve; pfam00665 456827005509 Integrase core domain; Region: rve_3; pfam13683 456827005510 MjaI restriction endonuclease; Region: RE_MjaI; pfam09568 456827005511 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827005512 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827005513 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827005514 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827005515 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 456827005516 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827005517 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; cl16911 456827005518 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827005519 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827005520 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827005521 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 456827005522 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 456827005523 trmE is a tRNA modification GTPase; Region: trmE; cd04164 456827005524 G1 box; other site 456827005525 GTP/Mg2+ binding site [chemical binding]; other site 456827005526 Switch I region; other site 456827005527 G2 box; other site 456827005528 Switch II region; other site 456827005529 G3 box; other site 456827005530 G4 box; other site 456827005531 G5 box; other site 456827005532 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 456827005533 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 456827005534 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 456827005535 TPP-binding site; other site 456827005536 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 456827005537 PYR/PP interface [polypeptide binding]; other site 456827005538 dimer interface [polypeptide binding]; other site 456827005539 TPP binding site [chemical binding]; other site 456827005540 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 456827005541 Aerotolerance regulator N-terminal; Region: BatA; cl06567 456827005542 von Willebrand factor type A domain; Region: VWA_2; pfam13519 456827005543 metal ion-dependent adhesion site (MIDAS); other site 456827005544 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 456827005545 active site 456827005546 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 456827005547 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 456827005548 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827005549 catalytic residue [active] 456827005550 uncharacterized subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_2; cd10915 456827005551 putative active site [active] 456827005552 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005553 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 456827005554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827005555 Coenzyme A binding pocket [chemical binding]; other site 456827005556 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 456827005557 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 456827005558 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 456827005559 active site 456827005560 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 456827005561 mce related protein; Region: MCE; pfam02470 456827005562 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; cl16911 456827005563 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827005564 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 456827005565 S-adenosylmethionine binding site [chemical binding]; other site 456827005566 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 456827005567 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 456827005568 active site 456827005569 Zn binding site [ion binding]; other site 456827005570 Zn binding site [ion binding]; other site 456827005571 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005572 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005573 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 456827005574 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 456827005575 peptide chain release factor 1; Validated; Region: prfA; PRK00591 456827005576 PCRF domain; Region: PCRF; pfam03462 456827005577 RF-1 domain; Region: RF-1; pfam00472 456827005578 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 456827005579 Domain of unknown function DUF21; Region: DUF21; pfam01595 456827005580 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 456827005581 Transporter associated domain; Region: CorC_HlyC; smart01091 456827005582 glutamate formiminotransferase; Region: FtcD; TIGR02024 456827005583 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 456827005584 Formiminotransferase domain; Region: FTCD; pfam02971 456827005585 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 456827005586 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 456827005587 putative active site [active] 456827005588 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 456827005589 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 456827005590 RNA binding surface [nucleotide binding]; other site 456827005591 acetate kinase; Region: ackA; TIGR00016 456827005592 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 456827005593 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005594 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 456827005595 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 456827005596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827005597 Coenzyme A binding pocket [chemical binding]; other site 456827005598 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 456827005599 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827005600 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827005601 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 456827005602 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 456827005603 protein binding site [polypeptide binding]; other site 456827005604 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 456827005605 Domain interface; other site 456827005606 Peptide binding site; other site 456827005607 Active site tetrad [active] 456827005608 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 456827005609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 456827005610 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 456827005611 Nidogen-like; Region: NIDO; cl02648 456827005612 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 456827005613 structural tetrad; other site 456827005614 FOG: PKD repeat [General function prediction only]; Region: COG3291 456827005615 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 456827005616 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 456827005617 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005618 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005619 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005620 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 456827005621 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005622 Leucine-rich repeats; other site 456827005623 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005624 Substrate binding site [chemical binding]; other site 456827005625 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005626 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005627 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005628 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005629 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005630 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005631 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005632 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005633 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 456827005634 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005635 Leucine-rich repeats; other site 456827005636 Substrate binding site [chemical binding]; other site 456827005637 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005638 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005639 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005640 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005641 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005642 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005643 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 456827005644 Leucine-rich repeats; other site 456827005645 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005646 Substrate binding site [chemical binding]; other site 456827005647 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005648 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005649 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005650 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005651 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005652 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005653 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827005654 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 456827005655 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 456827005656 Phage capsid family; Region: Phage_capsid; pfam05065 456827005657 Phage-related protein [Function unknown]; Region: COG4695; cl01923 456827005658 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 456827005659 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 456827005660 catalytic residue [active] 456827005661 Predicted type IV restriction endonuclease [Defense mechanisms]; Region: COG2810 456827005662 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 456827005663 HsdM N-terminal domain; Region: HsdM_N; pfam12161 456827005664 Methyltransferase domain; Region: Methyltransf_26; pfam13659 456827005665 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 456827005666 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 456827005667 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 456827005668 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 456827005669 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827005670 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 456827005671 non-specific DNA binding site [nucleotide binding]; other site 456827005672 salt bridge; other site 456827005673 sequence-specific DNA binding site [nucleotide binding]; other site 456827005674 Domain of unknown function (DUF955); Region: DUF955; cl01076 456827005675 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 456827005676 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 456827005677 Terminase-like family; Region: Terminase_6; pfam03237 456827005678 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827005679 Helix-turn-helix domain; Region: HTH_17; pfam12728 456827005680 DNA binding residues [nucleotide binding] 456827005681 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 456827005682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827005683 AAA domain; Region: AAA_22; pfam13401 456827005684 Walker A/P-loop; other site 456827005685 ATP binding site [chemical binding]; other site 456827005686 ABC transporter signature motif; other site 456827005687 Walker B; other site 456827005688 D-loop; other site 456827005689 Integrase core domain; Region: rve; pfam00665 456827005690 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 456827005691 Helix-turn-helix domain; Region: HTH_17; pfam12728 456827005692 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 456827005693 non-specific DNA binding site [nucleotide binding]; other site 456827005694 Predicted transcriptional regulator [Transcription]; Region: COG2932 456827005695 salt bridge; other site 456827005696 sequence-specific DNA binding site [nucleotide binding]; other site 456827005697 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 456827005698 Catalytic site [active] 456827005699 cyclase homology domain; Region: CHD; cd07302 456827005700 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 456827005701 nucleotidyl binding site; other site 456827005702 metal binding site [ion binding]; metal-binding site 456827005703 dimer interface [polypeptide binding]; other site 456827005704 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 456827005705 cyclase homology domain; Region: CHD; cd07302 456827005706 nucleotidyl binding site; other site 456827005707 metal binding site [ion binding]; metal-binding site 456827005708 dimer interface [polypeptide binding]; other site 456827005709 Predicted ATPase [General function prediction only]; Region: COG3899 456827005710 AAA ATPase domain; Region: AAA_16; pfam13191 456827005711 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827005712 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 456827005713 binding surface 456827005714 TPR motif; other site 456827005715 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827005716 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 456827005717 binding surface 456827005718 TPR motif; other site 456827005719 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827005720 M6 family metalloprotease domain; Region: M6dom_TIGR03296 456827005721 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 456827005722 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827005723 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 456827005724 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827005725 Methyltransferase domain; Region: Methyltransf_23; pfam13489 456827005726 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 456827005727 S-adenosylmethionine binding site [chemical binding]; other site 456827005728 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 456827005729 MatE; Region: MatE; cl10513 456827005730 MatE; Region: MatE; cl10513 456827005731 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 456827005732 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 456827005733 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 456827005734 generic binding surface II; other site 456827005735 generic binding surface I; other site 456827005736 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 456827005737 FMN binding site [chemical binding]; other site 456827005738 dimer interface [polypeptide binding]; other site 456827005739 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 456827005740 ribonuclease III; Reviewed; Region: rnc; PRK00102 456827005741 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 456827005742 dimerization interface [polypeptide binding]; other site 456827005743 active site 456827005744 metal binding site [ion binding]; metal-binding site 456827005745 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 456827005746 dsRNA binding site [nucleotide binding]; other site 456827005747 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 456827005748 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 456827005749 dimer interface [polypeptide binding]; other site 456827005750 active site 456827005751 acyl carrier protein; Provisional; Region: acpP; PRK00982 456827005752 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 456827005753 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 456827005754 NAD(P) binding site [chemical binding]; other site 456827005755 homotetramer interface [polypeptide binding]; other site 456827005756 homodimer interface [polypeptide binding]; other site 456827005757 active site 456827005758 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 456827005759 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 456827005760 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 456827005761 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 456827005762 dimer interface [polypeptide binding]; other site 456827005763 active site 456827005764 CoA binding pocket [chemical binding]; other site 456827005765 putative phosphate acyltransferase; Provisional; Region: PRK05331 456827005766 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 456827005767 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 456827005768 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 456827005769 active site 456827005770 catalytic residues [active] 456827005771 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827005772 Interdomain contacts; other site 456827005773 Cytokine receptor motif; other site 456827005774 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005775 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 456827005776 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 456827005777 active site 456827005778 HIGH motif; other site 456827005779 nucleotide binding site [chemical binding]; other site 456827005780 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 456827005781 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 456827005782 active site 456827005783 KMSKS motif; other site 456827005784 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 456827005785 tRNA binding surface [nucleotide binding]; other site 456827005786 anticodon binding site; other site 456827005787 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 456827005788 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 456827005789 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 456827005790 active site 456827005791 Sm and related proteins; Region: Sm_like; cl00259 456827005792 ribosome maturation protein RimP; Reviewed; Region: PRK00092 456827005793 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 456827005794 putative oligomer interface [polypeptide binding]; other site 456827005795 putative RNA binding site [nucleotide binding]; other site 456827005796 transcription termination factor NusA; Region: NusA; TIGR01953 456827005797 NusA N-terminal domain; Region: NusA_N; pfam08529 456827005798 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 456827005799 RNA binding site [nucleotide binding]; other site 456827005800 homodimer interface [polypeptide binding]; other site 456827005801 NusA-like KH domain; Region: KH_5; pfam13184 456827005802 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 456827005803 G-X-X-G motif; other site 456827005804 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 456827005805 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 456827005806 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 456827005807 translation initiation factor IF-2; Region: IF-2; TIGR00487 456827005808 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 456827005809 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 456827005810 G1 box; other site 456827005811 putative GEF interaction site [polypeptide binding]; other site 456827005812 GTP/Mg2+ binding site [chemical binding]; other site 456827005813 Switch I region; other site 456827005814 G2 box; other site 456827005815 G3 box; other site 456827005816 Switch II region; other site 456827005817 G4 box; other site 456827005818 G5 box; other site 456827005819 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 456827005820 Translation-initiation factor 2; Region: IF-2; pfam11987 456827005821 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 456827005822 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 456827005823 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 456827005824 DHH family; Region: DHH; pfam01368 456827005825 DHHA1 domain; Region: DHHA1; pfam02272 456827005826 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 456827005827 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 456827005828 RNA binding site [nucleotide binding]; other site 456827005829 active site 456827005830 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 456827005831 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 456827005832 active site 456827005833 Riboflavin kinase; Region: Flavokinase; pfam01687 456827005834 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005835 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 456827005836 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 456827005837 generic binding surface I; other site 456827005838 generic binding surface II; other site 456827005839 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827005840 Zn2+ binding site [ion binding]; other site 456827005841 Mg2+ binding site [ion binding]; other site 456827005842 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 456827005843 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 456827005844 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 456827005845 ATP binding site [chemical binding]; other site 456827005846 putative Mg++ binding site [ion binding]; other site 456827005847 nucleotide binding region [chemical binding]; other site 456827005848 helicase superfamily c-terminal domain; Region: HELICc; smart00490 456827005849 ATP-binding site [chemical binding]; other site 456827005850 HEAT repeats; Region: HEAT_2; pfam13646 456827005851 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 456827005852 S-adenosylmethionine binding site [chemical binding]; other site 456827005853 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 456827005854 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 456827005855 P-loop; other site 456827005856 Magnesium ion binding site [ion binding]; other site 456827005857 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 456827005858 Magnesium ion binding site [ion binding]; other site 456827005859 ParB-like partition proteins; Region: parB_part; TIGR00180 456827005860 ParB-like nuclease domain; Region: ParBc; pfam02195 456827005861 KorB domain; Region: KorB; pfam08535 456827005862 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 456827005863 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 456827005864 NAD binding site [chemical binding]; other site 456827005865 substrate binding site [chemical binding]; other site 456827005866 homodimer interface [polypeptide binding]; other site 456827005867 active site 456827005868 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 456827005869 peptidase T-like protein; Region: PepT-like; TIGR01883 456827005870 metal binding site [ion binding]; metal-binding site 456827005871 putative dimer interface [polypeptide binding]; other site 456827005872 dihydrodipicolinate reductase; Provisional; Region: PRK00048 456827005873 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 456827005874 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 456827005875 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 456827005876 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 456827005877 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 456827005878 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 456827005879 Helix-turn-helix domain; Region: HTH_25; pfam13413 456827005880 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 456827005881 dimer interface [polypeptide binding]; other site 456827005882 pyridoxal binding site [chemical binding]; other site 456827005883 ATP binding site [chemical binding]; other site 456827005884 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827005885 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 456827005886 active site 456827005887 metal binding site [ion binding]; metal-binding site 456827005888 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 456827005889 Fe-S cluster binding site [ion binding]; other site 456827005890 active site 456827005891 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 456827005892 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 456827005893 catalytic site [active] 456827005894 G-X2-G-X-G-K; other site 456827005895 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 456827005896 lipoyl attachment site [posttranslational modification]; other site 456827005897 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 456827005898 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 456827005899 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 456827005900 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 456827005901 dimer interface [polypeptide binding]; other site 456827005902 substrate binding site [chemical binding]; other site 456827005903 metal binding site [ion binding]; metal-binding site 456827005904 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 456827005905 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 456827005906 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 456827005907 TPP-binding site [chemical binding]; other site 456827005908 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 456827005909 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 456827005910 dimer interface [polypeptide binding]; other site 456827005911 PYR/PP interface [polypeptide binding]; other site 456827005912 TPP binding site [chemical binding]; other site 456827005913 substrate binding site [chemical binding]; other site 456827005914 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 456827005915 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827005916 aspartate aminotransferase; Provisional; Region: PRK08361 456827005917 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 456827005918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827005919 homodimer interface [polypeptide binding]; other site 456827005920 catalytic residue [active] 456827005921 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 456827005922 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 456827005923 nucleotide binding site/active site [active] 456827005924 HIT family signature motif; other site 456827005925 catalytic residue [active] 456827005926 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 456827005927 active site 456827005928 catalytic residues [active] 456827005929 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827005930 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005931 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 456827005932 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; cl16911 456827005933 Probable zinc-binding domain; Region: zf-trcl; pfam13451 456827005934 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 456827005935 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 456827005936 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 456827005937 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 456827005938 Caspase domain; Region: Peptidase_C14; pfam00656 456827005939 substrate pocket [chemical binding]; other site 456827005940 active site 456827005941 proteolytic cleavage site; other site 456827005942 dimer interface [polypeptide binding]; other site 456827005943 Uncharacterized conserved protein [Function unknown]; Region: COG1262 456827005944 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 456827005945 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 456827005946 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827005947 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827005948 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 456827005949 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 456827005950 dimer interface [polypeptide binding]; other site 456827005951 motif 1; other site 456827005952 active site 456827005953 motif 2; other site 456827005954 motif 3; other site 456827005955 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827005956 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 456827005957 DNA binding residues [nucleotide binding] 456827005958 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 456827005959 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 456827005960 putative active site [active] 456827005961 catalytic triad [active] 456827005962 putative dimer interface [polypeptide binding]; other site 456827005963 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 456827005964 DHH family; Region: DHH; pfam01368 456827005965 DHHA1 domain; Region: DHHA1; pfam02272 456827005966 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 456827005967 active site 456827005968 phosphorylation site [posttranslational modification] 456827005969 FOG: CBS domain [General function prediction only]; Region: COG0517 456827005970 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 456827005971 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 456827005972 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 456827005973 transmembrane helices; other site 456827005974 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 456827005975 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 456827005976 dimer interface [polypeptide binding]; other site 456827005977 PYR/PP interface [polypeptide binding]; other site 456827005978 TPP binding site [chemical binding]; other site 456827005979 substrate binding site [chemical binding]; other site 456827005980 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 456827005981 Domain of unknown function; Region: EKR; pfam10371 456827005982 4Fe-4S binding domain; Region: Fer4_6; pfam12837 456827005983 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 456827005984 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 456827005985 TPP-binding site [chemical binding]; other site 456827005986 dimer interface [polypeptide binding]; other site 456827005987 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 456827005988 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 456827005989 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 456827005990 substrate binding pocket [chemical binding]; other site 456827005991 chain length determination region; other site 456827005992 substrate-Mg2+ binding site; other site 456827005993 catalytic residues [active] 456827005994 aspartate-rich region 1; other site 456827005995 active site lid residues [active] 456827005996 aspartate-rich region 2; other site 456827005997 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 456827005998 trimer interface [polypeptide binding]; other site 456827005999 active site 456827006000 Quinolinate synthetase A protein; Region: NadA; pfam02445 456827006001 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 456827006002 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 456827006003 TPR motif; other site 456827006004 binding surface 456827006005 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 456827006006 Clp amino terminal domain; Region: Clp_N; pfam02861 456827006007 Clp amino terminal domain; Region: Clp_N; pfam02861 456827006008 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 456827006009 Walker A motif; other site 456827006010 ATP binding site [chemical binding]; other site 456827006011 Walker B motif; other site 456827006012 arginine finger; other site 456827006013 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 456827006014 Walker A motif; other site 456827006015 ATP binding site [chemical binding]; other site 456827006016 Walker B motif; other site 456827006017 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 456827006018 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 456827006019 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 ATP-dependent...; Region: HisRS-like_core; cd00773 456827006020 dimer interface [polypeptide binding]; other site 456827006021 motif 1; other site 456827006022 active site 456827006023 motif 2; other site 456827006024 motif 3; other site 456827006025 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 456827006026 anticodon binding site; other site 456827006027 TaqI restriction endonuclease; Region: RE_TaqI; pfam09573 456827006028 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 456827006029 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 456827006030 S-adenosylmethionine binding site [chemical binding]; other site 456827006031 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 456827006032 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 456827006033 homotrimer interaction site [polypeptide binding]; other site 456827006034 putative active site [active] 456827006035 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 456827006036 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 456827006037 catalytic core [active] 456827006038 AIR carboxylase; Region: AIRC; pfam00731 456827006039 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 456827006040 active site 456827006041 phosphorylation site [posttranslational modification] 456827006042 Lipopolysaccharide-assembly; Region: LptE; pfam04390 456827006043 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 456827006044 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 456827006045 RNA binding surface [nucleotide binding]; other site 456827006046 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 456827006047 active site 456827006048 GTP-binding protein YchF; Reviewed; Region: PRK09601 456827006049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006050 G1 box; other site 456827006051 GTP/Mg2+ binding site [chemical binding]; other site 456827006052 G2 box; other site 456827006053 Switch I region; other site 456827006054 G3 box; other site 456827006055 Switch II region; other site 456827006056 G4 box; other site 456827006057 G5 box; other site 456827006058 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 456827006059 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 456827006060 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 456827006061 Walker A motif; other site 456827006062 ATP binding site [chemical binding]; other site 456827006063 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 456827006064 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 456827006065 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 456827006066 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 456827006067 Substrate binding site; other site 456827006068 Cupin domain; Region: Cupin_2; cl09118 456827006069 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 456827006070 putative FMN binding site [chemical binding]; other site 456827006071 NADPH bind site [chemical binding]; other site 456827006072 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827006073 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; cl16911 456827006074 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827006075 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006076 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827006077 Walker A/P-loop; other site 456827006078 ATP binding site [chemical binding]; other site 456827006079 Q-loop/lid; other site 456827006080 ABC transporter signature motif; other site 456827006081 Walker B; other site 456827006082 D-loop; other site 456827006083 H-loop/switch region; other site 456827006084 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 456827006085 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827006086 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 456827006087 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 456827006088 protein binding site [polypeptide binding]; other site 456827006089 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 456827006090 Catalytic dyad [active] 456827006091 thymidylate kinase; Validated; Region: tmk; PRK00698 456827006092 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 456827006093 TMP-binding site; other site 456827006094 ATP-binding site [chemical binding]; other site 456827006095 L-aspartate oxidase; Provisional; Region: PRK09077 456827006096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827006097 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 456827006098 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 456827006099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827006100 Coenzyme A binding pocket [chemical binding]; other site 456827006101 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 456827006102 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 456827006103 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 456827006104 active site 456827006105 HIGH motif; other site 456827006106 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 456827006107 KMSK motif region; other site 456827006108 tRNA binding surface [nucleotide binding]; other site 456827006109 DALR anticodon binding domain; Region: DALR_1; smart00836 456827006110 anticodon binding site; other site 456827006111 Oligomerisation domain; Region: Oligomerisation; pfam02410 456827006112 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 456827006113 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 456827006114 nucleotide binding site/active site [active] 456827006115 HIT family signature motif; other site 456827006116 catalytic residue [active] 456827006117 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 456827006118 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 456827006119 Substrate binding site; other site 456827006120 Mg++ binding site; other site 456827006121 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 456827006122 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 456827006123 catalytic center binding site [active] 456827006124 ATP binding site [chemical binding]; other site 456827006125 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 456827006126 homooctamer interface [polypeptide binding]; other site 456827006127 active site 456827006128 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 456827006129 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 456827006130 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 456827006131 active site 456827006132 nucleotide binding site [chemical binding]; other site 456827006133 HIGH motif; other site 456827006134 KMSKS motif; other site 456827006135 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 456827006136 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 456827006137 putative ribose interaction site [chemical binding]; other site 456827006138 putative ADP binding site [chemical binding]; other site 456827006139 amidophosphoribosyltransferase; Region: purF; TIGR01134 456827006140 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 456827006141 active site 456827006142 tetramer interface [polypeptide binding]; other site 456827006143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 456827006144 active site 456827006145 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 456827006146 GTP-binding protein Der; Reviewed; Region: PRK00093 456827006147 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 456827006148 G1 box; other site 456827006149 GTP/Mg2+ binding site [chemical binding]; other site 456827006150 Switch I region; other site 456827006151 G2 box; other site 456827006152 Switch II region; other site 456827006153 G3 box; other site 456827006154 G4 box; other site 456827006155 G5 box; other site 456827006156 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 456827006157 G1 box; other site 456827006158 GTP/Mg2+ binding site [chemical binding]; other site 456827006159 Switch I region; other site 456827006160 G2 box; other site 456827006161 G3 box; other site 456827006162 Switch II region; other site 456827006163 G4 box; other site 456827006164 G5 box; other site 456827006165 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827006166 Winged helix-turn helix; Region: HTH_29; pfam13551 456827006167 Helix-turn-helix domain; Region: HTH_28; pfam13518 456827006168 Homeodomain-like domain; Region: HTH_32; pfam13565 456827006169 Integrase core domain; Region: rve; pfam00665 456827006170 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 456827006171 homodimer interface [polypeptide binding]; other site 456827006172 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 456827006173 active site pocket [active] 456827006174 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 456827006175 Chromate transporter; Region: Chromate_transp; pfam02417 456827006176 Chromate transporter; Region: Chromate_transp; pfam02417 456827006177 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 456827006178 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 456827006179 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 456827006180 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 456827006181 Uncharacterized conserved protein [Function unknown]; Region: COG0327 456827006182 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 456827006183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 456827006184 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 456827006185 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 456827006186 Radical SAM superfamily; Region: Radical_SAM; pfam04055 456827006187 FeS/SAM binding site; other site 456827006188 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 456827006189 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 456827006190 Competence protein; Region: Competence; pfam03772 456827006191 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 456827006192 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 456827006193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006194 Walker A/P-loop; other site 456827006195 ATP binding site [chemical binding]; other site 456827006196 Q-loop/lid; other site 456827006197 ABC transporter signature motif; other site 456827006198 Walker B; other site 456827006199 D-loop; other site 456827006200 H-loop/switch region; other site 456827006201 Uncharacterized conserved protein [Function unknown]; Region: COG2966 456827006202 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 456827006203 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 456827006204 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 456827006205 HD supefamily hydrolase [General function prediction only]; Region: COG3294 456827006206 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 456827006207 butyrate kinase; Provisional; Region: PRK03011 456827006208 Clostripain family; Region: Peptidase_C11; cl04055 456827006209 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827006210 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 456827006211 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 456827006212 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 456827006213 TRL-like protein family; Region: TRL; pfam13146 456827006214 thymidine kinase; Provisional; Region: PRK04296 456827006215 YGGT family; Region: YGGT; pfam02325 456827006216 DivIVA domain; Region: DivI1A_domain; TIGR03544 456827006217 DivIVA protein; Region: DivIVA; pfam05103 456827006218 purine nucleoside phosphorylase; Provisional; Region: PRK08202 456827006219 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 456827006220 lipoprotein signal peptidase; Provisional; Region: PRK14787 456827006221 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 456827006222 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 456827006223 generic binding surface II; other site 456827006224 generic binding surface I; other site 456827006225 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006226 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006227 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827006228 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827006229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006230 Walker A/P-loop; other site 456827006231 ATP binding site [chemical binding]; other site 456827006232 Q-loop/lid; other site 456827006233 ABC transporter signature motif; other site 456827006234 Walker B; other site 456827006235 D-loop; other site 456827006236 H-loop/switch region; other site 456827006237 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827006238 active site 456827006239 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827006240 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827006241 active site 456827006242 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 456827006243 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827006244 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827006245 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 456827006246 putative metal binding site; other site 456827006247 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 456827006248 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 456827006249 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 456827006250 putative active site [active] 456827006251 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 456827006252 active site 456827006253 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 456827006254 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 456827006255 putative ATP binding site [chemical binding]; other site 456827006256 putative substrate interface [chemical binding]; other site 456827006257 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827006258 active site 456827006259 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 456827006260 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 456827006261 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 456827006262 imidazolonepropionase; Validated; Region: PRK09356 456827006263 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 456827006264 active site 456827006265 Protein kinase domain; Region: Pkinase; pfam00069 456827006266 Catalytic domain of Protein Kinases; Region: PKc; cd00180 456827006267 active site 456827006268 ATP binding site [chemical binding]; other site 456827006269 substrate binding site [chemical binding]; other site 456827006270 activation loop (A-loop); other site 456827006271 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 456827006272 Uncharacterized conserved protein [Function unknown]; Region: COG1262 456827006273 prolyl-tRNA synthetase; Provisional; Region: PRK08661 456827006274 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 formation of...; Region: ProRS_core_arch_euk; cd00778 456827006275 dimer interface [polypeptide binding]; other site 456827006276 motif 1; other site 456827006277 active site 456827006278 motif 2; other site 456827006279 motif 3; other site 456827006280 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 456827006281 anticodon binding site; other site 456827006282 zinc-binding site [ion binding]; other site 456827006283 competence damage-inducible protein A; Provisional; Region: PRK00549 456827006284 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 456827006285 putative MPT binding site; other site 456827006286 Competence-damaged protein; Region: CinA; pfam02464 456827006287 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 456827006288 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 456827006289 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 456827006290 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 456827006291 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827006292 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827006293 active site 456827006294 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006295 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006296 Uncharacterized protein family (UPF0164); Region: UPF0164; pfam03687 456827006297 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 456827006298 SLBB domain; Region: SLBB; pfam10531 456827006299 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 456827006300 Chain length determinant protein; Region: Wzz; cl15801 456827006301 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 456827006302 Chain length determinant protein; Region: Wzz; cl15801 456827006303 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 456827006304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006305 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 456827006306 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 456827006307 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 456827006308 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 456827006309 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 456827006310 active site 456827006311 Family description; Region: VCBS; pfam13517 456827006312 Family description; Region: VCBS; pfam13517 456827006313 Family description; Region: VCBS; pfam13517 456827006314 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 456827006315 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 456827006316 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 456827006317 dimerization interface [polypeptide binding]; other site 456827006318 domain crossover interface; other site 456827006319 redox-dependent activation switch; other site 456827006320 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 456827006321 Stage II sporulation protein; Region: SpoIID; pfam08486 456827006322 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 456827006323 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 456827006324 active site 456827006325 HIGH motif; other site 456827006326 KMSKS motif; other site 456827006327 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 456827006328 tRNA binding surface [nucleotide binding]; other site 456827006329 anticodon binding site; other site 456827006330 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 456827006331 dimer interface [polypeptide binding]; other site 456827006332 putative tRNA-binding site [nucleotide binding]; other site 456827006333 aspartate kinase I; Reviewed; Region: PRK08210 456827006334 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 456827006335 putative catalytic residues [active] 456827006336 putative nucleotide binding site [chemical binding]; other site 456827006337 putative aspartate binding site [chemical binding]; other site 456827006338 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827006339 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827006340 active site 456827006341 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 456827006342 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827006343 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827006344 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827006345 Cytokine receptor motif; other site 456827006346 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006347 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006348 Uncharacterized conserved protein [Function unknown]; Region: COG5276 456827006349 LVIVD repeat; Region: LVIVD; pfam08309 456827006350 hybrid cluster protein; Provisional; Region: PRK05290 456827006351 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 456827006352 ACS interaction site; other site 456827006353 CODH interaction site; other site 456827006354 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 456827006355 hybrid metal cluster; other site 456827006356 Cupin domain; Region: Cupin_2; pfam07883 456827006357 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 456827006358 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 456827006359 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 456827006360 biotin synthase; Provisional; Region: PRK07094 456827006361 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 456827006362 FeS/SAM binding site; other site 456827006363 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 456827006364 hypothetical protein; Validated; Region: PRK00153 456827006365 recombination protein RecR; Reviewed; Region: recR; PRK00076 456827006366 RecR protein; Region: RecR; pfam02132 456827006367 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 456827006368 putative active site [active] 456827006369 putative metal-binding site [ion binding]; other site 456827006370 tetramer interface [polypeptide binding]; other site 456827006371 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 456827006372 Lumazine binding domain; Region: Lum_binding; pfam00677 456827006373 Lumazine binding domain; Region: Lum_binding; pfam00677 456827006374 Bacterial Ig-like domain; Region: Big_5; pfam13205 456827006375 Bacterial Ig-like domain; Region: Big_5; pfam13205 456827006376 30S ribosomal protein S7; Validated; Region: PRK05302 456827006377 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 456827006378 S17 interaction site [polypeptide binding]; other site 456827006379 S8 interaction site; other site 456827006380 16S rRNA interaction site [nucleotide binding]; other site 456827006381 streptomycin interaction site [chemical binding]; other site 456827006382 23S rRNA interaction site [nucleotide binding]; other site 456827006383 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 456827006384 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 456827006385 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 456827006386 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 456827006387 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 456827006388 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 456827006389 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 456827006390 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 456827006391 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 456827006392 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 456827006393 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 456827006394 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 456827006395 DNA binding site [nucleotide binding] 456827006396 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 456827006397 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 456827006398 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; cl04593 456827006399 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 456827006400 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 456827006401 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 456827006402 RPB12 interaction site [polypeptide binding]; other site 456827006403 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 456827006404 RPB12 interaction site [polypeptide binding]; other site 456827006405 RPB3 interaction site [polypeptide binding]; other site 456827006406 RPB1 interaction site [polypeptide binding]; other site 456827006407 RPB11 interaction site [polypeptide binding]; other site 456827006408 RPB10 interaction site [polypeptide binding]; other site 456827006409 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 456827006410 peripheral dimer interface [polypeptide binding]; other site 456827006411 core dimer interface [polypeptide binding]; other site 456827006412 L10 interface [polypeptide binding]; other site 456827006413 L11 interface [polypeptide binding]; other site 456827006414 putative EF-Tu interaction site [polypeptide binding]; other site 456827006415 putative EF-G interaction site [polypeptide binding]; other site 456827006416 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 456827006417 23S rRNA interface [nucleotide binding]; other site 456827006418 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 456827006419 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 456827006420 mRNA/rRNA interface [nucleotide binding]; other site 456827006421 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 456827006422 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 456827006423 23S rRNA interface [nucleotide binding]; other site 456827006424 L7/L12 interface [polypeptide binding]; other site 456827006425 putative thiostrepton binding site; other site 456827006426 L25 interface [polypeptide binding]; other site 456827006427 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 456827006428 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 456827006429 putative homodimer interface [polypeptide binding]; other site 456827006430 KOW motif; Region: KOW; cl00354 456827006431 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 456827006432 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 456827006433 elongation factor Tu; Reviewed; Region: PRK00049 456827006434 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 456827006435 G1 box; other site 456827006436 GEF interaction site [polypeptide binding]; other site 456827006437 GTP/Mg2+ binding site [chemical binding]; other site 456827006438 Switch I region; other site 456827006439 G2 box; other site 456827006440 G3 box; other site 456827006441 Switch II region; other site 456827006442 G4 box; other site 456827006443 G5 box; other site 456827006444 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 456827006445 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 456827006446 Antibiotic Binding Site [chemical binding]; other site 456827006447 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 456827006448 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 456827006449 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827006450 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827006451 Methyltransferase domain; Region: Methyltransf_26; pfam13659 456827006452 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827006453 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 456827006454 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 456827006455 non-specific DNA binding site [nucleotide binding]; other site 456827006456 salt bridge; other site 456827006457 sequence-specific DNA binding site [nucleotide binding]; other site 456827006458 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 456827006459 Catalytic site [active] 456827006460 Helix-turn-helix domain; Region: HTH_17; pfam12728 456827006461 Integrase core domain; Region: rve; pfam00665 456827006462 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 456827006463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006464 AAA domain; Region: AAA_22; pfam13401 456827006465 Walker A/P-loop; other site 456827006466 ATP binding site [chemical binding]; other site 456827006467 ABC transporter signature motif; other site 456827006468 Walker B; other site 456827006469 D-loop; other site 456827006470 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 456827006471 Helix-turn-helix domain; Region: HTH_17; pfam12728 456827006472 DNA binding residues [nucleotide binding] 456827006473 Terminase-like family; Region: Terminase_6; pfam03237 456827006474 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 456827006475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006476 AAA domain; Region: AAA_23; pfam13476 456827006477 Walker A/P-loop; other site 456827006478 ATP binding site [chemical binding]; other site 456827006479 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 456827006480 putative active site [active] 456827006481 putative metal-binding site [ion binding]; other site 456827006482 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 456827006483 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; cl16911 456827006484 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 456827006485 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 456827006486 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 456827006487 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 456827006488 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 456827006489 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 456827006490 ATP binding site [chemical binding]; other site 456827006491 putative Mg++ binding site [ion binding]; other site 456827006492 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 456827006493 catalytic residue [active] 456827006494 Phage-related protein [Function unknown]; Region: COG4695; cl01923 456827006495 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 456827006496 Phage capsid family; Region: Phage_capsid; pfam05065 456827006497 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 456827006498 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 456827006499 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 456827006500 active sites [active] 456827006501 tetramer interface [polypeptide binding]; other site 456827006502 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 456827006503 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 456827006504 binding surface 456827006505 TPR motif; other site 456827006506 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 456827006507 binding surface 456827006508 TPR motif; other site 456827006509 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 456827006510 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 456827006511 dimerization interface 3.5A [polypeptide binding]; other site 456827006512 active site 456827006513 histidyl-tRNA synthetase; Region: hisS; TIGR00442 456827006514 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 ATP-dependent...; Region: HisRS-like_core; cd00773 456827006515 dimer interface [polypeptide binding]; other site 456827006516 motif 1; other site 456827006517 active site 456827006518 motif 2; other site 456827006519 motif 3; other site 456827006520 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 456827006521 anticodon binding site; other site 456827006522 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 456827006523 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 456827006524 active site 456827006525 substrate binding site [chemical binding]; other site 456827006526 metal binding site [ion binding]; metal-binding site 456827006527 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 456827006528 active site 456827006529 dimerization interface [polypeptide binding]; other site 456827006530 Uncharacterized conserved protein [Function unknown]; Region: COG3339 456827006531 pyruvate phosphate dikinase; Provisional; Region: PRK09279 456827006532 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 456827006533 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 456827006534 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 456827006535 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827006536 Interdomain contacts; other site 456827006537 Cytokine receptor motif; other site 456827006538 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 456827006539 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827006540 Interdomain contacts; other site 456827006541 Cytokine receptor motif; other site 456827006542 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006543 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006544 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 456827006545 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 456827006546 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 456827006547 active site 456827006548 metal binding site [ion binding]; metal-binding site 456827006549 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 456827006550 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 456827006551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827006552 Coenzyme A binding pocket [chemical binding]; other site 456827006553 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 456827006554 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 456827006555 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006556 Walker A/P-loop; other site 456827006557 ATP binding site [chemical binding]; other site 456827006558 Q-loop/lid; other site 456827006559 ABC transporter signature motif; other site 456827006560 Walker B; other site 456827006561 D-loop; other site 456827006562 H-loop/switch region; other site 456827006563 ABC transporter; Region: ABC_tran_2; pfam12848 456827006564 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 456827006565 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 456827006566 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 456827006567 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 456827006568 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 456827006569 ribosomal protein L20; Region: rpl20; CHL00068 456827006570 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 456827006571 23S rRNA binding site [nucleotide binding]; other site 456827006572 L21 binding site [polypeptide binding]; other site 456827006573 L13 binding site [polypeptide binding]; other site 456827006574 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 456827006575 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 456827006576 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 456827006577 dimer interface [polypeptide binding]; other site 456827006578 motif 1; other site 456827006579 active site 456827006580 motif 2; other site 456827006581 motif 3; other site 456827006582 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 456827006583 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 456827006584 putative tRNA-binding site [nucleotide binding]; other site 456827006585 B3/4 domain; Region: B3_4; pfam03483 456827006586 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 456827006587 dimer interface [polypeptide binding]; other site 456827006588 motif 1; other site 456827006589 motif 3; other site 456827006590 motif 2; other site 456827006591 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 456827006592 Protein of unknown function (DUF972); Region: DUF972; pfam06156 456827006593 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 456827006594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827006595 Zn2+ binding site [ion binding]; other site 456827006596 Mg2+ binding site [ion binding]; other site 456827006597 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 456827006598 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827006599 putative active site [active] 456827006600 metal binding site [ion binding]; metal-binding site 456827006601 homodimer binding site [polypeptide binding]; other site 456827006602 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 456827006603 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 456827006604 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 456827006605 homodimer interface [polypeptide binding]; other site 456827006606 NADP binding site [chemical binding]; other site 456827006607 substrate binding site [chemical binding]; other site 456827006608 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 456827006609 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 456827006610 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 456827006611 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 456827006612 G-X-X-G motif; other site 456827006613 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 456827006614 RxxxH motif; other site 456827006615 membrane protein insertase; Provisional; Region: PRK01318 456827006616 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 456827006617 Haemolytic domain; Region: Haemolytic; pfam01809 456827006618 putative RNase P, protein component, involved in tRNA and 4.5S RNA-processing (RnpA);Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 9628904; Product type pe : putative enzyme 456827006619 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 456827006620 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 456827006621 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 456827006622 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 456827006623 ATP binding site [chemical binding]; other site 456827006624 putative Mg++ binding site [ion binding]; other site 456827006625 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 456827006626 nucleotide binding region [chemical binding]; other site 456827006627 ATP-binding site [chemical binding]; other site 456827006628 TRCF domain; Region: TRCF; pfam03461 456827006629 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 456827006630 Part of AAA domain; Region: AAA_19; pfam13245 456827006631 Family description; Region: UvrD_C_2; pfam13538 456827006632 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 456827006633 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 456827006634 binding surface 456827006635 TPR motif; other site 456827006636 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827006637 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 456827006638 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 456827006639 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 456827006640 Mg++ binding site [ion binding]; other site 456827006641 putative catalytic motif [active] 456827006642 substrate binding site [chemical binding]; other site 456827006643 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827006644 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006645 Transposase IS200 like; Region: Y1_Tnp; cl00848 456827006646 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827006647 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827006648 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 456827006649 Domain of unknown function DUF11; Region: DUF11; cl15273 456827006650 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827006651 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 456827006652 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 456827006653 active site 456827006654 ATP binding site [chemical binding]; other site 456827006655 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 456827006656 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 456827006657 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 456827006658 active site 456827006659 HIGH motif; other site 456827006660 nucleotide binding site [chemical binding]; other site 456827006661 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 456827006662 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 456827006663 active site 456827006664 KMSKS motif; other site 456827006665 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 456827006666 tRNA binding surface [nucleotide binding]; other site 456827006667 anticodon binding site; other site 456827006668 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 456827006669 elongation factor P; Validated; Region: PRK00529 456827006670 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 456827006671 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 456827006672 RNA binding site [nucleotide binding]; other site 456827006673 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 456827006674 RNA binding site [nucleotide binding]; other site 456827006675 M6 family metalloprotease domain; Region: M6dom_TIGR03296 456827006676 Family description; Region: VCBS; pfam13517 456827006677 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827006678 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 456827006679 catalytic triad [active] 456827006680 putative active site [active] 456827006681 Family description; Region: VCBS; pfam13517 456827006682 Family description; Region: VCBS; pfam13517 456827006683 Bacterial Ig-like domain; Region: Big_5; cl01012 456827006684 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827006685 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006686 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827006687 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827006688 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827006689 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006690 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827006691 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006692 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006693 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 456827006694 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 456827006695 metal-binding site [ion binding] 456827006696 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 456827006697 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 456827006698 motif II; other site 456827006699 Transposase IS200 like; Region: Y1_Tnp; pfam01797 456827006700 MutL protein; Region: MutL; pfam13941 456827006701 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 456827006702 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 456827006703 active site 456827006704 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 456827006705 putative active site [active] 456827006706 catalytic triad [active] 456827006707 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 456827006708 putative recombination protein RecB; Provisional; Region: PRK13909 456827006709 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 456827006710 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 456827006711 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 456827006712 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 456827006713 putative active site [active] 456827006714 catalytic site [active] 456827006715 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 456827006716 putative active site [active] 456827006717 catalytic site [active] 456827006718 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 456827006719 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 456827006720 cobalamin binding residues [chemical binding]; other site 456827006721 putative BtuC binding residues; other site 456827006722 dimer interface [polypeptide binding]; other site 456827006723 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 456827006724 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 456827006725 ABC-ATPase subunit interface; other site 456827006726 dimer interface [polypeptide binding]; other site 456827006727 putative PBP binding regions; other site 456827006728 Homeodomain-like domain; Region: HTH_23; pfam13384 456827006729 Winged helix-turn helix; Region: HTH_29; pfam13551 456827006730 Winged helix-turn helix; Region: HTH_33; pfam13592 456827006731 Integrase core domain; Region: rve; cl01316 456827006732 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827006733 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006734 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 456827006735 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 456827006736 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 456827006737 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 456827006738 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827006739 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 456827006740 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 456827006741 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 456827006742 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 456827006743 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 456827006744 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 456827006745 dimerization interface [polypeptide binding]; other site 456827006746 putative ATP binding site [chemical binding]; other site 456827006747 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 456827006748 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 456827006749 substrate binding site [chemical binding]; other site 456827006750 ATP binding site [chemical binding]; other site 456827006751 aspartate aminotransferase; Provisional; Region: PRK05764 456827006752 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 456827006753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827006754 homodimer interface [polypeptide binding]; other site 456827006755 catalytic residue [active] 456827006756 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 456827006757 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827006758 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 456827006759 DALR anticodon binding domain; Region: DALR_1; pfam05746 456827006760 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 456827006761 active site 456827006762 phosphorylation site [posttranslational modification] 456827006763 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 456827006764 HlyD family secretion protein; Region: HlyD_3; pfam13437 456827006765 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827006766 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 456827006767 Walker A/P-loop; other site 456827006768 ATP binding site [chemical binding]; other site 456827006769 Q-loop/lid; other site 456827006770 ABC transporter signature motif; other site 456827006771 Walker B; other site 456827006772 D-loop; other site 456827006773 H-loop/switch region; other site 456827006774 ABC-2 type transporter; Region: ABC2_membrane; cl11417 456827006775 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 456827006776 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 456827006777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827006778 Coenzyme A binding pocket [chemical binding]; other site 456827006779 6-phosphofructokinase; Provisional; Region: PRK03202 456827006780 active site 456827006781 ADP/pyrophosphate binding site [chemical binding]; other site 456827006782 dimerization interface [polypeptide binding]; other site 456827006783 allosteric effector site; other site 456827006784 fructose-1,6-bisphosphate binding site; other site 456827006785 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 456827006786 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 456827006787 active site 456827006788 HIGH motif; other site 456827006789 dimer interface [polypeptide binding]; other site 456827006790 KMSKS motif; other site 456827006791 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 456827006792 RNA binding surface [nucleotide binding]; other site 456827006793 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 456827006794 active site 456827006795 putative substrate binding region [chemical binding]; other site 456827006796 glutamine synthetase, type I; Region: GlnA; TIGR00653 456827006797 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 456827006798 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 456827006799 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827006800 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827006801 active site 456827006802 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 456827006803 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827006804 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006805 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006806 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 456827006807 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 456827006808 metal binding site [ion binding]; metal-binding site 456827006809 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 456827006810 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 456827006811 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 456827006812 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 456827006813 RNB domain; Region: RNB; pfam00773 456827006814 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006815 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827006816 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 456827006817 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 456827006818 Mg++ binding site [ion binding]; other site 456827006819 putative catalytic motif [active] 456827006820 substrate binding site [chemical binding]; other site 456827006821 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827006822 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 456827006823 putative ADP-binding pocket [chemical binding]; other site 456827006824 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 456827006825 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 456827006826 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 456827006827 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 456827006828 substrate binding site; other site 456827006829 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 456827006830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827006831 NAD(P) binding site [chemical binding]; other site 456827006832 active site 456827006833 Cupin domain; Region: Cupin_2; cl09118 456827006834 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 456827006835 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 456827006836 inhibitor-cofactor binding pocket; inhibition site 456827006837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827006838 catalytic residue [active] 456827006839 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 456827006840 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 456827006841 FAD binding pocket [chemical binding]; other site 456827006842 conserved FAD binding motif [chemical binding]; other site 456827006843 phosphate binding motif [ion binding]; other site 456827006844 beta-alpha-beta structure motif; other site 456827006845 NAD binding pocket [chemical binding]; other site 456827006846 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 456827006847 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 456827006848 inhibitor-cofactor binding pocket; inhibition site 456827006849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827006850 catalytic residue [active] 456827006851 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 456827006852 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 456827006853 Probable Catalytic site; other site 456827006854 metal-binding site 456827006855 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827006856 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 456827006857 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 456827006858 MatE; Region: MatE; cl10513 456827006859 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 456827006860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827006861 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 456827006862 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 456827006863 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827006864 active site 456827006865 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 456827006866 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 456827006867 NAD binding site [chemical binding]; other site 456827006868 substrate binding site [chemical binding]; other site 456827006869 active site 456827006870 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 456827006871 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 456827006872 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 456827006873 inhibitor-cofactor binding pocket; inhibition site 456827006874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827006875 catalytic residue [active] 456827006876 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 456827006877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827006878 Coenzyme A binding pocket [chemical binding]; other site 456827006879 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 456827006880 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 456827006881 putative trimer interface [polypeptide binding]; other site 456827006882 putative CoA binding site [chemical binding]; other site 456827006883 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 456827006884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827006885 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 456827006886 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 456827006887 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 456827006888 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827006889 ATP-grasp domain; Region: ATP-grasp_4; cl03087 456827006890 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 456827006891 putative ADP-binding pocket [chemical binding]; other site 456827006892 ATP-grasp domain; Region: ATP-grasp_4; cl03087 456827006893 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u5; cd10929 456827006894 putative active site [active] 456827006895 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 456827006896 active site 456827006897 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 456827006898 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827006899 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 456827006900 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 456827006901 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 456827006902 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827006903 catalytic residue [active] 456827006904 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 456827006905 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 456827006906 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 456827006907 active site 456827006908 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 456827006909 homodimer interface [polypeptide binding]; other site 456827006910 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 456827006911 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 456827006912 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 456827006913 putative active site [active] 456827006914 Phosphopantetheine attachment site; Region: PP-binding; cl09936 456827006915 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 456827006916 AMP-binding enzyme; Region: AMP-binding; pfam00501 456827006917 Domain of unknown function (DUF4009); Region: DUF4009; pfam13193 456827006918 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 456827006919 classical (c) SDRs; Region: SDR_c; cd05233 456827006920 NAD(P) binding site [chemical binding]; other site 456827006921 active site 456827006922 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 456827006923 VanZ like family; Region: VanZ; cl01971 456827006924 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 456827006925 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 456827006926 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 456827006927 putative active site [active] 456827006928 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 456827006929 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 456827006930 trimer interface [polypeptide binding]; other site 456827006931 active site 456827006932 substrate binding site [chemical binding]; other site 456827006933 CoA binding site [chemical binding]; other site 456827006934 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 456827006935 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 456827006936 dimer interface [polypeptide binding]; other site 456827006937 active site 456827006938 CoA binding pocket [chemical binding]; other site 456827006939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827006940 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 456827006941 NAD(P) binding site [chemical binding]; other site 456827006942 active site 456827006943 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 456827006944 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 456827006945 NAD binding site [chemical binding]; other site 456827006946 substrate binding site [chemical binding]; other site 456827006947 homodimer interface [polypeptide binding]; other site 456827006948 active site 456827006949 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 456827006950 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 456827006951 Bacterial sugar transferase; Region: Bac_transf; cl00939 456827006952 Transposase IS200 like; Region: Y1_Tnp; pfam01797 456827006953 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 456827006954 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 456827006955 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827006956 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 456827006957 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 456827006958 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 456827006959 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 456827006960 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 456827006961 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 456827006962 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 456827006963 MOFRL family; Region: MOFRL; pfam05161 456827006964 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827006965 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827006966 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 456827006967 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827006968 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 456827006969 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 456827006970 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 456827006971 DNA repair protein RadA; Provisional; Region: PRK11823 456827006972 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 456827006973 Walker A motif/ATP binding site; other site 456827006974 ATP binding site [chemical binding]; other site 456827006975 Walker B motif; other site 456827006976 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 456827006977 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 456827006978 catalytic residues [active] 456827006979 MarR family; Region: MarR_2; pfam12802 456827006980 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 456827006981 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 456827006982 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 456827006983 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 456827006984 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 456827006985 active site 456827006986 peptidase; Reviewed; Region: PRK13004 456827006987 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 456827006988 putative metal binding site [ion binding]; other site 456827006989 putative dimer interface [polypeptide binding]; other site 456827006990 threonine synthase; Validated; Region: PRK06260 456827006991 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 456827006992 homodimer interface [polypeptide binding]; other site 456827006993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827006994 catalytic residue [active] 456827006995 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 456827006996 Amidohydrolase; Region: Amidohydro_4; pfam13147 456827006997 active site 456827006998 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 456827006999 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 456827007000 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 456827007001 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 456827007002 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 456827007003 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 456827007004 GxxExxY protein; Region: GxxExxY; TIGR04256 456827007005 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 456827007006 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 456827007007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827007008 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827007009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827007010 NAD(P) binding site [chemical binding]; other site 456827007011 active site 456827007012 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 456827007013 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 456827007014 NAD(P) binding pocket [chemical binding]; other site 456827007015 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 456827007016 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 456827007017 Dimer interface [polypeptide binding]; other site 456827007018 anticodon binding site; other site 456827007019 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 456827007020 homodimer interface [polypeptide binding]; other site 456827007021 motif 1; other site 456827007022 motif 2; other site 456827007023 active site 456827007024 motif 3; other site 456827007025 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 456827007026 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 456827007027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827007028 homodimer interface [polypeptide binding]; other site 456827007029 catalytic residue [active] 456827007030 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 456827007031 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 456827007032 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 456827007033 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 456827007034 active site 456827007035 ATP binding site [chemical binding]; other site 456827007036 Phosphotransferase enzyme family; Region: APH; pfam01636 456827007037 substrate binding site [chemical binding]; other site 456827007038 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 456827007039 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 456827007040 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 456827007041 active site 456827007042 HIGH motif; other site 456827007043 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 456827007044 KMSKS motif; other site 456827007045 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 456827007046 tRNA binding surface [nucleotide binding]; other site 456827007047 anticodon binding site; other site 456827007048 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827007049 active site 456827007050 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 456827007051 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 456827007052 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827007053 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827007054 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 456827007055 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 456827007056 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 456827007057 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 456827007058 DNA binding residues [nucleotide binding] 456827007059 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 456827007060 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 456827007061 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 456827007062 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 456827007063 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 456827007064 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 456827007065 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827007066 Acylphosphatase; Region: Acylphosphatase; pfam00708 456827007067 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 456827007068 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 456827007069 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 456827007070 PhoU domain; Region: PhoU; pfam01895 456827007071 PhoU domain; Region: PhoU; pfam01895 456827007072 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 456827007073 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 456827007074 putative active site [active] 456827007075 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 456827007076 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 456827007077 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 456827007078 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 456827007079 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 456827007080 active site 456827007081 dimer interface [polypeptide binding]; other site 456827007082 motif 1; other site 456827007083 motif 2; other site 456827007084 motif 3; other site 456827007085 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 456827007086 anticodon binding site; other site 456827007087 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 456827007088 metal-binding site [ion binding] 456827007089 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 456827007090 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 456827007091 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 456827007092 motif II; other site 456827007093 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 456827007094 dimerization interface [polypeptide binding]; other site 456827007095 putative DNA binding site [nucleotide binding]; other site 456827007096 putative Zn2+ binding site [ion binding]; other site 456827007097 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827007098 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827007099 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827007100 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827007101 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 456827007102 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 456827007103 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 456827007104 dimer interface [polypeptide binding]; other site 456827007105 active site 456827007106 glycine-pyridoxal phosphate binding site [chemical binding]; other site 456827007107 folate binding site [chemical binding]; other site 456827007108 exopolyphosphatase; Region: exo_poly_only; TIGR03706 456827007109 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 456827007110 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 456827007111 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 456827007112 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 456827007113 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 456827007114 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 456827007115 motif II; other site 456827007116 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 456827007117 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 456827007118 Helix-turn-helix domains; Region: HTH; cl00088 456827007119 GrpE; Region: GrpE; pfam01025 456827007120 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 456827007121 dimer interface [polypeptide binding]; other site 456827007122 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 456827007123 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 456827007124 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 456827007125 nucleotide binding site [chemical binding]; other site 456827007126 NEF interaction site [polypeptide binding]; other site 456827007127 SBD interface [polypeptide binding]; other site 456827007128 chaperone protein DnaJ; Provisional; Region: PRK10767 456827007129 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 456827007130 HSP70 interaction site [polypeptide binding]; other site 456827007131 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 456827007132 substrate binding site [polypeptide binding]; other site 456827007133 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 456827007134 Zn binding sites [ion binding]; other site 456827007135 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 456827007136 dimer interface [polypeptide binding]; other site 456827007137 RNA methyltransferase, RsmE family; Region: TIGR00046 456827007138 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 456827007139 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 456827007140 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 456827007141 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 456827007142 Response regulator receiver domain; Region: Response_reg; pfam00072 456827007143 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 456827007144 active site 456827007145 phosphorylation site [posttranslational modification] 456827007146 intermolecular recognition site; other site 456827007147 dimerization interface [polypeptide binding]; other site 456827007148 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 456827007149 active site 456827007150 ATP binding site [chemical binding]; other site 456827007151 substrate binding site [chemical binding]; other site 456827007152 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 456827007153 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 456827007154 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 456827007155 dimer interface [polypeptide binding]; other site 456827007156 conserved gate region; other site 456827007157 putative PBP binding loops; other site 456827007158 ABC-ATPase subunit interface; other site 456827007159 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 456827007160 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 456827007161 dimer interface [polypeptide binding]; other site 456827007162 conserved gate region; other site 456827007163 putative PBP binding loops; other site 456827007164 ABC-ATPase subunit interface; other site 456827007165 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 456827007166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007167 Walker A/P-loop; other site 456827007168 ATP binding site [chemical binding]; other site 456827007169 Q-loop/lid; other site 456827007170 ABC transporter signature motif; other site 456827007171 Walker B; other site 456827007172 D-loop; other site 456827007173 H-loop/switch region; other site 456827007174 TOBE domain; Region: TOBE_2; pfam08402 456827007175 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 456827007176 agmatine deiminase; Region: agmatine_aguA; TIGR03380 456827007177 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007178 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007179 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 456827007180 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 456827007181 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 456827007182 motif II; other site 456827007183 AMMECR1; Region: AMMECR1; pfam01871 456827007184 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 456827007185 putative ligand binding pocket/active site [active] 456827007186 putative metal binding site [ion binding]; other site 456827007187 Protein of unknown function, DUF399; Region: DUF399; pfam04187 456827007188 Uncharacterized conserved protein [Function unknown]; Region: COG1739 456827007189 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 456827007190 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 456827007191 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 456827007192 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 456827007193 active site 456827007194 DNA binding site [nucleotide binding] 456827007195 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 456827007196 cell division protein FtsZ; Validated; Region: PRK09330 456827007197 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 456827007198 nucleotide binding site [chemical binding]; other site 456827007199 SulA interaction site; other site 456827007200 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 456827007201 Cell division protein FtsA; Region: FtsA; smart00842 456827007202 Cell division protein FtsA; Region: FtsA; pfam14450 456827007203 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 456827007204 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 456827007205 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 456827007206 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 456827007207 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827007208 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827007209 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 456827007210 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 456827007211 active site 456827007212 homodimer interface [polypeptide binding]; other site 456827007213 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 456827007214 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 456827007215 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827007216 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827007217 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 456827007218 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 456827007219 Mg++ binding site [ion binding]; other site 456827007220 putative catalytic motif [active] 456827007221 putative substrate binding site [chemical binding]; other site 456827007222 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 456827007223 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 456827007224 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827007225 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827007226 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 456827007227 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827007228 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827007229 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 456827007230 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 456827007231 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 456827007232 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 456827007233 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 456827007234 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 456827007235 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 456827007236 S-adenosylmethionine binding site [chemical binding]; other site 456827007237 cell division protein MraZ; Reviewed; Region: PRK00326 456827007238 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 456827007239 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 456827007240 GIY-YIG motif/motif A; other site 456827007241 active site 456827007242 catalytic site [active] 456827007243 putative DNA binding site [nucleotide binding]; other site 456827007244 metal binding site [ion binding]; metal-binding site 456827007245 UvrB/uvrC motif; Region: UVR; pfam02151 456827007246 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 456827007247 Helix-hairpin-helix motif; Region: HHH; pfam00633 456827007248 integral membrane protein MviN; Region: mviN; TIGR01695 456827007249 MatE; Region: MatE; pfam01554 456827007250 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 456827007251 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007252 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 456827007253 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 456827007254 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 456827007255 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 456827007256 FMN binding site [chemical binding]; other site 456827007257 active site 456827007258 catalytic residues [active] 456827007259 substrate binding site [chemical binding]; other site 456827007260 GAF domain; Region: GAF_2; pfam13185 456827007261 GAF domain; Region: GAF; pfam01590 456827007262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827007263 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 456827007264 S-adenosylmethionine binding site [chemical binding]; other site 456827007265 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 456827007266 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 456827007267 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 456827007268 P loop; other site 456827007269 GTP binding site [chemical binding]; other site 456827007270 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 456827007271 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007272 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007273 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; cl00198 456827007274 Phosphoglycerate kinase; Region: PGK; pfam00162 456827007275 substrate binding site [chemical binding]; other site 456827007276 hinge regions; other site 456827007277 ADP binding site [chemical binding]; other site 456827007278 catalytic site [active] 456827007279 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 456827007280 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 456827007281 heterodimer interface [polypeptide binding]; other site 456827007282 substrate interaction site [chemical binding]; other site 456827007283 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 456827007284 B12 binding site [chemical binding]; other site 456827007285 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 456827007286 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 456827007287 active site 456827007288 substrate binding site [chemical binding]; other site 456827007289 coenzyme B12 binding site [chemical binding]; other site 456827007290 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 456827007291 B12 binding site [chemical binding]; other site 456827007292 cobalt ligand [ion binding]; other site 456827007293 membrane ATPase/protein kinase; Provisional; Region: PRK09435 456827007294 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 456827007295 Walker A; other site 456827007296 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007297 Cache domain; Region: Cache_1; pfam02743 456827007298 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 456827007299 dimerization interface [polypeptide binding]; other site 456827007300 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 456827007301 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 456827007302 NMT1/THI5 like; Region: NMT1; pfam09084 456827007303 CTP synthetase; Validated; Region: pyrG; PRK05380 456827007304 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 456827007305 Catalytic site [active] 456827007306 active site 456827007307 UTP binding site [chemical binding]; other site 456827007308 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 456827007309 active site 456827007310 putative oxyanion hole; other site 456827007311 catalytic triad [active] 456827007312 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 456827007313 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 456827007314 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827007315 catalytic residue [active] 456827007316 putative acyltransferase; Provisional; Region: PRK05790 456827007317 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 456827007318 dimer interface [polypeptide binding]; other site 456827007319 active site 456827007320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 456827007321 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 456827007322 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cl02479 456827007323 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827007324 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007325 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 456827007326 catalytic residues [active] 456827007327 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 456827007328 oligomerisation interface [polypeptide binding]; other site 456827007329 mobile loop; other site 456827007330 roof hairpin; other site 456827007331 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 456827007332 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 456827007333 ATP-binding site [chemical binding]; other site 456827007334 Sugar specificity; other site 456827007335 Pyrimidine base specificity; other site 456827007336 excinuclease ABC subunit B; Provisional; Region: PRK05298 456827007337 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 456827007338 ATP binding site [chemical binding]; other site 456827007339 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 456827007340 nucleotide binding region [chemical binding]; other site 456827007341 ATP-binding site [chemical binding]; other site 456827007342 Ultra-violet resistance protein B; Region: UvrB; pfam12344 456827007343 UvrB/uvrC motif; Region: UVR; pfam02151 456827007344 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 456827007345 active site 456827007346 multimer interface [polypeptide binding]; other site 456827007347 TPR repeat; Region: TPR_11; pfam13414 456827007348 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 456827007349 binding surface 456827007350 TPR motif; other site 456827007351 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 456827007352 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 456827007353 binding surface 456827007354 TPR motif; other site 456827007355 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827007356 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827007357 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 456827007358 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 456827007359 Domain interface; other site 456827007360 Peptide binding site; other site 456827007361 Active site tetrad [active] 456827007362 Protein of unknown function (DUF342); Region: DUF342; pfam03961 456827007363 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 456827007364 H+ Antiporter protein; Region: 2A0121; TIGR00900 456827007365 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 456827007366 putative substrate translocation pore; other site 456827007367 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 456827007368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007369 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 456827007370 Walker A motif; other site 456827007371 ATP binding site [chemical binding]; other site 456827007372 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 456827007373 Walker B motif; other site 456827007374 arginine finger; other site 456827007375 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 456827007376 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 456827007377 active site 456827007378 HslU subunit interaction site [polypeptide binding]; other site 456827007379 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 456827007380 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 456827007381 Walker A motif; other site 456827007382 ATP binding site [chemical binding]; other site 456827007383 Walker B motif; other site 456827007384 arginine finger; other site 456827007385 Peptidase family M41; Region: Peptidase_M41; pfam01434 456827007386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 456827007387 active site 456827007388 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 456827007389 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 456827007390 Ligand Binding Site [chemical binding]; other site 456827007391 TilS substrate C-terminal domain; Region: TilS_C; smart00977 456827007392 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 456827007393 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 456827007394 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 456827007395 nucleotide binding site [chemical binding]; other site 456827007396 polymerase nucleotide-binding site; other site 456827007397 primase nucleotide-binding site [nucleotide binding]; other site 456827007398 DNA-binding residues [nucleotide binding]; DNA binding site 456827007399 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 456827007400 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 456827007401 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 456827007402 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 456827007403 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 456827007404 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 456827007405 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 456827007406 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 456827007407 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl09839 456827007408 active site 456827007409 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 456827007410 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 456827007411 binding surface 456827007412 TPR motif; other site 456827007413 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 456827007414 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 456827007415 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 456827007416 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 456827007417 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 456827007418 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 456827007419 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 456827007420 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 456827007421 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 456827007422 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 456827007423 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 456827007424 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 456827007425 putative active site [active] 456827007426 putative metal binding site [ion binding]; other site 456827007427 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007428 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007429 UGMP family protein; Validated; Region: PRK09604 456827007430 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 456827007431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 456827007432 YbbR-like protein; Region: YbbR; pfam07949 456827007433 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 456827007434 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 456827007435 active site 456827007436 phosphorylation site [posttranslational modification] 456827007437 intermolecular recognition site; other site 456827007438 dimerization interface [polypeptide binding]; other site 456827007439 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 456827007440 Walker A motif; other site 456827007441 ATP binding site [chemical binding]; other site 456827007442 Walker B motif; other site 456827007443 arginine finger; other site 456827007444 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 456827007445 N-terminal catalytic domain of a thermoactive alpha-amylase from Methanococcus jannaschii and similar proteins; glycoside hydrolase family 57 (GH57); Region: GH57N_MJA1_like; cd10795 456827007446 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 456827007447 putative active site [active] 456827007448 catalytic site [active] 456827007449 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 456827007450 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 456827007451 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827007452 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 456827007453 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 456827007454 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 456827007455 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 456827007456 alanine racemase; Reviewed; Region: alr; PRK00053 456827007457 active site 456827007458 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827007459 dimer interface [polypeptide binding]; other site 456827007460 substrate binding site [chemical binding]; other site 456827007461 catalytic residues [active] 456827007462 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 456827007463 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 456827007464 putative active site [active] 456827007465 PhoH-like protein; Region: PhoH; pfam02562 456827007466 Predicted GTPase [General function prediction only]; Region: COG2403 456827007467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007468 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 456827007469 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 456827007470 putative substrate binding site [chemical binding]; other site 456827007471 nucleotide binding site [chemical binding]; other site 456827007472 nucleotide binding site [chemical binding]; other site 456827007473 homodimer interface [polypeptide binding]; other site 456827007474 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827007475 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827007476 active site 456827007477 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 456827007478 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 456827007479 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 456827007480 NAD-dependent deacetylase; Provisional; Region: PRK00481 456827007481 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 456827007482 NAD+ binding site [chemical binding]; other site 456827007483 substrate binding site [chemical binding]; other site 456827007484 Zn binding site [ion binding]; other site 456827007485 uncharacterized subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_2; cd10915 456827007486 putative active site [active] 456827007487 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827007488 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827007489 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007490 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007491 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 456827007492 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 456827007493 Ligand Binding Site [chemical binding]; other site 456827007494 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 456827007495 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 456827007496 GMP synthase; Reviewed; Region: guaA; PRK00074 456827007497 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 456827007498 AMP/PPi binding site [chemical binding]; other site 456827007499 candidate oxyanion hole; other site 456827007500 catalytic triad [active] 456827007501 potential glutamine specificity residues [chemical binding]; other site 456827007502 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 456827007503 ATP Binding subdomain [chemical binding]; other site 456827007504 Ligand Binding sites [chemical binding]; other site 456827007505 Dimerization subdomain; other site 456827007506 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 456827007507 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 456827007508 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 456827007509 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 456827007510 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 456827007511 FeS/SAM binding site; other site 456827007512 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 456827007513 trimer interface [polypeptide binding]; other site 456827007514 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 456827007515 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 456827007516 exopolyphosphatase; Region: exo_poly_only; TIGR03706 456827007517 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 456827007518 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 456827007519 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 456827007520 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 456827007521 FeS/SAM binding site; other site 456827007522 hypothetical protein; Provisional; Region: PRK11820 456827007523 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 456827007524 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 456827007525 ribonuclease R; Region: RNase_R; TIGR02063 456827007526 RNB domain; Region: RNB; pfam00773 456827007527 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 456827007528 RNA binding site [nucleotide binding]; other site 456827007529 glutamate racemase; Provisional; Region: PRK00865 456827007530 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 456827007531 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 456827007532 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 456827007533 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 456827007534 active site 456827007535 dimer interface [polypeptide binding]; other site 456827007536 effector binding site; other site 456827007537 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 456827007538 TSCPD domain; Region: TSCPD; pfam12637 456827007539 ApbE family; Region: ApbE; pfam02424 456827007540 putative GTP cyclohydrolase; Provisional; Region: PRK13674 456827007541 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827007542 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 456827007543 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827007544 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827007545 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827007546 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 456827007547 nucleotide binding site [chemical binding]; other site 456827007548 hypothetical protein; Provisional; Region: PRK07329 456827007549 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 456827007550 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 456827007551 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 456827007552 FeS/SAM binding site; other site 456827007553 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 456827007554 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 456827007555 Ligand Binding Site [chemical binding]; other site 456827007556 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 456827007557 active site 456827007558 homotetramer interface [polypeptide binding]; other site 456827007559 homodimer interface [polypeptide binding]; other site 456827007560 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827007561 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 456827007562 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827007563 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 456827007564 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 456827007565 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 456827007566 16S rRNA methyltransferase B; Provisional; Region: PRK14902 456827007567 NusB family; Region: NusB; pfam01029 456827007568 putative RNA binding site [nucleotide binding]; other site 456827007569 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 456827007570 S-adenosylmethionine binding site [chemical binding]; other site 456827007571 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 456827007572 RuvA N terminal domain; Region: RuvA_N; pfam01330 456827007573 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 includes...; Region: RuvC_resolvase; cd00529 456827007574 active site 456827007575 putative DNA-binding cleft [nucleotide binding]; other site 456827007576 dimer interface [polypeptide binding]; other site 456827007577 hypothetical protein; Validated; Region: PRK00110 456827007578 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 456827007579 elongation factor G; Reviewed; Region: PRK12740 456827007580 G1 box; other site 456827007581 putative GEF interaction site [polypeptide binding]; other site 456827007582 GTP/Mg2+ binding site [chemical binding]; other site 456827007583 Switch I region; other site 456827007584 G2 box; other site 456827007585 G3 box; other site 456827007586 Switch II region; other site 456827007587 G4 box; other site 456827007588 G5 box; other site 456827007589 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 456827007590 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 456827007591 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 456827007592 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 456827007593 Transglycosylase; Region: Transgly; cl07896 456827007594 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 456827007595 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 456827007596 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 456827007597 PLD-like domain; Region: PLDc_2; pfam13091 456827007598 putative homodimer interface [polypeptide binding]; other site 456827007599 putative active site [active] 456827007600 catalytic site [active] 456827007601 DEAD-like helicases superfamily; Region: DEXDc; smart00487 456827007602 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 456827007603 ATP binding site [chemical binding]; other site 456827007604 putative Mg++ binding site [ion binding]; other site 456827007605 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 456827007606 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 456827007607 nucleotide binding region [chemical binding]; other site 456827007608 ATP-binding site [chemical binding]; other site 456827007609 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; cl16911 456827007610 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 456827007611 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 456827007612 AAA domain; Region: AAA_21; pfam13304 456827007613 RloB-like protein; Region: RloB; pfam13707 456827007614 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 456827007615 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007616 ABC transporter signature motif; other site 456827007617 Walker B; other site 456827007618 D-loop; other site 456827007619 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 456827007620 nucleoside/Zn binding site; other site 456827007621 dimer interface [polypeptide binding]; other site 456827007622 catalytic motif [active] 456827007623 SurA N-terminal domain; Region: SurA_N_3; cl07813 456827007624 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 456827007625 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 456827007626 MutS domain I; Region: MutS_I; pfam01624 456827007627 MutS domain II; Region: MutS_II; pfam05188 456827007628 MutS family domain IV; Region: MutS_IV; pfam05190 456827007629 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 456827007630 Walker A/P-loop; other site 456827007631 ATP binding site [chemical binding]; other site 456827007632 Q-loop/lid; other site 456827007633 ABC transporter signature motif; other site 456827007634 Walker B; other site 456827007635 D-loop; other site 456827007636 H-loop/switch region; other site 456827007637 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 456827007638 TPR motif; other site 456827007639 binding surface 456827007640 Sporulation related domain; Region: SPOR; pfam05036 456827007641 transcription termination factor Rho; Provisional; Region: rho; PRK09376 456827007642 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 456827007643 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 456827007644 RNA binding site [nucleotide binding]; other site 456827007645 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 456827007646 multimer interface [polypeptide binding]; other site 456827007647 Walker A motif; other site 456827007648 ATP binding site [chemical binding]; other site 456827007649 Walker B motif; other site 456827007650 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 456827007651 S-adenosylmethionine binding site [chemical binding]; other site 456827007652 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 456827007653 nucleophile elbow; other site 456827007654 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 456827007655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007656 Walker A/P-loop; other site 456827007657 ATP binding site [chemical binding]; other site 456827007658 Q-loop/lid; other site 456827007659 ABC transporter signature motif; other site 456827007660 Walker B; other site 456827007661 D-loop; other site 456827007662 H-loop/switch region; other site 456827007663 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 456827007664 ABC-2 type transporter; Region: ABC2_membrane; cl11417 456827007665 CAAX protease self-immunity; Region: Abi; pfam02517 456827007666 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 456827007667 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 456827007668 glutaminase active site [active] 456827007669 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 456827007670 dimer interface [polypeptide binding]; other site 456827007671 active site 456827007672 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 456827007673 dimer interface [polypeptide binding]; other site 456827007674 active site 456827007675 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 456827007676 generic binding surface I; other site 456827007677 generic binding surface II; other site 456827007678 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 456827007679 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 456827007680 substrate-cofactor binding pocket; other site 456827007681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827007682 catalytic residue [active] 456827007683 Predicted methyltransferases [General function prediction only]; Region: COG0313 456827007684 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 456827007685 putative SAM binding site [chemical binding]; other site 456827007686 putative homodimer interface [polypeptide binding]; other site 456827007687 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 456827007688 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 456827007689 motif II; other site 456827007690 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 456827007691 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 456827007692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827007693 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 456827007694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827007695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 456827007696 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 456827007697 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 456827007698 Predicted permeases [General function prediction only]; Region: COG0795 456827007699 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 456827007700 Predicted permeases [General function prediction only]; Region: COG0795 456827007701 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 456827007702 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 456827007703 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 456827007704 nucleotide binding pocket [chemical binding]; other site 456827007705 K-X-D-G motif; other site 456827007706 catalytic site [active] 456827007707 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 456827007708 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 456827007709 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 456827007710 Dimer interface [polypeptide binding]; other site 456827007711 BRCT sequence motif; other site 456827007712 Predicted amidohydrolase [General function prediction only]; Region: COG0388 456827007713 Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Ph0642_like; cd07577 456827007714 putative active site [active] 456827007715 catalytic triad [active] 456827007716 dimer interface [polypeptide binding]; other site 456827007717 putative tetramer interface [polypeptide binding]; other site 456827007718 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 456827007719 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 456827007720 G1 box; other site 456827007721 GTP/Mg2+ binding site [chemical binding]; other site 456827007722 Switch I region; other site 456827007723 G2 box; other site 456827007724 Switch II region; other site 456827007725 G3 box; other site 456827007726 G4 box; other site 456827007727 G5 box; other site 456827007728 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 456827007729 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 456827007730 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 456827007731 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 456827007732 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 456827007733 glycogen binding site [chemical binding]; other site 456827007734 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 456827007735 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 456827007736 active site 456827007737 homodimer interface [polypeptide binding]; other site 456827007738 catalytic site [active] 456827007739 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 456827007740 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 456827007741 IHF dimer interface [polypeptide binding]; other site 456827007742 IHF - DNA interface [nucleotide binding]; other site 456827007743 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827007744 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 456827007745 binding surface 456827007746 TPR motif; other site 456827007747 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827007748 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 456827007749 binding surface 456827007750 TPR motif; other site 456827007751 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827007752 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 456827007753 binding surface 456827007754 TPR motif; other site 456827007755 TPR repeat; Region: TPR_11; pfam13414 456827007756 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 456827007757 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 456827007758 Catalytic site [active] 456827007759 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 456827007760 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 456827007761 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 456827007762 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 456827007763 TPR motif; other site 456827007764 binding surface 456827007765 TPR repeat; Region: TPR_11; pfam13414 456827007766 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 456827007767 binding surface 456827007768 TPR motif; other site 456827007769 TPR repeat; Region: TPR_11; pfam13414 456827007770 EamA-like transporter family; Region: EamA; pfam00892 456827007771 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 456827007772 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 456827007773 active site 456827007774 DNA polymerase IV; Validated; Region: PRK02406 456827007775 DNA binding site [nucleotide binding] 456827007776 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 456827007777 FMN binding site [chemical binding]; other site 456827007778 dimer interface [polypeptide binding]; other site 456827007779 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 456827007780 metal-binding site 456827007781 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 456827007782 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827007783 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827007784 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827007785 active site 456827007786 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 456827007787 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007788 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007789 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827007790 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827007791 active site 456827007792 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007793 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007794 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 456827007795 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 456827007796 CoA-binding site [chemical binding]; other site 456827007797 ATP-binding [chemical binding]; other site 456827007798 Uncharacterized conserved protein [Function unknown]; Region: COG1624 456827007799 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 456827007800 dihydropteroate synthase; Region: DHPS; TIGR01496 456827007801 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 456827007802 substrate binding pocket [chemical binding]; other site 456827007803 dimer interface [polypeptide binding]; other site 456827007804 inhibitor binding site; inhibition site 456827007805 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 456827007806 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 456827007807 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 456827007808 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827007809 catalytic residue [active] 456827007810 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 456827007811 active site 456827007812 dimer interface [polypeptide binding]; other site 456827007813 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 456827007814 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 456827007815 Amidohydrolase family; Region: Amidohydro_3; pfam07969 456827007816 active site 456827007817 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 456827007818 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 456827007819 HIGH motif; other site 456827007820 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 456827007821 active site 456827007822 KMSKS motif; other site 456827007823 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_2; cd08769 456827007824 SxDxEG motif; other site 456827007825 putative active site [active] 456827007826 putative metal binding site [ion binding]; other site 456827007827 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 456827007828 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 456827007829 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 456827007830 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827007831 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827007832 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 456827007833 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 456827007834 dimer interface [polypeptide binding]; other site 456827007835 PYR/PP interface [polypeptide binding]; other site 456827007836 TPP binding site [chemical binding]; other site 456827007837 substrate binding site [chemical binding]; other site 456827007838 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 456827007839 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 456827007840 TPP-binding site [chemical binding]; other site 456827007841 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 456827007842 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 456827007843 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 456827007844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 456827007845 active site 456827007846 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 456827007847 S-adenosylmethionine binding site [chemical binding]; other site 456827007848 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 456827007849 RNA/DNA hybrid binding site [nucleotide binding]; other site 456827007850 active site 456827007851 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827007852 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827007853 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 456827007854 Protein export membrane protein; Region: SecD_SecF; pfam02355 456827007855 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 456827007856 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 456827007857 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 456827007858 SurA N-terminal domain; Region: SurA_N_3; cl07813 456827007859 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 456827007860 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 456827007861 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 456827007862 active site 456827007863 substrate binding site [chemical binding]; other site 456827007864 metal binding site [ion binding]; metal-binding site 456827007865 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 456827007866 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 456827007867 active site 456827007868 nucleophile elbow; other site 456827007869 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 456827007870 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827007871 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 456827007872 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 456827007873 dimerization interface [polypeptide binding]; other site 456827007874 ATP binding site [chemical binding]; other site 456827007875 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 456827007876 dimerization interface [polypeptide binding]; other site 456827007877 ATP binding site [chemical binding]; other site 456827007878 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 456827007879 Low molecular weight phosphatase family; Region: LMWPc; cd00115 456827007880 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 456827007881 active site 456827007882 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 456827007883 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827007884 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827007885 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 456827007886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827007887 Walker A/P-loop; other site 456827007888 ATP binding site [chemical binding]; other site 456827007889 Q-loop/lid; other site 456827007890 ABC transporter signature motif; other site 456827007891 Walker B; other site 456827007892 D-loop; other site 456827007893 H-loop/switch region; other site 456827007894 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827007895 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827007896 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 456827007897 Walker A/P-loop; other site 456827007898 ATP binding site [chemical binding]; other site 456827007899 Q-loop/lid; other site 456827007900 ABC transporter signature motif; other site 456827007901 Walker B; other site 456827007902 D-loop; other site 456827007903 H-loop/switch region; other site 456827007904 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 456827007905 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 456827007906 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 456827007907 putative active site [active] 456827007908 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 456827007909 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 456827007910 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 456827007911 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 456827007912 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 456827007913 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 456827007914 trimer interface [polypeptide binding]; other site 456827007915 active site 456827007916 substrate binding site [chemical binding]; other site 456827007917 CoA binding site [chemical binding]; other site 456827007918 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 456827007919 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 456827007920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827007921 homodimer interface [polypeptide binding]; other site 456827007922 catalytic residue [active] 456827007923 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 456827007924 Methyltransferase domain; Region: Methyltransf_23; pfam13489 456827007925 Methyltransferase domain; Region: Methyltransf_11; pfam08241 456827007926 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 456827007927 tandem repeat interface [polypeptide binding]; other site 456827007928 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 456827007929 oligomer interface [polypeptide binding]; other site 456827007930 active site residues [active] 456827007931 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 456827007932 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 456827007933 tandem repeat interface [polypeptide binding]; other site 456827007934 oligomer interface [polypeptide binding]; other site 456827007935 active site residues [active] 456827007936 NifU-like domain; Region: NifU; cl00484 456827007937 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 456827007938 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 456827007939 Protein export membrane protein; Region: SecD_SecF; cl14618 456827007940 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 456827007941 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 456827007942 lipoyl-biotinyl attachment site [posttranslational modification]; other site 456827007943 HlyD family secretion protein; Region: HlyD_3; pfam13437 456827007944 SLA1 homology domain 1, SHD1; Region: SHD1; pfam03983 456827007945 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 456827007946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 456827007947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 456827007948 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 456827007949 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 456827007950 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 456827007951 dimer interface [polypeptide binding]; other site 456827007952 PYR/PP interface [polypeptide binding]; other site 456827007953 TPP binding site [chemical binding]; other site 456827007954 substrate binding site [chemical binding]; other site 456827007955 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 456827007956 TPP-binding site; other site 456827007957 4-alpha-glucanotransferase; Provisional; Region: PRK14508 456827007958 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 456827007959 DNA polymerase III, delta subunit; Region: holA; TIGR01128 456827007960 Bacitracin resistance protein BacA; Region: BacA; pfam02673 456827007961 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 456827007962 NodB motif; other site 456827007963 putative active site [active] 456827007964 putative catalytic site [active] 456827007965 Zn binding site [ion binding]; other site 456827007966 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827007967 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 456827007968 TPR motif; other site 456827007969 binding surface 456827007970 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827007971 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 456827007972 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 456827007973 binding surface 456827007974 TPR motif; other site 456827007975 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 456827007976 Catalytic domain of Protein Kinases; Region: PKc; cd00180 456827007977 active site 456827007978 ATP binding site [chemical binding]; other site 456827007979 substrate binding site [chemical binding]; other site 456827007980 activation loop (A-loop); other site 456827007981 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 456827007982 GAF domain; Region: GAF; cl15785 456827007983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 456827007984 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 456827007985 dimer interface [polypeptide binding]; other site 456827007986 phosphorylation site [posttranslational modification] 456827007987 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 456827007988 ATP binding site [chemical binding]; other site 456827007989 Mg2+ binding site [ion binding]; other site 456827007990 G-X-G motif; other site 456827007991 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 456827007992 putative acyl-acceptor binding pocket; other site 456827007993 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 456827007994 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 456827007995 V-type ATP synthase subunit A; Provisional; Region: PRK04192 456827007996 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 456827007997 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 456827007998 Walker A motif/ATP binding site; other site 456827007999 Walker B motif; other site 456827008000 V-type ATP synthase subunit B; Provisional; Region: PRK02118 456827008001 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 456827008002 Walker A motif homologous position; other site 456827008003 Walker B motif; other site 456827008004 ATP synthase subunit D; Region: ATP-synt_D; cl00613 456827008005 V-type ATP synthase subunit I; Validated; Region: PRK05771 456827008006 V-type ATP synthase subunit K; Validated; Region: PRK06558 456827008007 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 456827008008 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 456827008009 hypothetical protein; Validated; Region: PRK09039 456827008010 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 456827008011 Domain of unknown function (DUF814); Region: DUF814; pfam05670 456827008012 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 456827008013 Recombination protein O N terminal; Region: RecO_N; pfam11967 456827008014 Recombination protein O C terminal; Region: RecO_C; pfam02565 456827008015 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 456827008016 Protein of unknown function, DUF488; Region: DUF488; pfam04343 456827008017 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; cl16911 456827008018 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 456827008019 PLD-like domain; Region: PLDc_2; pfam13091 456827008020 putative homodimer interface [polypeptide binding]; other site 456827008021 putative active site [active] 456827008022 catalytic site [active] 456827008023 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 456827008024 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 456827008025 ATP binding site [chemical binding]; other site 456827008026 putative Mg++ binding site [ion binding]; other site 456827008027 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 456827008028 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 456827008029 nucleotide binding region [chemical binding]; other site 456827008030 ATP-binding site [chemical binding]; other site 456827008031 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 456827008032 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 456827008033 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 456827008034 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 456827008035 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 456827008036 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 456827008037 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 456827008038 putative acyl-acceptor binding pocket; other site 456827008039 Peptidase C10 family; Region: Peptidase_C10; pfam01640 456827008040 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 456827008041 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 456827008042 dockerin binding interface; other site 456827008043 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827008044 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 456827008045 tetramerization interface [polypeptide binding]; other site 456827008046 active site 456827008047 Pantoate-beta-alanine ligase; Region: PanC; cd00560 456827008048 pantoate--beta-alanine ligase; Region: panC; TIGR00018 456827008049 active site 456827008050 ATP-binding site [chemical binding]; other site 456827008051 pantoate-binding site; other site 456827008052 HXXH motif; other site 456827008053 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 456827008054 Clp protease; Region: CLP_protease; pfam00574 456827008055 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 456827008056 oligomer interface [polypeptide binding]; other site 456827008057 active site residues [active] 456827008058 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 456827008059 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 456827008060 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 456827008061 Walker A motif; other site 456827008062 ATP binding site [chemical binding]; other site 456827008063 Walker B motif; other site 456827008064 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 456827008065 proline aminopeptidase P II; Provisional; Region: PRK10879 456827008066 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 456827008067 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 456827008068 active site 456827008069 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 456827008070 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 456827008071 active site 456827008072 (T/H)XGH motif; other site 456827008073 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 456827008074 replicative DNA helicase; Region: DnaB; TIGR00665 456827008075 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 456827008076 Walker A motif; other site 456827008077 ATP binding site [chemical binding]; other site 456827008078 Walker B motif; other site 456827008079 DNA binding loops [nucleotide binding] 456827008080 Permease; Region: Permease; pfam02405 456827008081 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 456827008082 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 456827008083 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 456827008084 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 456827008085 folate binding site [chemical binding]; other site 456827008086 NADP+ binding site [chemical binding]; other site 456827008087 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 456827008088 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 456827008089 Walker A/P-loop; other site 456827008090 ATP binding site [chemical binding]; other site 456827008091 Q-loop/lid; other site 456827008092 ABC transporter signature motif; other site 456827008093 Walker B; other site 456827008094 D-loop; other site 456827008095 H-loop/switch region; other site 456827008096 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 456827008097 Permease; Region: Permease; pfam02405 456827008098 Protein of unknown function (DUF330); Region: DUF330; cl01135 456827008099 Protein of unknown function, DUF481; Region: DUF481; cl01213 456827008100 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 456827008101 mce related protein; Region: MCE; pfam02470 456827008102 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 456827008103 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827008104 active site 456827008105 urocanate hydratase; Provisional; Region: PRK05414 456827008106 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 456827008107 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 456827008108 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 456827008109 DEAD-like helicases superfamily; Region: DEXDc; smart00487 456827008110 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008111 ATP binding site [chemical binding]; other site 456827008112 putative Mg++ binding site [ion binding]; other site 456827008113 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 456827008114 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827008115 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 456827008116 Predicted membrane protein [Function unknown]; Region: COG3304 456827008117 Domain of unknown function (DUF307); Region: DUF307; pfam03733 456827008118 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 456827008119 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 456827008120 HIGH motif; other site 456827008121 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 456827008122 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 456827008123 active site 456827008124 KMSKS motif; other site 456827008125 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 456827008126 tRNA binding surface [nucleotide binding]; other site 456827008127 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 456827008128 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 456827008129 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 456827008130 alphaNTD homodimer interface [polypeptide binding]; other site 456827008131 alphaNTD - beta interaction site [polypeptide binding]; other site 456827008132 alphaNTD - beta' interaction site [polypeptide binding]; other site 456827008133 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 456827008134 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 456827008135 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 456827008136 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 456827008137 RNA binding surface [nucleotide binding]; other site 456827008138 30S ribosomal protein S11; Validated; Region: PRK05309 456827008139 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 456827008140 30S ribosomal protein S13; Region: bact_S13; TIGR03631 456827008141 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 456827008142 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 456827008143 rRNA binding site [nucleotide binding]; other site 456827008144 predicted 30S ribosome binding site; other site 456827008145 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 456827008146 active site 456827008147 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 456827008148 SecY translocase; Region: SecY; pfam00344 456827008149 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 456827008150 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 456827008151 23S rRNA binding site [nucleotide binding]; other site 456827008152 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 456827008153 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 456827008154 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 456827008155 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 456827008156 23S rRNA interface [nucleotide binding]; other site 456827008157 L21e interface [polypeptide binding]; other site 456827008158 5S rRNA interface [nucleotide binding]; other site 456827008159 L27 interface [polypeptide binding]; other site 456827008160 L5 interface [polypeptide binding]; other site 456827008161 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 456827008162 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 456827008163 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 456827008164 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 456827008165 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 456827008166 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 456827008167 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 456827008168 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 456827008169 50S ribosomal protein L24; Reviewed; Region: rplX; PRK12281 456827008170 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 456827008171 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 456827008172 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 456827008173 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 456827008174 putative translocon interaction site; other site 456827008175 23S rRNA interface [nucleotide binding]; other site 456827008176 signal recognition particle (SRP54) interaction site; other site 456827008177 L23 interface [polypeptide binding]; other site 456827008178 trigger factor interaction site; other site 456827008179 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 456827008180 23S rRNA interface [nucleotide binding]; other site 456827008181 5S rRNA interface [nucleotide binding]; other site 456827008182 putative antibiotic binding site [chemical binding]; other site 456827008183 L25 interface [polypeptide binding]; other site 456827008184 L27 interface [polypeptide binding]; other site 456827008185 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 456827008186 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 456827008187 G-X-X-G motif; other site 456827008188 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 456827008189 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 456827008190 putative translocon binding site; other site 456827008191 protein-rRNA interface [nucleotide binding]; other site 456827008192 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 456827008193 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 456827008194 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 456827008195 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 456827008196 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 456827008197 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 456827008198 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 456827008199 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 456827008200 Methyltransferase domain; Region: Methyltransf_23; pfam13489 456827008201 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 456827008202 S-adenosylmethionine binding site [chemical binding]; other site 456827008203 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 456827008204 TRAM domain; Region: TRAM; cl01282 456827008205 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 456827008206 S-adenosylmethionine binding site [chemical binding]; other site 456827008207 Peptidase family M48; Region: Peptidase_M48; cl12018 456827008208 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 456827008209 MatE; Region: MatE; pfam01554 456827008210 MatE; Region: MatE; pfam01554 456827008211 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 456827008212 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 456827008213 inhibitor-cofactor binding pocket; inhibition site 456827008214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827008215 catalytic residue [active] 456827008216 GTPase Era; Reviewed; Region: era; PRK00089 456827008217 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 456827008218 G1 box; other site 456827008219 GTP/Mg2+ binding site [chemical binding]; other site 456827008220 Switch I region; other site 456827008221 G2 box; other site 456827008222 Switch II region; other site 456827008223 G3 box; other site 456827008224 G4 box; other site 456827008225 G5 box; other site 456827008226 KH domain; Region: KH_2; pfam07650 456827008227 cell surface protein SprA; Region: surface_SprA; TIGR04189 456827008228 Motility related/secretion protein; Region: SprA_N; pfam14349 456827008229 Motility related/secretion protein; Region: SprA_N; pfam14349 456827008230 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 456827008231 CHASE2 domain; Region: CHASE2; pfam05226 456827008232 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 456827008233 cyclase homology domain; Region: CHD; cd07302 456827008234 nucleotidyl binding site; other site 456827008235 metal binding site [ion binding]; metal-binding site 456827008236 dimer interface [polypeptide binding]; other site 456827008237 FecR protein; Region: FecR; pfam04773 456827008238 NHL repeat; Region: NHL; pfam01436 456827008239 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 456827008240 TPR motif; other site 456827008241 binding surface 456827008242 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 456827008243 binding surface 456827008244 TPR motif; other site 456827008245 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 456827008246 TPR motif; other site 456827008247 binding surface 456827008248 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 456827008249 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 456827008250 Glutamate binding site [chemical binding]; other site 456827008251 NAD binding site [chemical binding]; other site 456827008252 catalytic residues [active] 456827008253 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 456827008254 arsenical-resistance protein; Region: acr3; TIGR00832 456827008255 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 456827008256 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 456827008257 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 456827008258 dimer interface [polypeptide binding]; other site 456827008259 active site 456827008260 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827008261 catalytic residues [active] 456827008262 substrate binding site [chemical binding]; other site 456827008263 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 456827008264 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 456827008265 Ligand Binding Site [chemical binding]; other site 456827008266 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 456827008267 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 456827008268 substrate-cofactor binding pocket; other site 456827008269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827008270 catalytic residue [active] 456827008271 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 456827008272 Domain of unknown function DUF20; Region: UPF0118; pfam01594 456827008273 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 456827008274 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 456827008275 ligand binding site [chemical binding]; other site 456827008276 flexible hinge region; other site 456827008277 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 456827008278 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 456827008279 S-adenosylmethionine binding site [chemical binding]; other site 456827008280 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 456827008281 Preprotein translocase SecG subunit; Region: SecG; pfam03840 456827008282 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 456827008283 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 456827008284 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 456827008285 active site 456827008286 putative catalytic site [active] 456827008287 phosphate binding site A [ion binding]; other site 456827008288 DNA binding site [nucleotide binding] 456827008289 metal binding site A [ion binding]; metal-binding site 456827008290 putative AP binding site [nucleotide binding]; other site 456827008291 putative metal binding site B [ion binding]; other site 456827008292 phosphate binding site B [ion binding]; other site 456827008293 OstA-like protein; Region: OstA; cl00844 456827008294 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 456827008295 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 456827008296 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 456827008297 active site 456827008298 motif I; other site 456827008299 motif II; other site 456827008300 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 456827008301 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 456827008302 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 456827008303 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 456827008304 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 456827008305 XdhC Rossmann domain; Region: XdhC_C; pfam13478 456827008306 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 456827008307 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 456827008308 catalytic loop [active] 456827008309 iron binding site [ion binding]; other site 456827008310 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 456827008311 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 456827008312 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 456827008313 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 456827008314 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 456827008315 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 456827008316 dimer interface [polypeptide binding]; other site 456827008317 [2Fe-2S] cluster binding site [ion binding]; other site 456827008318 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 456827008319 SLBB domain; Region: SLBB; pfam10531 456827008320 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 456827008321 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 456827008322 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 456827008323 putative dimer interface [polypeptide binding]; other site 456827008324 [2Fe-2S] cluster binding site [ion binding]; other site 456827008325 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 456827008326 dimer interface [polypeptide binding]; other site 456827008327 [2Fe-2S] cluster binding site [ion binding]; other site 456827008328 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 456827008329 SLBB domain; Region: SLBB; pfam10531 456827008330 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 456827008331 4Fe-4S binding domain; Region: Fer4; pfam00037 456827008332 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 456827008333 4Fe-4S binding domain; Region: Fer4; pfam00037 456827008334 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827008335 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 456827008336 dimer interface [polypeptide binding]; other site 456827008337 [2Fe-2S] cluster binding site [ion binding]; other site 456827008338 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 456827008339 ATP binding site [chemical binding]; other site 456827008340 Mg2+ binding site [ion binding]; other site 456827008341 G-X-G motif; other site 456827008342 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 456827008343 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 456827008344 putative dimer interface [polypeptide binding]; other site 456827008345 [2Fe-2S] cluster binding site [ion binding]; other site 456827008346 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 456827008347 DRTGG domain; Region: DRTGG; pfam07085 456827008348 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 456827008349 4Fe-4S binding domain; Region: Fer4; pfam00037 456827008350 4Fe-4S binding domain; Region: Fer4; pfam00037 456827008351 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 456827008352 Putative Fe-S cluster; Region: FeS; pfam04060 456827008353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 456827008354 DRTGG domain; Region: DRTGG; pfam07085 456827008355 metal-dependent hydrolase; Provisional; Region: PRK00685 456827008356 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 456827008357 Putative helicase; Region: TraI_2; pfam07514 456827008358 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 456827008359 intersubunit interface [polypeptide binding]; other site 456827008360 active site 456827008361 Zn2+ binding site [ion binding]; other site 456827008362 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 456827008363 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 456827008364 putative active site [active] 456827008365 putative NTP binding site [chemical binding]; other site 456827008366 putative nucleic acid binding site [nucleotide binding]; other site 456827008367 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827008368 HRDC domain; Region: HRDC; pfam00570 456827008369 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 456827008370 Uncharacterized conserved protein [Function unknown]; Region: COG1262 456827008371 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827008372 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827008373 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 456827008374 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 456827008375 active site 456827008376 HIGH motif; other site 456827008377 KMSKS motif; other site 456827008378 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 456827008379 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827008380 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 456827008381 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 456827008382 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 456827008383 Walker A motif; other site 456827008384 ATP binding site [chemical binding]; other site 456827008385 Walker B motif; other site 456827008386 arginine finger; other site 456827008387 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 456827008388 6-phosphofructokinase; Provisional; Region: PRK14072 456827008389 active site 456827008390 ADP/pyrophosphate binding site [chemical binding]; other site 456827008391 allosteric effector site; other site 456827008392 dimerization interface [polypeptide binding]; other site 456827008393 fructose-1,6-bisphosphate binding site; other site 456827008394 glutamate dehydrogenase; Provisional; Region: PRK09414 456827008395 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 456827008396 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 456827008397 NAD(P) binding site [chemical binding]; other site 456827008398 LemA family; Region: LemA; cl00742 456827008399 Mechanosensitive ion channel; Region: MS_channel; pfam00924 456827008400 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 456827008401 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 456827008402 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 456827008403 motif II; other site 456827008404 Uncharacterized conserved protein [Function unknown]; Region: COG0432 456827008405 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 456827008406 active site 456827008407 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 456827008408 homodimer interface [polypeptide binding]; other site 456827008409 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827008410 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827008411 active site 456827008412 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 456827008413 agmatine deiminase; Region: agmatine_aguA; TIGR03380 456827008414 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 456827008415 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 456827008416 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 456827008417 RNA binding site [nucleotide binding]; other site 456827008418 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 456827008419 RNA binding site [nucleotide binding]; other site 456827008420 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 456827008421 RNA binding site [nucleotide binding]; other site 456827008422 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 456827008423 RNA binding site [nucleotide binding]; other site 456827008424 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 456827008425 RNA binding site [nucleotide binding]; other site 456827008426 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 456827008427 RNA binding site [nucleotide binding]; other site 456827008428 cytidylate kinase; Provisional; Region: cmk; PRK00023 456827008429 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 456827008430 CMP-binding site; other site 456827008431 The sites determining sugar specificity; other site 456827008432 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 456827008433 LytB protein; Region: LYTB; cl00507 456827008434 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827008435 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827008436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827008437 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827008438 Coenzyme A binding pocket [chemical binding]; other site 456827008439 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 456827008440 non-specific DNA interactions [nucleotide binding]; other site 456827008441 DNA binding site [nucleotide binding] 456827008442 sequence specific DNA binding site [nucleotide binding]; other site 456827008443 putative cAMP binding site [chemical binding]; other site 456827008444 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827008445 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827008446 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 456827008447 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 456827008448 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 456827008449 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827008450 Zn2+ binding site [ion binding]; other site 456827008451 Mg2+ binding site [ion binding]; other site 456827008452 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 456827008453 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 456827008454 Domain of unknown function DUF21; Region: DUF21; pfam01595 456827008455 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 456827008456 Transporter associated domain; Region: CorC_HlyC; pfam03471 456827008457 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 456827008458 VanZ like family; Region: VanZ; cl01971 456827008459 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 456827008460 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 456827008461 Walker A/P-loop; other site 456827008462 ATP binding site [chemical binding]; other site 456827008463 Q-loop/lid; other site 456827008464 ABC transporter signature motif; other site 456827008465 Walker B; other site 456827008466 D-loop; other site 456827008467 H-loop/switch region; other site 456827008468 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 456827008469 Transglycosylase; Region: Transgly; pfam00912 456827008470 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 456827008471 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 456827008472 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 456827008473 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827008474 active site 456827008475 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 456827008476 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 456827008477 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 456827008478 PSP1 C-terminal conserved region; Region: PSP1; cl00770 456827008479 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 456827008480 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 456827008481 FeS/SAM binding site; other site 456827008482 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 456827008483 intersubunit interface [polypeptide binding]; other site 456827008484 active site 456827008485 catalytic residue [active] 456827008486 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 456827008487 Thymidylate synthase complementing protein; Region: Thy1; cl03630 456827008488 aspartate aminotransferase; Provisional; Region: PRK07568 456827008489 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 456827008490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827008491 homodimer interface [polypeptide binding]; other site 456827008492 catalytic residue [active] 456827008493 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 456827008494 dimer interface [polypeptide binding]; other site 456827008495 conserved gate region; other site 456827008496 putative PBP binding loops; other site 456827008497 ABC-ATPase subunit interface; other site 456827008498 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 456827008499 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 456827008500 dimer interface [polypeptide binding]; other site 456827008501 conserved gate region; other site 456827008502 putative PBP binding loops; other site 456827008503 ABC-ATPase subunit interface; other site 456827008504 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 456827008505 4Fe-4S binding domain; Region: Fer4_5; pfam12801 456827008506 4Fe-4S binding domain; Region: Fer4_5; pfam12801 456827008507 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 456827008508 4Fe-4S binding domain; Region: Fer4; pfam00037 456827008509 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827008510 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 456827008511 ATP cone domain; Region: ATP-cone; pfam03477 456827008512 Class III ribonucleotide reductase; Region: RNR_III; cd01675 456827008513 effector binding site; other site 456827008514 active site 456827008515 Zn binding site [ion binding]; other site 456827008516 glycine loop; other site 456827008517 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 456827008518 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 456827008519 FeS/SAM binding site; other site 456827008520 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 456827008521 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 456827008522 FeS/SAM binding site; other site 456827008523 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 456827008524 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 456827008525 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827008526 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827008527 transketolase; Reviewed; Region: PRK05899 456827008528 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 456827008529 TPP-binding site [chemical binding]; other site 456827008530 dimer interface [polypeptide binding]; other site 456827008531 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 456827008532 PYR/PP interface [polypeptide binding]; other site 456827008533 dimer interface [polypeptide binding]; other site 456827008534 TPP binding site [chemical binding]; other site 456827008535 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 456827008536 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827008537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827008538 NAD(P) binding site [chemical binding]; other site 456827008539 active site 456827008540 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 456827008541 active site 456827008542 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 456827008543 DHH family; Region: DHH; pfam01368 456827008544 DHHA1 domain; Region: DHHA1; pfam02272 456827008545 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 456827008546 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 456827008547 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 456827008548 Ligand binding site; other site 456827008549 Putative Catalytic site; other site 456827008550 DXD motif; other site 456827008551 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 456827008552 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827008553 FtsX-like permease family; Region: FtsX; pfam02687 456827008554 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827008555 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 456827008556 Walker A/P-loop; other site 456827008557 ATP binding site [chemical binding]; other site 456827008558 Q-loop/lid; other site 456827008559 ABC transporter signature motif; other site 456827008560 Walker B; other site 456827008561 D-loop; other site 456827008562 H-loop/switch region; other site 456827008563 Family of unknown function (DUF490); Region: DUF490; pfam04357 456827008564 TIGR00300 family protein; Region: TIGR00300 456827008565 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 456827008566 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 456827008567 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 456827008568 active site 456827008569 Fic family protein [Function unknown]; Region: COG3177 456827008570 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 456827008571 Fic/DOC family; Region: Fic; pfam02661 456827008572 Uncharacterized conserved protein [Function unknown]; Region: COG3391 456827008573 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 456827008574 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827008575 Transposase [DNA replication, recombination, and repair]; Region: COG5421 456827008576 DNA replication protein DnaC; Validated; Region: PRK06835 456827008577 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 456827008578 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 456827008579 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 456827008580 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 456827008581 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008582 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 456827008583 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 456827008584 Family of unknown function (DUF694); Region: DUF694; pfam05107 456827008585 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 456827008586 LPP20 lipoprotein; Region: LPP20; pfam02169 456827008587 SurA N-terminal domain; Region: SurA_N_3; cl07813 456827008588 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 456827008589 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 456827008590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008591 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 456827008592 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 456827008593 ATP binding site [chemical binding]; other site 456827008594 Mg2+ binding site [ion binding]; other site 456827008595 G-X-G motif; other site 456827008596 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 456827008597 ATP binding site [chemical binding]; other site 456827008598 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 456827008599 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 456827008600 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 456827008601 active site 456827008602 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 456827008603 Uncharacterized conserved protein [Function unknown]; Region: COG1284 456827008604 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 456827008605 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 456827008606 putative active site [active] 456827008607 putative catalytic site [active] 456827008608 putative Mg binding site IVb [ion binding]; other site 456827008609 putative phosphate binding site [ion binding]; other site 456827008610 putative DNA binding site [nucleotide binding]; other site 456827008611 putative Mg binding site IVa [ion binding]; other site 456827008612 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827008613 active site 456827008614 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 456827008615 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827008616 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827008617 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 456827008618 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 456827008619 heterodimer interface [polypeptide binding]; other site 456827008620 active site 456827008621 FMN binding site [chemical binding]; other site 456827008622 homodimer interface [polypeptide binding]; other site 456827008623 substrate binding site [chemical binding]; other site 456827008624 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 456827008625 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 456827008626 FAD binding pocket [chemical binding]; other site 456827008627 FAD binding motif [chemical binding]; other site 456827008628 phosphate binding motif [ion binding]; other site 456827008629 beta-alpha-beta structure motif; other site 456827008630 NAD binding pocket [chemical binding]; other site 456827008631 Iron coordination center [ion binding]; other site 456827008632 dihydroorotase; Validated; Region: pyrC; PRK09357 456827008633 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 456827008634 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 456827008635 active site 456827008636 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 456827008637 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 456827008638 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 456827008639 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 456827008640 active site 456827008641 catalytic triad [active] 456827008642 Fibronectin type 3 domain; Region: FN3; smart00060 456827008643 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 456827008644 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827008645 TolB amino-terminal domain; Region: TolB_N; cl00639 456827008646 LPP20 lipoprotein; Region: LPP20; pfam02169 456827008647 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 456827008648 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 456827008649 N-terminal plug; other site 456827008650 ligand-binding site [chemical binding]; other site 456827008651 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 456827008652 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 456827008653 substrate binding pocket [chemical binding]; other site 456827008654 chain length determination region; other site 456827008655 substrate-Mg2+ binding site; other site 456827008656 catalytic residues [active] 456827008657 aspartate-rich region 1; other site 456827008658 active site lid residues [active] 456827008659 aspartate-rich region 2; other site 456827008660 PHP domain; Region: PHP; pfam02811 456827008661 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 456827008662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827008663 NAD(P) binding site [chemical binding]; other site 456827008664 active site 456827008665 Methyltransferase domain; Region: Methyltransf_11; pfam08241 456827008666 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 456827008667 Predicted integral membrane protein [Function unknown]; Region: COG0392 456827008668 MoxR-like ATPases [General function prediction only]; Region: COG0714 456827008669 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008670 Walker A motif; other site 456827008671 ATP binding site [chemical binding]; other site 456827008672 Walker B motif; other site 456827008673 arginine finger; other site 456827008674 Uncharacterized conserved protein [Function unknown]; Region: COG5276 456827008675 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; cl16911 456827008676 DpnII restriction endonuclease; Region: DpnII; pfam04556 456827008677 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827008678 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827008679 DNA gyrase subunit A; Validated; Region: PRK05560 456827008680 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 in DNA...; Region: TOP4c; cd00187 456827008681 CAP-like domain; other site 456827008682 active site 456827008683 primary dimer interface [polypeptide binding]; other site 456827008684 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827008685 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827008686 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827008687 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827008688 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827008689 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827008690 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 456827008691 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 456827008692 ATP binding site [chemical binding]; other site 456827008693 Mg2+ binding site [ion binding]; other site 456827008694 G-X-G motif; other site 456827008695 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 456827008696 anchoring element; other site 456827008697 dimer interface [polypeptide binding]; other site 456827008698 ATP binding site [chemical binding]; other site 456827008699 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 456827008700 active site 456827008701 putative metal-binding site [ion binding]; other site 456827008702 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 456827008703 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 456827008704 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 456827008705 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 456827008706 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 protein; Region: CSP_CDS; cd04458 456827008707 DNA-binding site [nucleotide binding]; DNA binding site 456827008708 RNA-binding motif; other site 456827008709 Response regulator receiver domain; Region: Response_reg; pfam00072 456827008710 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 456827008711 active site 456827008712 phosphorylation site [posttranslational modification] 456827008713 intermolecular recognition site; other site 456827008714 dimerization interface [polypeptide binding]; other site 456827008715 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827008716 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 456827008717 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 456827008718 ATP-grasp domain; Region: ATP-grasp_4; cl03087 456827008719 FecR protein; Region: FecR; pfam04773 456827008720 CHASE2 domain; Region: CHASE2; pfam05226 456827008721 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 456827008722 cyclase homology domain; Region: CHD; cd07302 456827008723 nucleotidyl binding site; other site 456827008724 metal binding site [ion binding]; metal-binding site 456827008725 dimer interface [polypeptide binding]; other site 456827008726 RloB-like protein; Region: RloB; pfam13707 456827008727 Predicted ATPases [General function prediction only]; Region: COG1106 456827008728 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 456827008729 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 456827008730 NAD(P) binding site [chemical binding]; other site 456827008731 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 456827008732 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 456827008733 FeS/SAM binding site; other site 456827008734 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 456827008735 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 456827008736 Cation efflux family; Region: Cation_efflux; pfam01545 456827008737 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 456827008738 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827008739 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 456827008740 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 456827008741 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008742 Walker A/P-loop; other site 456827008743 ATP binding site [chemical binding]; other site 456827008744 Q-loop/lid; other site 456827008745 ABC transporter signature motif; other site 456827008746 Walker B; other site 456827008747 D-loop; other site 456827008748 H-loop/switch region; other site 456827008749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008750 Walker A/P-loop; other site 456827008751 ATP binding site [chemical binding]; other site 456827008752 Q-loop/lid; other site 456827008753 ABC transporter signature motif; other site 456827008754 Walker B; other site 456827008755 D-loop; other site 456827008756 H-loop/switch region; other site 456827008757 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 456827008758 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 456827008759 catalytic motif [active] 456827008760 Zn binding site [ion binding]; other site 456827008761 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 456827008762 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 456827008763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 456827008764 DNA polymerase I; Provisional; Region: PRK05755 456827008765 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 456827008766 active site 456827008767 metal binding site 1 [ion binding]; metal-binding site 456827008768 putative 5' ssDNA interaction site; other site 456827008769 metal binding site 3; metal-binding site 456827008770 metal binding site 2 [ion binding]; metal-binding site 456827008771 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 456827008772 putative DNA binding site [nucleotide binding]; other site 456827008773 putative metal binding site [ion binding]; other site 456827008774 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 456827008775 active site 456827008776 catalytic site [active] 456827008777 substrate binding site [chemical binding]; other site 456827008778 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 456827008779 active site 456827008780 DNA binding site [nucleotide binding] 456827008781 catalytic site [active] 456827008782 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 456827008783 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 456827008784 non-heme iron binding site [ion binding]; other site 456827008785 dimer interface [polypeptide binding]; other site 456827008786 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 456827008787 non-heme iron binding site [ion binding]; other site 456827008788 Rubrerythrin [Energy production and conversion]; Region: COG1592 456827008789 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 456827008790 binuclear metal center [ion binding]; other site 456827008791 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 456827008792 iron binding site [ion binding]; other site 456827008793 Rubredoxin [Energy production and conversion]; Region: COG1773 456827008794 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 456827008795 iron binding site [ion binding]; other site 456827008796 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 456827008797 diiron binding motif [ion binding]; other site 456827008798 universal bacterial protein YeaZ; Region: bact_YeaZ; TIGR03725 456827008799 Glycoprotease family; Region: Peptidase_M22; pfam00814 456827008800 Lamin Tail Domain; Region: LTD; pfam00932 456827008801 Endonuclease I; Region: Endonuclease_1; pfam04231 456827008802 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827008803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827008804 Walker A/P-loop; other site 456827008805 ATP binding site [chemical binding]; other site 456827008806 Q-loop/lid; other site 456827008807 ABC transporter signature motif; other site 456827008808 Walker B; other site 456827008809 Permease; Region: Permease; pfam02405 456827008810 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 456827008811 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 456827008812 nucleotide binding site [chemical binding]; other site 456827008813 Uncharacterized conserved protein [Function unknown]; Region: COG1633 456827008814 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 456827008815 diiron binding motif [ion binding]; other site 456827008816 recombination factor protein RarA; Reviewed; Region: PRK13342 456827008817 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 456827008818 Walker A motif; other site 456827008819 ATP binding site [chemical binding]; other site 456827008820 Walker B motif; other site 456827008821 arginine finger; other site 456827008822 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 456827008823 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 456827008824 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 456827008825 active site 456827008826 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 456827008827 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 456827008828 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 456827008829 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 456827008830 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 456827008831 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 456827008832 trimer interface [polypeptide binding]; other site 456827008833 active site 456827008834 UDP-GlcNAc binding site [chemical binding]; other site 456827008835 lipid binding site [chemical binding]; lipid-binding site 456827008836 periplasmic chaperone; Provisional; Region: PRK10780 456827008837 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 456827008838 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 456827008839 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 456827008840 tetramer interface [polypeptide binding]; other site 456827008841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827008842 catalytic residue [active] 456827008843 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 456827008844 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 456827008845 tetramer interface [polypeptide binding]; other site 456827008846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827008847 catalytic residue [active] 456827008848 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827008849 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827008850 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827008851 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 456827008852 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 456827008853 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 456827008854 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 456827008855 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 456827008856 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 456827008857 Walker A motif; other site 456827008858 ATP binding site [chemical binding]; other site 456827008859 Walker B motif; other site 456827008860 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 456827008861 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 456827008862 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 456827008863 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 456827008864 Competence protein A; Region: Competence_A; pfam11104 456827008865 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 456827008866 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 456827008867 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 456827008868 Walker A motif; other site 456827008869 ATP binding site [chemical binding]; other site 456827008870 Walker B motif; other site 456827008871 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 456827008872 Tetratricopeptide repeat; Region: TPR_16; pfam13432 456827008873 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827008874 Oxygen tolerance; Region: BatD; pfam13584 456827008875 TPR repeat; Region: TPR_11; pfam13414 456827008876 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 456827008877 binding surface 456827008878 TPR motif; other site 456827008879 von Willebrand factor type A domain; Region: VWA_2; pfam13519 456827008880 metal ion-dependent adhesion site (MIDAS); other site 456827008881 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 456827008882 metal ion-dependent adhesion site (MIDAS); other site 456827008883 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 456827008884 Protein of unknown function DUF58; Region: DUF58; pfam01882 456827008885 von Willebrand factor type A domain; Region: VWA_2; pfam13519 456827008886 metal ion-dependent adhesion site (MIDAS); other site 456827008887 MoxR-like ATPases [General function prediction only]; Region: COG0714 456827008888 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 456827008889 Walker A motif; other site 456827008890 ATP binding site [chemical binding]; other site 456827008891 Walker B motif; other site 456827008892 arginine finger; other site 456827008893 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 456827008894 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 456827008895 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 456827008896 ligand binding site [chemical binding]; other site 456827008897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 456827008898 flexible hinge region; other site 456827008899 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 456827008900 dimer interface [polypeptide binding]; other site 456827008901 phosphorylation site [posttranslational modification] 456827008902 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 456827008903 ATP binding site [chemical binding]; other site 456827008904 Mg2+ binding site [ion binding]; other site 456827008905 G-X-G motif; other site 456827008906 glyoxylate reductase; Reviewed; Region: PRK13243 456827008907 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 456827008908 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 456827008909 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 456827008910 FMN binding site [chemical binding]; other site 456827008911 dimer interface [polypeptide binding]; other site 456827008912 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 456827008913 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 456827008914 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 456827008915 active site 456827008916 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827008917 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 456827008918 putative active site [active] 456827008919 putative metal binding site [ion binding]; other site 456827008920 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 456827008921 PQQ-like domain; Region: PQQ_2; pfam13360 456827008922 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 456827008923 Radical SAM superfamily; Region: Radical_SAM; pfam04055 456827008924 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 456827008925 FeS/SAM binding site; other site 456827008926 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 456827008927 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827008928 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 456827008929 active site 456827008930 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 456827008931 putative RNA binding site [nucleotide binding]; other site 456827008932 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 456827008933 homopentamer interface [polypeptide binding]; other site 456827008934 active site 456827008935 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 456827008936 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 456827008937 active site 456827008938 metal binding site [ion binding]; metal-binding site 456827008939 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 456827008940 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 456827008941 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 456827008942 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 456827008943 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 456827008944 FeS/SAM binding site; other site 456827008945 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 456827008946 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 456827008947 active site 456827008948 HIGH motif; other site 456827008949 dimer interface [polypeptide binding]; other site 456827008950 KMSKS motif; other site 456827008951 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 456827008952 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 456827008953 ABC transporter; Region: ABC_tran_2; pfam12848 456827008954 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 456827008955 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 456827008956 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; Region: CE4_DAC_u1_6s; cd10970 456827008957 putative active site [active] 456827008958 putative metal binding site [ion binding]; other site 456827008959 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 456827008960 Flavoprotein; Region: Flavoprotein; pfam02441 456827008961 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 456827008962 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 456827008963 classical (c) SDRs; Region: SDR_c; cd05233 456827008964 NAD(P) binding site [chemical binding]; other site 456827008965 active site 456827008966 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 456827008967 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 456827008968 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 456827008969 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 456827008970 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 456827008971 TPR motif; other site 456827008972 binding surface 456827008973 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 456827008974 binding surface 456827008975 TPR motif; other site 456827008976 Tetratricopeptide repeat; Region: TPR_16; pfam13432 456827008977 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 456827008978 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 456827008979 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 456827008980 putative acyl-acceptor binding pocket; other site 456827008981 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 456827008982 putative active site [active] 456827008983 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 456827008984 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 456827008985 Walker A motif; other site 456827008986 ATP binding site [chemical binding]; other site 456827008987 Walker B motif; other site 456827008988 arginine finger; other site 456827008989 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 456827008990 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 456827008991 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 456827008992 ligand binding site [chemical binding]; other site 456827008993 flexible hinge region; other site 456827008994 Ion channel; Region: Ion_trans_2; pfam07885 456827008995 TrkA-N domain; Region: TrkA_N; pfam02254 456827008996 Repair protein; Region: Repair_PSII; pfam04536 456827008997 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 456827008998 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 456827008999 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 456827009000 dimerization interface [polypeptide binding]; other site 456827009001 active site 456827009002 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 456827009003 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 456827009004 RNA binding surface [nucleotide binding]; other site 456827009005 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 456827009006 active site 456827009007 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 456827009008 TrkA-N domain; Region: TrkA_N; pfam02254 456827009009 NAD(P) binding pocket [chemical binding]; other site 456827009010 TrkA-C domain; Region: TrkA_C; pfam02080 456827009011 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 456827009012 Cation transport protein; Region: TrkH; pfam02386 456827009013 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 456827009014 adenylate kinase; Reviewed; Region: adk; PRK00279 456827009015 AMP-binding site [chemical binding]; other site 456827009016 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 456827009017 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827009018 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827009019 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 456827009020 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 456827009021 DNA binding site [nucleotide binding] 456827009022 active site 456827009023 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 456827009024 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 456827009025 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 456827009026 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 456827009027 KH domain; Region: KH_4; pfam13083 456827009028 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 456827009029 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 456827009030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009031 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 456827009032 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 456827009033 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827009034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009035 NAD(P) binding site [chemical binding]; other site 456827009036 active site 456827009037 Transcription antiterminator [Transcription]; Region: NusG; COG0250 456827009038 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 456827009039 Adenosylhomocysteinase; Provisional; Region: PTZ00075 456827009040 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 456827009041 oligomerization interface [polypeptide binding]; other site 456827009042 active site 456827009043 NAD+ binding site [chemical binding]; other site 456827009044 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 456827009045 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 456827009046 RNase E interface [polypeptide binding]; other site 456827009047 trimer interface [polypeptide binding]; other site 456827009048 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 456827009049 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 456827009050 RNase E interface [polypeptide binding]; other site 456827009051 trimer interface [polypeptide binding]; other site 456827009052 active site 456827009053 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 456827009054 putative nucleic acid binding region [nucleotide binding]; other site 456827009055 G-X-X-G motif; other site 456827009056 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 456827009057 RNA binding site [nucleotide binding]; other site 456827009058 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 456827009059 16S/18S rRNA binding site [nucleotide binding]; other site 456827009060 S13e-L30e interaction site [polypeptide binding]; other site 456827009061 25S rRNA binding site [nucleotide binding]; other site 456827009062 Domain of unknown function DUF20; Region: UPF0118; pfam01594 456827009063 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 456827009064 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 456827009065 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 456827009066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 456827009067 putative substrate translocation pore; other site 456827009068 4Fe-4S binding domain; Region: Fer4; cl02805 456827009069 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827009070 4Fe-4S binding domain; Region: Fer4; pfam00037 456827009071 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 456827009072 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 456827009073 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 456827009074 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 456827009075 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 456827009076 active site 456827009077 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 456827009078 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 456827009079 FeS/SAM binding site; other site 456827009080 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 456827009081 thiS-thiF/thiG interaction site; other site 456827009082 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 456827009083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009084 ATP binding site [chemical binding]; other site 456827009085 substrate interface [chemical binding]; other site 456827009086 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 456827009087 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009088 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 456827009089 homotrimer interaction site [polypeptide binding]; other site 456827009090 zinc binding site [ion binding]; other site 456827009091 CDP-binding sites; other site 456827009092 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 456827009093 active site 456827009094 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 456827009095 dimer interface [polypeptide binding]; other site 456827009096 active site 456827009097 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 456827009098 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 456827009099 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 456827009100 substrate binding site; other site 456827009101 dimer interface; other site 456827009102 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 456827009103 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 456827009104 FeS/SAM binding site; other site 456827009105 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 456827009106 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827009107 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827009108 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827009109 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827009110 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 456827009111 Surface antigen; Region: Bac_surface_Ag; pfam01103 456827009112 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 456827009113 non-specific DNA binding site [nucleotide binding]; other site 456827009114 salt bridge; other site 456827009115 sequence-specific DNA binding site [nucleotide binding]; other site 456827009116 Peptidase family M1; Region: Peptidase_M1; pfam01433 456827009117 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 456827009118 Zn binding site [ion binding]; other site 456827009119 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827009120 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009121 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 456827009122 dimer interface [polypeptide binding]; other site 456827009123 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 456827009124 active site 456827009125 metal binding site [ion binding]; metal-binding site 456827009126 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 456827009127 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 456827009128 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 456827009129 RIP metalloprotease RseP; Region: TIGR00054 456827009130 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 456827009131 active site 456827009132 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 456827009133 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 456827009134 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 456827009135 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 456827009136 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 456827009137 B12 binding site [chemical binding]; other site 456827009138 cobalt ligand [ion binding]; other site 456827009139 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 456827009140 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827009141 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827009142 YceG-like family; Region: YceG; pfam02618 456827009143 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 456827009144 dimerization interface [polypeptide binding]; other site 456827009145 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 456827009146 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; pfam03977 456827009147 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 456827009148 active site 456827009149 catalytic motif [active] 456827009150 Zn binding site [ion binding]; other site 456827009151 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 456827009152 FeS/SAM binding site; other site 456827009153 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 456827009154 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 456827009155 active site 456827009156 metal binding site [ion binding]; metal-binding site 456827009157 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 456827009158 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 456827009159 Protein of unknown function (DUF512); Region: DUF512; pfam04459 456827009160 NMT1-like family; Region: NMT1_2; cl15260 456827009161 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 456827009162 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 456827009163 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 456827009164 Walker A/P-loop; other site 456827009165 ATP binding site [chemical binding]; other site 456827009166 Q-loop/lid; other site 456827009167 ABC transporter signature motif; other site 456827009168 Walker B; other site 456827009169 D-loop; other site 456827009170 H-loop/switch region; other site 456827009171 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827009172 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009173 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827009174 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 456827009175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 456827009176 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 456827009177 Walker A/P-loop; other site 456827009178 ATP binding site [chemical binding]; other site 456827009179 Q-loop/lid; other site 456827009180 ABC transporter signature motif; other site 456827009181 Walker B; other site 456827009182 D-loop; other site 456827009183 H-loop/switch region; other site 456827009184 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827009185 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 456827009186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009187 Walker A/P-loop; other site 456827009188 ATP binding site [chemical binding]; other site 456827009189 Q-loop/lid; other site 456827009190 ABC transporter signature motif; other site 456827009191 Walker B; other site 456827009192 D-loop; other site 456827009193 H-loop/switch region; other site 456827009194 ferredoxin; Validated; Region: PRK07118 456827009195 Putative Fe-S cluster; Region: FeS; pfam04060 456827009196 4Fe-4S binding domain; Region: Fer4; pfam00037 456827009197 4Fe-4S binding domain; Region: Fer4; pfam00037 456827009198 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 456827009199 electron transport complex RsxE subunit; Provisional; Region: PRK12405 456827009200 FMN-binding domain; Region: FMN_bind; cl01081 456827009201 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 456827009202 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 456827009203 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 456827009204 SLBB domain; Region: SLBB; pfam10531 456827009205 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 456827009206 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 456827009207 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 456827009208 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 456827009209 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 456827009210 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 456827009211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827009212 Coenzyme A binding pocket [chemical binding]; other site 456827009213 DNA polymerase III subunit beta; Validated; Region: PRK05643 456827009214 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 456827009215 putative DNA binding surface [nucleotide binding]; other site 456827009216 dimer interface [polypeptide binding]; other site 456827009217 beta-clamp/clamp loader binding surface; other site 456827009218 beta-clamp/translesion DNA polymerase binding surface; other site 456827009219 recombination protein F; Reviewed; Region: recF; PRK00064 456827009220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009221 Walker A/P-loop; other site 456827009222 ATP binding site [chemical binding]; other site 456827009223 Q-loop/lid; other site 456827009224 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009225 ABC transporter signature motif; other site 456827009226 Walker B; other site 456827009227 D-loop; other site 456827009228 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 456827009229 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 456827009230 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 456827009231 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 456827009232 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 456827009233 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 456827009234 dimer interface [polypeptide binding]; other site 456827009235 anticodon binding site; other site 456827009236 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 the...; Region: AspRS_core; cd00777 456827009237 homodimer interface [polypeptide binding]; other site 456827009238 motif 1; other site 456827009239 active site 456827009240 motif 2; other site 456827009241 GAD domain; Region: GAD; pfam02938 456827009242 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 attaches...; Region: class_II_aaRS-like_core; cl00268 456827009243 active site 456827009244 motif 3; other site 456827009245 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 456827009246 active site 456827009247 cosubstrate binding site; other site 456827009248 substrate binding site [chemical binding]; other site 456827009249 catalytic site [active] 456827009250 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 456827009251 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 456827009252 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 456827009253 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 456827009254 dimer interface [polypeptide binding]; other site 456827009255 conserved gate region; other site 456827009256 ABC-ATPase subunit interface; other site 456827009257 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 456827009258 FAD binding domain; Region: FAD_binding_4; pfam01565 456827009259 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 456827009260 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 456827009261 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 456827009262 active site 456827009263 catalytic site [active] 456827009264 substrate binding site [chemical binding]; other site 456827009265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009266 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 456827009267 AAA ATPase domain; Region: AAA_16; pfam13191 456827009268 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827009269 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827009270 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 456827009271 binding surface 456827009272 TPR motif; other site 456827009273 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827009274 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 456827009275 binding surface 456827009276 TPR motif; other site 456827009277 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827009278 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827009279 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 456827009280 GAF domain; Region: GAF_3; pfam13492 456827009281 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 456827009282 Walker A motif; other site 456827009283 ATP binding site [chemical binding]; other site 456827009284 Walker B motif; other site 456827009285 arginine finger; other site 456827009286 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 456827009287 Winged helix-turn helix; Region: HTH_29; pfam13551 456827009288 Helix-turn-helix domain; Region: HTH_28; pfam13518 456827009289 Homeodomain-like domain; Region: HTH_32; pfam13565 456827009290 Integrase core domain; Region: rve; pfam00665 456827009291 Circadian oscillating protein COP23; Region: COP23; pfam14218 456827009292 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009293 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009294 peroxiredoxin; Provisional; Region: PRK13189 456827009295 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 456827009296 dimer interface [polypeptide binding]; other site 456827009297 decamer (pentamer of dimers) interface [polypeptide binding]; other site 456827009298 catalytic triad [active] 456827009299 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 456827009300 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 456827009301 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 456827009302 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827009303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009304 NAD(P) binding site [chemical binding]; other site 456827009305 active site 456827009306 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 456827009307 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 456827009308 DXD motif; other site 456827009309 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 456827009310 MatE; Region: MatE; cl10513 456827009311 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 456827009312 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 456827009313 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 456827009314 putative active site [active] 456827009315 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 456827009316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827009317 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 456827009318 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827009319 Lamin Tail Domain; Region: LTD; pfam00932 456827009320 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 456827009321 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009322 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009323 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 456827009324 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 456827009325 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 456827009326 catalytic residue [active] 456827009327 putative FPP diphosphate binding site; other site 456827009328 putative FPP binding hydrophobic cleft; other site 456827009329 dimer interface [polypeptide binding]; other site 456827009330 putative IPP diphosphate binding site; other site 456827009331 peptide chain release factor 2; Validated; Region: prfB; PRK00578 456827009332 PCRF domain; Region: PCRF; pfam03462 456827009333 RF-1 domain; Region: RF-1; pfam00472 456827009334 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 456827009335 active site 456827009336 oxyanion hole [active] 456827009337 catalytic triad [active] 456827009338 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 456827009339 active site 456827009340 oxyanion hole [active] 456827009341 catalytic triad [active] 456827009342 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 456827009343 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 456827009344 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 456827009345 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 456827009346 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 456827009347 active site 456827009348 dimer interface [polypeptide binding]; other site 456827009349 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 456827009350 Ligand Binding Site [chemical binding]; other site 456827009351 Molecular Tunnel; other site 456827009352 Alpha-2-macroglobulin RAP, C-terminal domain; Region: Alpha-2-MRAP_C; pfam06401 456827009353 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 456827009354 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; cl09108 456827009355 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 key...; Region: CBS_pair_IMPDH; cd04601 456827009356 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 the guanine...; Region: IMPDH; cd00381 456827009357 active site 456827009358 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 456827009359 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 456827009360 active site 456827009361 DNA binding site [nucleotide binding] 456827009362 Int/Topo IB signature motif; other site 456827009363 NMT1-like family; Region: NMT1_2; cl15260 456827009364 NMT1/THI5 like; Region: NMT1; pfam09084 456827009365 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 456827009366 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 456827009367 Walker A/P-loop; other site 456827009368 ATP binding site [chemical binding]; other site 456827009369 Q-loop/lid; other site 456827009370 ABC transporter signature motif; other site 456827009371 Walker B; other site 456827009372 D-loop; other site 456827009373 H-loop/switch region; other site 456827009374 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 456827009375 Amidase; Region: Amidase; cl11426 456827009376 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 456827009377 CoA-transferase family III; Region: CoA_transf_3; pfam02515 456827009378 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 456827009379 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 456827009380 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 456827009381 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 456827009382 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 456827009383 catalytic loop [active] 456827009384 iron binding site [ion binding]; other site 456827009385 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 456827009386 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 456827009387 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 456827009388 Putative cyclase; Region: Cyclase; pfam04199 456827009389 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 456827009390 CoA binding domain; Region: CoA_binding; pfam02629 456827009391 CoA-ligase; Region: Ligase_CoA; pfam00549 456827009392 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 456827009393 signal recognition particle protein; Provisional; Region: PRK10867 456827009394 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 456827009395 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 456827009396 P loop; other site 456827009397 GTP binding site [chemical binding]; other site 456827009398 Signal peptide binding domain; Region: SRP_SPB; pfam02978 456827009399 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 456827009400 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 456827009401 substrate binding site [chemical binding]; other site 456827009402 hexamer interface [polypeptide binding]; other site 456827009403 metal binding site [ion binding]; metal-binding site 456827009404 Protein of unknown function (DUF721); Region: DUF721; pfam05258 456827009405 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 456827009406 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 456827009407 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 456827009408 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 456827009409 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 456827009410 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 456827009411 dimer interface [polypeptide binding]; other site 456827009412 ssDNA binding site [nucleotide binding]; other site 456827009413 tetramer (dimer of dimers) interface [polypeptide binding]; other site 456827009414 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 456827009415 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 456827009416 putative active site [active] 456827009417 catalytic residue [active] 456827009418 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 456827009419 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 456827009420 5S rRNA interface [nucleotide binding]; other site 456827009421 CTC domain interface [polypeptide binding]; other site 456827009422 L16 interface [polypeptide binding]; other site 456827009423 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 456827009424 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 456827009425 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 456827009426 active site 456827009427 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009428 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009429 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 456827009430 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 456827009431 hinge; other site 456827009432 active site 456827009433 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 456827009434 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 456827009435 S-adenosylmethionine binding site [chemical binding]; other site 456827009436 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 456827009437 Response regulator receiver domain; Region: Response_reg; pfam00072 456827009438 active site 456827009439 phosphorylation site [posttranslational modification] 456827009440 intermolecular recognition site; other site 456827009441 dimerization interface [polypeptide binding]; other site 456827009442 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 456827009443 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 456827009444 anti sigma factor interaction site; other site 456827009445 regulatory phosphorylation site [posttranslational modification]; other site 456827009446 elongation factor G; Reviewed; Region: PRK12739 456827009447 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 456827009448 G1 box; other site 456827009449 putative GEF interaction site [polypeptide binding]; other site 456827009450 GTP/Mg2+ binding site [chemical binding]; other site 456827009451 Switch I region; other site 456827009452 G2 box; other site 456827009453 G3 box; other site 456827009454 Switch II region; other site 456827009455 G4 box; other site 456827009456 G5 box; other site 456827009457 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 456827009458 Elongation factor G, domain IV; Region: EFG_IV; smart00889 456827009459 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 456827009460 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 456827009461 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827009462 Zn2+ binding site [ion binding]; other site 456827009463 Mg2+ binding site [ion binding]; other site 456827009464 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 456827009465 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009466 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009467 Tetratricopeptide repeat; Region: TPR_16; pfam13432 456827009468 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827009469 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827009470 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 456827009471 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 456827009472 ligand binding site [chemical binding]; other site 456827009473 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 456827009474 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009475 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009476 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 456827009477 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 456827009478 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 456827009479 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 456827009480 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 456827009481 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; cl09108 456827009482 phosphate binding site [ion binding]; other site 456827009483 4Fe-4S binding domain; Region: Fer4; pfam00037 456827009484 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 456827009485 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 456827009486 substrate binding pocket [chemical binding]; other site 456827009487 membrane-bound complex binding site; other site 456827009488 hinge residues; other site 456827009489 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009490 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009491 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 456827009492 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 456827009493 substrate binding pocket [chemical binding]; other site 456827009494 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 456827009495 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 456827009496 Response regulator receiver domain; Region: Response_reg; pfam00072 456827009497 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 456827009498 active site 456827009499 phosphorylation site [posttranslational modification] 456827009500 intermolecular recognition site; other site 456827009501 dimerization interface [polypeptide binding]; other site 456827009502 PglZ domain; Region: PglZ; pfam08665 456827009503 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 456827009504 oligomerization interface [polypeptide binding]; other site 456827009505 active site 456827009506 metal binding site [ion binding]; metal-binding site 456827009507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 456827009508 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 456827009509 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 456827009510 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 456827009511 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 456827009512 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 456827009513 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 456827009514 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 456827009515 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 456827009516 binding surface 456827009517 TPR motif; other site 456827009518 TPR repeat; Region: TPR_11; pfam13414 456827009519 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 456827009520 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 456827009521 ring oligomerisation interface [polypeptide binding]; other site 456827009522 ATP/Mg binding site [chemical binding]; other site 456827009523 stacking interactions; other site 456827009524 hinge regions; other site 456827009525 Fic family protein [Function unknown]; Region: COG3177 456827009526 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 456827009527 Fic/DOC family; Region: Fic; pfam02661 456827009528 enolase; Provisional; Region: eno; PRK00077 456827009529 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 456827009530 dimer interface [polypeptide binding]; other site 456827009531 metal binding site [ion binding]; metal-binding site 456827009532 substrate binding pocket [chemical binding]; other site 456827009533 Major Facilitator Superfamily; Region: MFS_1; pfam07690 456827009534 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 456827009535 putative substrate translocation pore; other site 456827009536 Protein of unknown function (DUF975); Region: DUF975; cl10504 456827009537 Staphylococcal nuclease homologues; Region: SNc; smart00318 456827009538 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 456827009539 Catalytic site; other site 456827009540 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 456827009541 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 456827009542 ligand binding site [chemical binding]; other site 456827009543 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 456827009544 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 456827009545 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 456827009546 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 456827009547 RNase_H superfamily; Region: RNase_H_2; pfam13482 456827009548 active site 456827009549 substrate binding site [chemical binding]; other site 456827009550 catalytic site [active] 456827009551 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 456827009552 binding surface 456827009553 TPR motif; other site 456827009554 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 456827009555 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 456827009556 tetramer interface [polypeptide binding]; other site 456827009557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827009558 catalytic residue [active] 456827009559 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 456827009560 triosephosphate isomerase; Provisional; Region: PRK14567 456827009561 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 456827009562 substrate binding site [chemical binding]; other site 456827009563 dimer interface [polypeptide binding]; other site 456827009564 catalytic triad [active] 456827009565 seryl-tRNA synthetase; Provisional; Region: PRK05431 456827009566 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 456827009567 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 bound...; Region: SerRS_core; cd00770 456827009568 dimer interface [polypeptide binding]; other site 456827009569 active site 456827009570 motif 1; other site 456827009571 motif 2; other site 456827009572 motif 3; other site 456827009573 Chain length determinant protein; Region: Wzz; pfam02706 456827009574 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 456827009575 O-Antigen ligase; Region: Wzy_C; pfam04932 456827009576 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 456827009577 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 456827009578 homodimer interface [polypeptide binding]; other site 456827009579 metal binding site [ion binding]; metal-binding site 456827009580 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 456827009581 homodimer interface [polypeptide binding]; other site 456827009582 active site 456827009583 putative chemical substrate binding site [chemical binding]; other site 456827009584 metal binding site [ion binding]; metal-binding site 456827009585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 456827009586 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 456827009587 ATP binding site [chemical binding]; other site 456827009588 Mg2+ binding site [ion binding]; other site 456827009589 G-X-G motif; other site 456827009590 putative carbohydrate kinase; Provisional; Region: PRK10565 456827009591 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 456827009592 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 456827009593 putative substrate binding site [chemical binding]; other site 456827009594 putative ATP binding site [chemical binding]; other site 456827009595 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 456827009596 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 456827009597 Catalytic site [active] 456827009598 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 456827009599 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 456827009600 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 456827009601 FeS/SAM binding site; other site 456827009602 HemN C-terminal domain; Region: HemN_C; pfam06969 456827009603 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 456827009604 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 456827009605 active site 456827009606 NTP binding site [chemical binding]; other site 456827009607 metal binding triad [ion binding]; metal-binding site 456827009608 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 456827009609 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 456827009610 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 456827009611 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 456827009612 Walker A motif; other site 456827009613 ATP binding site [chemical binding]; other site 456827009614 Walker B motif; other site 456827009615 arginine finger; other site 456827009616 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 456827009617 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 456827009618 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 456827009619 Ligand binding site; other site 456827009620 Putative Catalytic site; other site 456827009621 DXD motif; other site 456827009622 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 456827009623 putative trimer interface [polypeptide binding]; other site 456827009624 putative CoA binding site [chemical binding]; other site 456827009625 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 456827009626 putative trimer interface [polypeptide binding]; other site 456827009627 putative active site [active] 456827009628 putative substrate binding site [chemical binding]; other site 456827009629 putative CoA binding site [chemical binding]; other site 456827009630 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 456827009631 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 456827009632 active site 456827009633 Int/Topo IB signature motif; other site 456827009634 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 456827009635 B12 binding site [chemical binding]; other site 456827009636 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 456827009637 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 456827009638 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 456827009639 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 456827009640 catalytic loop [active] 456827009641 iron binding site [ion binding]; other site 456827009642 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 456827009643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 456827009644 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 456827009645 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827009646 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 456827009647 molybdopterin cofactor binding site; other site 456827009648 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 456827009649 dimer interface [polypeptide binding]; other site 456827009650 [2Fe-2S] cluster binding site [ion binding]; other site 456827009651 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 456827009652 SLBB domain; Region: SLBB; pfam10531 456827009653 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 456827009654 4Fe-4S binding domain; Region: Fer4; pfam00037 456827009655 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 456827009656 4Fe-4S binding domain; Region: Fer4; pfam00037 456827009657 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 456827009658 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 456827009659 putative dimer interface [polypeptide binding]; other site 456827009660 [2Fe-2S] cluster binding site [ion binding]; other site 456827009661 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 456827009662 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 456827009663 RNA binding site [nucleotide binding]; other site 456827009664 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 456827009665 RNA binding site [nucleotide binding]; other site 456827009666 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 456827009667 RNA binding site [nucleotide binding]; other site 456827009668 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 456827009669 RNA binding site [nucleotide binding]; other site 456827009670 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 456827009671 RNA binding site [nucleotide binding]; other site 456827009672 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 456827009673 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 456827009674 dimer interface [polypeptide binding]; other site 456827009675 putative anticodon binding site; other site 456827009676 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 456827009677 motif 1; other site 456827009678 active site 456827009679 motif 2; other site 456827009680 motif 3; other site 456827009681 heat shock protein 90; Provisional; Region: PRK05218 456827009682 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 456827009683 ATP binding site [chemical binding]; other site 456827009684 Mg2+ binding site [ion binding]; other site 456827009685 G-X-G motif; other site 456827009686 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827009687 Interdomain contacts; other site 456827009688 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009689 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009690 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 456827009691 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 456827009692 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827009693 catalytic residue [active] 456827009694 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 456827009695 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 456827009696 trimerization site [polypeptide binding]; other site 456827009697 active site 456827009698 Domain of unknown function DUF59; Region: DUF59; pfam01883 456827009699 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827009700 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 456827009701 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 456827009702 putative active site [active] 456827009703 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 456827009704 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 formation of...; Region: AlaRS_core; cd00673 456827009705 motif 1; other site 456827009706 active site 456827009707 motif 2; other site 456827009708 motif 3; other site 456827009709 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 456827009710 DHHA1 domain; Region: DHHA1; pfam02272 456827009711 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 456827009712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009713 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 456827009714 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 456827009715 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 456827009716 ssDNA binding site; other site 456827009717 generic binding surface II; other site 456827009718 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 456827009719 ATP binding site [chemical binding]; other site 456827009720 putative Mg++ binding site [ion binding]; other site 456827009721 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 456827009722 nucleotide binding region [chemical binding]; other site 456827009723 ATP-binding site [chemical binding]; other site 456827009724 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 456827009725 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 456827009726 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 456827009727 Helix-hairpin-helix motif; Region: HHH; pfam00633 456827009728 Endonuclease I; Region: Endonuclease_1; cl01003 456827009729 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827009730 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009731 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 456827009732 dimer interface [polypeptide binding]; other site 456827009733 active site 456827009734 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 456827009735 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 456827009736 active site 456827009737 purine riboside binding site [chemical binding]; other site 456827009738 Predicted ATPase [General function prediction only]; Region: COG4637 456827009739 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 456827009740 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 456827009741 RNA/DNA hybrid binding site [nucleotide binding]; other site 456827009742 active site 456827009743 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 456827009744 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827009745 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827009746 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 catalyze...; Region: LT_GEWL; cd00254 456827009747 N-acetyl-D-glucosamine binding site [chemical binding]; other site 456827009748 catalytic residue [active] 456827009749 Uncharacterized conserved protein [Function unknown]; Region: COG1633 456827009750 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 456827009751 diiron binding motif [ion binding]; other site 456827009752 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 456827009753 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 456827009754 Moco binding site; other site 456827009755 metal coordination site [ion binding]; other site 456827009756 EamA-like transporter family; Region: EamA; pfam00892 456827009757 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 456827009758 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 456827009759 Malic enzyme, N-terminal domain; Region: malic; pfam00390 456827009760 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 456827009761 putative NAD(P) binding site [chemical binding]; other site 456827009762 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 456827009763 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 456827009764 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 456827009765 pyruvate carboxylase subunit B; Validated; Region: PRK09282 456827009766 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 456827009767 active site 456827009768 catalytic residues [active] 456827009769 metal binding site [ion binding]; metal-binding site 456827009770 homodimer binding site [polypeptide binding]; other site 456827009771 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 456827009772 carboxyltransferase (CT) interaction site; other site 456827009773 biotinylation site [posttranslational modification]; other site 456827009774 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 456827009775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 456827009776 active site 456827009777 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 contains two...; Region: OMP_decarboxylase_like; cd04725 456827009778 active site 456827009779 dimer interface [polypeptide binding]; other site 456827009780 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009781 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009782 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 456827009783 active site 456827009784 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 456827009785 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 456827009786 Ligand Binding Site [chemical binding]; other site 456827009787 Molecular Tunnel; other site 456827009788 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 456827009789 active site 456827009790 Zn binding site [ion binding]; other site 456827009791 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cd11308 456827009792 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827009793 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 456827009794 active site 456827009795 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 456827009796 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827009797 Interdomain contacts; other site 456827009798 Cytokine receptor motif; other site 456827009799 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 456827009800 IHF dimer interface [polypeptide binding]; other site 456827009801 IHF - DNA interface [nucleotide binding]; other site 456827009802 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 456827009803 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 456827009804 dimer interface [polypeptide binding]; other site 456827009805 active site 456827009806 metal binding site [ion binding]; metal-binding site 456827009807 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 456827009808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009809 ATP binding site [chemical binding]; other site 456827009810 putative Mg++ binding site [ion binding]; other site 456827009811 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 456827009812 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 456827009813 nucleotide binding region [chemical binding]; other site 456827009814 ATP-binding site [chemical binding]; other site 456827009815 DNA topoisomerase I; Validated; Region: PRK06599 456827009816 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 456827009817 active site 456827009818 interdomain interaction site; other site 456827009819 putative metal-binding site [ion binding]; other site 456827009820 nucleotide binding site [chemical binding]; other site 456827009821 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 456827009822 domain I; other site 456827009823 DNA binding groove [nucleotide binding] 456827009824 phosphate binding site [ion binding]; other site 456827009825 domain II; other site 456827009826 domain III; other site 456827009827 nucleotide binding site [chemical binding]; other site 456827009828 catalytic site [active] 456827009829 domain IV; other site 456827009830 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 456827009831 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 456827009832 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 456827009833 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 456827009834 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827009835 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 456827009836 FtsX-like permease family; Region: FtsX; pfam02687 456827009837 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 456827009838 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 456827009839 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 456827009840 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 456827009841 RNA polymerase I-specific transcription-initiation factor; Region: Rrn6; pfam10214 456827009842 Tetratricopeptide repeat; Region: TPR_12; pfam13424 456827009843 prefoldin subunit beta; Provisional; Region: PRK09343 456827009844 hypothetical protein; Reviewed; Region: PRK12497 456827009845 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 456827009846 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 456827009847 generic binding surface II; other site 456827009848 generic binding surface I; other site 456827009849 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827009850 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 456827009851 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827009852 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 456827009853 PcfJ-like protein; Region: PcfJ; pfam14284 456827009854 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 456827009855 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 456827009856 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 456827009857 active site 456827009858 dimer interface [polypeptide binding]; other site 456827009859 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 456827009860 dimer interface [polypeptide binding]; other site 456827009861 active site 456827009862 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 456827009863 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 456827009864 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 456827009865 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 456827009866 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 456827009867 dimerization domain swap beta strand [polypeptide binding]; other site 456827009868 regulatory protein interface [polypeptide binding]; other site 456827009869 active site 456827009870 regulatory phosphorylation site [posttranslational modification]; other site 456827009871 HPr kinase/phosphorylase; Provisional; Region: PRK05428 456827009872 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 456827009873 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 456827009874 Hpr binding site; other site 456827009875 active site 456827009876 homohexamer subunit interaction site [polypeptide binding]; other site 456827009877 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 A site; Region: RaiA; cd00552 456827009878 30S subunit binding site; other site 456827009879 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 456827009880 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 456827009881 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 456827009882 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 456827009883 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 456827009884 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 456827009885 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 456827009886 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 456827009887 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 456827009888 Walker A/P-loop; other site 456827009889 ATP binding site [chemical binding]; other site 456827009890 Q-loop/lid; other site 456827009891 ABC transporter signature motif; other site 456827009892 Walker B; other site 456827009893 D-loop; other site 456827009894 H-loop/switch region; other site 456827009895 OstA-like protein; Region: OstA_2; pfam13100 456827009896 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 456827009897 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 456827009898 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 456827009899 active site 456827009900 motif I; other site 456827009901 motif II; other site 456827009902 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 456827009903 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 456827009904 S-adenosylmethionine synthetase; Validated; Region: PRK05250 456827009905 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 456827009906 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 456827009907 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 456827009908 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 456827009909 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 456827009910 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 456827009911 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 456827009912 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 456827009913 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 456827009914 carboxyltransferase (CT) interaction site; other site 456827009915 biotinylation site [posttranslational modification]; other site 456827009916 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 456827009917 carboxyltransferase (CT) interaction site; other site 456827009918 biotinylation site [posttranslational modification]; other site 456827009919 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 456827009920 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 456827009921 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 456827009922 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 456827009923 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 456827009924 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 456827009925 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 456827009926 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 456827009927 active site 456827009928 putative substrate binding pocket [chemical binding]; other site 456827009929 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 456827009930 SmpB-tmRNA interface; other site 456827009931 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 456827009932 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 456827009933 catalytic loop [active] 456827009934 iron binding site [ion binding]; other site 456827009935 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 456827009936 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 456827009937 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 456827009938 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 456827009939 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 456827009940 Family description; Region: VCBS; pfam13517 456827009941 Family description; Region: VCBS; pfam13517 456827009942 FG-GAP repeat; Region: FG-GAP; cl15299 456827009943 Family description; Region: VCBS; pfam13517 456827009944 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827009945 Interdomain contacts; other site 456827009946 Cytokine receptor motif; other site 456827009947 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827009948 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009949 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 456827009950 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 456827009951 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 456827009952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827009953 Walker A motif; other site 456827009954 ATP binding site [chemical binding]; other site 456827009955 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 456827009956 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 456827009957 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 456827009958 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 456827009959 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 456827009960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 456827009961 dimer interface [polypeptide binding]; other site 456827009962 active site 456827009963 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827009964 catalytic residues [active] 456827009965 substrate binding site [chemical binding]; other site 456827009966 Urea transporter; Region: UT; pfam03253 456827009967 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 456827009968 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827009969 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 456827009970 binding surface 456827009971 TPR motif; other site 456827009972 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 456827009973 binding surface 456827009974 TPR motif; other site 456827009975 CARDB; Region: CARDB; pfam07705 456827009976 CARDB; Region: CARDB; pfam07705 456827009977 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827009978 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 456827009979 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827009980 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827009981 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827009982 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827009983 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 456827009984 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 456827009985 active site 456827009986 Predicted GTPase [General function prediction only]; Region: COG0218 456827009987 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 456827009988 G1 box; other site 456827009989 GTP/Mg2+ binding site [chemical binding]; other site 456827009990 Switch I region; other site 456827009991 G2 box; other site 456827009992 G3 box; other site 456827009993 Switch II region; other site 456827009994 G4 box; other site 456827009995 G5 box; other site 456827009996 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 456827009997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827009999 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 456827010000 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 456827010001 Ligand binding site; other site 456827010002 oligomer interface; other site 456827010003 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 456827010004 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 456827010005 active site 456827010006 metal binding site [ion binding]; metal-binding site 456827010007 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 456827010008 Predicted amidohydrolase [General function prediction only]; Region: COG0388 456827010009 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 456827010010 active site 456827010011 catalytic triad [active] 456827010012 dimer interface [polypeptide binding]; other site 456827010013 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 456827010014 putative active site [active] 456827010015 dimerization interface [polypeptide binding]; other site 456827010016 putative tRNAtyr binding site [nucleotide binding]; other site 456827010017 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 456827010018 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 456827010019 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 456827010020 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 456827010021 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 456827010022 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 456827010023 rod shape-determining protein MreC; Provisional; Region: PRK13922 456827010024 rod shape-determining protein MreC; Region: MreC; pfam04085 456827010025 rod shape-determining protein MreB; Provisional; Region: PRK13927 456827010026 MreB and similar proteins; Region: MreB_like; cd10225 456827010027 nucleotide binding site [chemical binding]; other site 456827010028 Mg binding site [ion binding]; other site 456827010029 putative protofilament interaction site [polypeptide binding]; other site 456827010030 RodZ interaction site [polypeptide binding]; other site 456827010031 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 456827010032 NodB motif; other site 456827010033 putative active site [active] 456827010034 putative catalytic site [active] 456827010035 Zn binding site [ion binding]; other site 456827010036 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 456827010037 Peptidase M14 carboxypeptidase subfamily N/E-like; Region: M14_CP_N-E_like; cd03858 456827010038 active site 456827010039 Zn binding site [ion binding]; other site 456827010040 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cd11308 456827010041 Cna protein B-type domain; Region: Cna_B_2; pfam13715 456827010042 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827010043 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827010044 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 456827010045 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 456827010046 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 456827010047 Cupin domain; Region: Cupin_2; pfam07883 456827010048 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 456827010049 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 456827010050 catalytic motif [active] 456827010051 Zn binding site [ion binding]; other site 456827010052 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 456827010053 TPR repeat; Region: TPR_11; pfam13414 456827010054 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 456827010055 TPR motif; other site 456827010056 binding surface 456827010057 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 456827010058 Colicin V production protein; Region: Colicin_V; pfam02674 456827010059 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 456827010060 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 456827010061 Walker A/P-loop; other site 456827010062 ATP binding site [chemical binding]; other site 456827010063 Q-loop/lid; other site 456827010064 ABC transporter signature motif; other site 456827010065 Walker B; other site 456827010066 D-loop; other site 456827010067 H-loop/switch region; other site 456827010068 Smr domain; Region: Smr; pfam01713 456827010069 CHC2 zinc finger; Region: zf-CHC2; pfam01807 456827010070 DNA primase; Validated; Region: dnaG; PRK05667 456827010071 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 456827010072 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 456827010073 active site 456827010074 metal binding site [ion binding]; metal-binding site 456827010075 interdomain interaction site; other site 456827010076 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 456827010077 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 456827010078 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 456827010079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 456827010080 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 456827010081 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 456827010082 DNA binding residues [nucleotide binding] 456827010083 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 456827010084 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 456827010085 active site 456827010086 Zn binding site [ion binding]; other site 456827010087 Zn binding site [ion binding]; other site 456827010088 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 456827010089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 456827010090 Walker A/P-loop; other site 456827010091 ATP binding site [chemical binding]; other site 456827010092 Q-loop/lid; other site 456827010093 ABC transporter signature motif; other site 456827010094 Walker B; other site 456827010095 D-loop; other site 456827010096 H-loop/switch region; other site 456827010097 ABC transporter; Region: ABC_tran_2; pfam12848 456827010098 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 456827010099 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 456827010100 putative ADP-ribose binding site [chemical binding]; other site 456827010101 putative active site [active] 456827010102 Lamin Tail Domain; Region: LTD; pfam00932 456827010103 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827010104 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 456827010105 homodimer interface [polypeptide binding]; other site 456827010106 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 456827010107 active site pocket [active] 456827010108 DGC domain; Region: DGC; cl01742 456827010109 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 456827010110 dimerization interface [polypeptide binding]; other site 456827010111 putative DNA binding site [nucleotide binding]; other site 456827010112 putative Zn2+ binding site [ion binding]; other site 456827010113 Archaeal ATPase; Region: Arch_ATPase; pfam01637 456827010114 AAA domain; Region: AAA_14; pfam13173 456827010115 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 456827010116 Lamin Tail Domain; Region: LTD; pfam00932 456827010117 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 456827010118 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 456827010119 Fructose-bisphosphate aldolase class-II; Region: F_bP_aldolase; pfam01116 456827010120 active site 456827010121 intersubunit interface [polypeptide binding]; other site 456827010122 zinc binding site [ion binding]; other site 456827010123 Na+ binding site [ion binding]; other site 456827010124 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827010125 DNA methylase; Region: N6_N4_Mtase; pfam01555 456827010126 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 456827010127 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 456827010128 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 456827010129 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 456827010130 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 456827010131 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 456827010132 putative active site [active] 456827010133 putative catalytic site [active] 456827010134 Methyltransferase domain; Region: Methyltransf_31; pfam13847 456827010135 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 456827010136 S-adenosylmethionine binding site [chemical binding]; other site 456827010137 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 456827010138 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 456827010139 Walker A/P-loop; other site 456827010140 ATP binding site [chemical binding]; other site 456827010141 Q-loop/lid; other site 456827010142 ABC transporter signature motif; other site 456827010143 Walker B; other site 456827010144 D-loop; other site 456827010145 H-loop/switch region; other site 456827010146 TOBE domain; Region: TOBE_2; pfam08402 456827010147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 456827010148 metal binding site [ion binding]; metal-binding site 456827010149 active site 456827010150 I-site; other site 456827010151 Septum formation initiator; Region: DivIC; pfam04977 456827010152 Uncharacterized conserved protein [Function unknown]; Region: COG2006 456827010153 Domain of unknown function (DUF362); Region: DUF362; pfam04015 456827010154 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827010155 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 456827010156 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 456827010157 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 456827010158 GDP-binding site [chemical binding]; other site 456827010159 ACT binding site; other site 456827010160 IMP binding site; other site 456827010161 Uncharacterized conserved protein [Function unknown]; Region: COG5316 456827010162 Sm and related proteins; Region: Sm_like; cl00259 456827010163 Sm1 motif; other site 456827010164 RNA binding site [nucleotide binding]; other site 456827010165 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 456827010166 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 456827010167 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 456827010168 putative dimer interface [polypeptide binding]; other site 456827010169 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 456827010170 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 456827010171 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 456827010172 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 456827010173 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 456827010174 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 456827010175 dimerization interface [polypeptide binding]; other site 456827010176 active site 456827010177 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 456827010178 Putative zinc ribbon domain; Region: DUF164; pfam02591 456827010179 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 456827010180 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 456827010181 active site 456827010182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 456827010183 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 456827010184 nudix motif; other site 456827010185 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 456827010186 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 456827010187 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 456827010188 protein binding site [polypeptide binding]; other site 456827010189 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 456827010190 protein binding site [polypeptide binding]; other site 456827010191 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827010192 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827010193 Domain of unknown function DUF11; Region: DUF11; cl15273 456827010194 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827010195 Cna protein B-type domain; Region: Cna_B_2; pfam13715 456827010196 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 456827010197 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827010198 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 456827010199 recombination regulator RecX; Reviewed; Region: recX; PRK00117 456827010200 recombinase A; Provisional; Region: recA; PRK09354 456827010201 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 456827010202 hexamer interface [polypeptide binding]; other site 456827010203 Walker A motif; other site 456827010204 ATP binding site [chemical binding]; other site 456827010205 Walker B motif; other site 456827010206 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 456827010207 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 456827010208 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 456827010209 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 456827010210 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 456827010211 S-adenosylmethionine binding site [chemical binding]; other site 456827010212 PAS domain S-box; Region: sensory_box; TIGR00229 456827010213 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 456827010214 putative active site [active] 456827010215 heme pocket [chemical binding]; other site 456827010216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 456827010217 metal binding site [ion binding]; metal-binding site 456827010218 active site 456827010219 I-site; other site 456827010220 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 456827010221 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 456827010222 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 456827010223 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 456827010224 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 456827010225 DNA binding site [nucleotide binding] 456827010226 catalytic residue [active] 456827010227 H2TH interface [polypeptide binding]; other site 456827010228 putative catalytic residues [active] 456827010229 turnover-facilitating residue; other site 456827010230 intercalation triad [nucleotide binding]; other site 456827010231 8OG recognition residue [nucleotide binding]; other site 456827010232 putative reading head residues; other site 456827010233 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 456827010234 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 456827010235 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 456827010236 DEAD-like helicases superfamily; Region: DEXDc; smart00487 456827010237 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 456827010238 putative Mg++ binding site [ion binding]; other site 456827010239 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 456827010240 nucleotide binding region [chemical binding]; other site 456827010241 ATP-binding site [chemical binding]; other site 456827010242 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 456827010243 active site 456827010244 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 456827010245 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 456827010246 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 456827010247 catalytic residues [active] 456827010248 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 456827010249 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 456827010250 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 456827010251 DsbD alpha interface [polypeptide binding]; other site 456827010252 catalytic residues [active] 456827010253 ribosome recycling factor; Reviewed; Region: frr; PRK00083 456827010254 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 round of...; Region: RRF; cd00520 456827010255 hinge region; other site 456827010256 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 456827010257 putative nucleotide binding site [chemical binding]; other site 456827010258 uridine monophosphate binding site [chemical binding]; other site 456827010259 homohexameric interface [polypeptide binding]; other site 456827010260 elongation factor Ts; Reviewed; Region: tsf; PRK12332 456827010261 UBA/TS-N domain; Region: UBA; pfam00627 456827010262 Elongation factor TS; Region: EF_TS; pfam00889 456827010263 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 456827010264 rRNA interaction site [nucleotide binding]; other site 456827010265 S8 interaction site; other site 456827010266 putative laminin-1 binding site; other site 456827010267 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 456827010268 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 456827010269 23S rRNA interface [nucleotide binding]; other site 456827010270 L3 interface [polypeptide binding]; other site 456827010271 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827010272 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 456827010273 Walker A/P-loop; other site 456827010274 ATP binding site [chemical binding]; other site 456827010275 Q-loop/lid; other site 456827010276 ABC transporter signature motif; other site 456827010277 Walker B; other site 456827010278 D-loop; other site 456827010279 H-loop/switch region; other site 456827010280 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827010281 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 456827010282 FtsX-like permease family; Region: FtsX; pfam02687 456827010283 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 456827010284 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 456827010285 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 456827010286 purine monophosphate binding site [chemical binding]; other site 456827010287 dimer interface [polypeptide binding]; other site 456827010288 putative catalytic residues [active] 456827010289 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 456827010290 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 456827010291 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827010292 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; cl16911 456827010293 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 456827010294 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 456827010295 tandem repeat interface [polypeptide binding]; other site 456827010296 oligomer interface [polypeptide binding]; other site 456827010297 active site residues [active] 456827010298 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 456827010299 tandem repeat interface [polypeptide binding]; other site 456827010300 oligomer interface [polypeptide binding]; other site 456827010301 active site residues [active] 456827010302 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 456827010303 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 456827010304 homodimer interface [polypeptide binding]; other site 456827010305 oligonucleotide binding site [chemical binding]; other site 456827010306 FeoA domain; Region: FeoA; pfam04023 456827010307 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 456827010308 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 456827010309 G1 box; other site 456827010310 GTP/Mg2+ binding site [chemical binding]; other site 456827010311 Switch I region; other site 456827010312 G2 box; other site 456827010313 G3 box; other site 456827010314 Switch II region; other site 456827010315 G4 box; other site 456827010316 G5 box; other site 456827010317 Nucleoside recognition; Region: Gate; pfam07670 456827010318 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 456827010319 Nucleoside recognition; Region: Gate; pfam07670 456827010320 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 456827010321 putative DNA binding helix; other site 456827010322 metal binding site 2 [ion binding]; metal-binding site 456827010323 metal binding site 1 [ion binding]; metal-binding site 456827010324 dimer interface [polypeptide binding]; other site 456827010325 structural Zn2+ binding site [ion binding]; other site 456827010326 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568