-- dump date 20140619_224544 -- class Genbank::misc_feature -- table misc_feature_note -- id note 867902000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 867902000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 867902000003 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 867902000004 Walker A motif; other site 867902000005 ATP binding site [chemical binding]; other site 867902000006 Walker B motif; other site 867902000007 arginine finger; other site 867902000008 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 867902000009 DnaA box-binding interface [nucleotide binding]; other site 867902000010 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 867902000011 Low molecular weight phosphatase family; Region: LMWPc; cd00115 867902000012 active site 867902000013 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 867902000014 putative SAM binding site [chemical binding]; other site 867902000015 homodimer interface [polypeptide binding]; other site 867902000016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902000017 ligand binding site [chemical binding]; other site 867902000018 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 867902000019 CAAX protease self-immunity; Region: Abi; pfam02517 867902000020 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 867902000021 active site 867902000022 dimerization interface [polypeptide binding]; other site 867902000023 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902000024 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902000025 ligand binding site [chemical binding]; other site 867902000026 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 867902000027 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 867902000028 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 867902000029 FeS/SAM binding site; other site 867902000030 TRAM domain; Region: TRAM; cl01282 867902000031 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 867902000032 GIY-YIG motif/motif A; other site 867902000033 putative active site [active] 867902000034 putative metal binding site [ion binding]; other site 867902000035 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 867902000036 Protein export membrane protein; Region: SecD_SecF; cl14618 867902000037 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 867902000038 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 867902000039 inhibitor-cofactor binding pocket; inhibition site 867902000040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902000041 catalytic residue [active] 867902000042 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 867902000043 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 867902000044 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 867902000045 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 867902000046 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 867902000047 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 867902000048 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 867902000049 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 867902000050 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 867902000051 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 867902000052 active site 867902000053 homodimer interface [polypeptide binding]; other site 867902000054 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 867902000055 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 867902000056 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 867902000057 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 867902000058 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 867902000059 Peptidase family M1; Region: Peptidase_M1; pfam01433 867902000060 Zn binding site [ion binding]; other site 867902000061 HEAT repeats; Region: HEAT_2; pfam13646 867902000062 membrane protein insertase; Provisional; Region: PRK01318 867902000063 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 867902000064 CTP synthetase; Validated; Region: pyrG; PRK05380 867902000065 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 867902000066 Catalytic site [active] 867902000067 active site 867902000068 UTP binding site [chemical binding]; other site 867902000069 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 867902000070 active site 867902000071 putative oxyanion hole; other site 867902000072 catalytic triad [active] 867902000073 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 867902000074 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 867902000075 tetramer interface [polypeptide binding]; other site 867902000076 TPP-binding site [chemical binding]; other site 867902000077 heterodimer interface [polypeptide binding]; other site 867902000078 phosphorylation loop region [posttranslational modification] 867902000079 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 867902000080 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 867902000081 PYR/PP interface [polypeptide binding]; other site 867902000082 dimer interface [polypeptide binding]; other site 867902000083 TPP binding site [chemical binding]; other site 867902000084 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 867902000085 Surface antigen; Region: Bac_surface_Ag; pfam01103 867902000086 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 867902000087 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 867902000088 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 867902000089 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 867902000090 Sulfatase; Region: Sulfatase; pfam00884 867902000091 Uncharacterized conserved protein [Function unknown]; Region: COG3538 867902000092 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 867902000093 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 867902000094 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 867902000095 PhnA protein; Region: PhnA; pfam03831 867902000096 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 867902000097 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 867902000098 dimer interface [polypeptide binding]; other site 867902000099 active site 867902000100 glycine-pyridoxal phosphate binding site [chemical binding]; other site 867902000101 folate binding site [chemical binding]; other site 867902000102 agmatinase; Region: agmatinase; TIGR01230 867902000103 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 867902000104 putative active site [active] 867902000105 Mn binding site [ion binding]; other site 867902000106 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 867902000107 Zn binding site [ion binding]; other site 867902000108 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 867902000109 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 867902000110 DXD motif; other site 867902000111 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 867902000112 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 867902000113 Probable Catalytic site; other site 867902000114 metal-binding site 867902000115 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 867902000116 putative rRNA binding site [nucleotide binding]; other site 867902000117 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 867902000118 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 867902000119 replicative DNA helicase; Region: DnaB; TIGR00665 867902000120 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 867902000121 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 867902000122 Walker A motif; other site 867902000123 ATP binding site [chemical binding]; other site 867902000124 Walker B motif; other site 867902000125 DNA binding loops [nucleotide binding] 867902000126 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 867902000127 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 867902000128 Catalytic site [active] 867902000129 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 867902000130 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 867902000131 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 867902000132 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 867902000133 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 867902000134 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 867902000135 ParB-like nuclease domain; Region: ParB; smart00470 867902000136 KorB domain; Region: KorB; pfam08535 867902000137 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 867902000138 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 867902000139 P-loop; other site 867902000140 Magnesium ion binding site [ion binding]; other site 867902000141 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 867902000142 Magnesium ion binding site [ion binding]; other site 867902000143 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 867902000144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902000145 Walker A/P-loop; other site 867902000146 ATP binding site [chemical binding]; other site 867902000147 Q-loop/lid; other site 867902000148 ABC transporter signature motif; other site 867902000149 Walker B; other site 867902000150 D-loop; other site 867902000151 H-loop/switch region; other site 867902000152 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 867902000153 transcription termination factor Rho; Provisional; Region: PRK12608 867902000154 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 867902000155 RNA binding site [nucleotide binding]; other site 867902000156 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 867902000157 multimer interface [polypeptide binding]; other site 867902000158 Walker A motif; other site 867902000159 ATP binding site [chemical binding]; other site 867902000160 Walker B motif; other site 867902000161 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 867902000162 active site 867902000163 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 867902000164 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 867902000165 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 867902000166 active site 867902000167 dimer interfaces [polypeptide binding]; other site 867902000168 catalytic residues [active] 867902000169 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 867902000170 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 867902000171 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 867902000172 substrate binding site [chemical binding]; other site 867902000173 hexamer interface [polypeptide binding]; other site 867902000174 metal binding site [ion binding]; metal-binding site 867902000175 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 867902000176 active site 867902000177 intersubunit interactions; other site 867902000178 catalytic residue [active] 867902000179 recombination protein F; Reviewed; Region: recF; PRK00064 867902000180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902000181 Walker A/P-loop; other site 867902000182 ATP binding site [chemical binding]; other site 867902000183 Q-loop/lid; other site 867902000184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902000185 ABC transporter signature motif; other site 867902000186 Walker B; other site 867902000187 D-loop; other site 867902000188 H-loop/switch region; other site 867902000189 Protein of unknown function (DUF721); Region: DUF721; pfam05258 867902000190 GTPase CgtA; Reviewed; Region: obgE; PRK12299 867902000191 GTP1/OBG; Region: GTP1_OBG; pfam01018 867902000192 Obg GTPase; Region: Obg; cd01898 867902000193 G1 box; other site 867902000194 GTP/Mg2+ binding site [chemical binding]; other site 867902000195 Switch I region; other site 867902000196 G2 box; other site 867902000197 G3 box; other site 867902000198 Switch II region; other site 867902000199 G4 box; other site 867902000200 G5 box; other site 867902000201 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 867902000202 Mechanosensitive ion channel; Region: MS_channel; pfam00924 867902000203 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 867902000204 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 867902000205 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 867902000206 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902000207 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 867902000208 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 867902000209 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 867902000210 DNA binding residues [nucleotide binding] 867902000211 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 867902000212 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 867902000213 putative active site [active] 867902000214 catalytic triad [active] 867902000215 putative dimer interface [polypeptide binding]; other site 867902000216 Nudix hydrolase homolog; Region: PLN02791 867902000217 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 867902000218 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 867902000219 Walker A/P-loop; other site 867902000220 ATP binding site [chemical binding]; other site 867902000221 Q-loop/lid; other site 867902000222 ABC transporter signature motif; other site 867902000223 Walker B; other site 867902000224 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 867902000225 ABC transporter signature motif; other site 867902000226 Walker B; other site 867902000227 D-loop; other site 867902000228 H-loop/switch region; other site 867902000229 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 867902000230 Flavoprotein; Region: Flavoprotein; pfam02441 867902000231 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 867902000232 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; pfam01192 867902000233 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 867902000234 Bacterial sugar transferase; Region: Bac_transf; pfam02397 867902000235 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 867902000236 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 867902000237 Tetratricopeptide repeat; Region: TPR_16; pfam13432 867902000238 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 867902000239 TPR motif; other site 867902000240 binding surface 867902000241 pyruvate phosphate dikinase; Provisional; Region: PRK09279 867902000242 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 867902000243 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 867902000244 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 867902000245 asparagine synthetase B; Provisional; Region: asnB; PRK09431 867902000246 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 867902000247 active site 867902000248 dimer interface [polypeptide binding]; other site 867902000249 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 867902000250 Ligand Binding Site [chemical binding]; other site 867902000251 Molecular Tunnel; other site 867902000252 YceI-like domain; Region: YceI; pfam04264 867902000253 NlpE N-terminal domain; Region: NlpE; pfam04170 867902000254 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 867902000255 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 867902000256 nucleotide binding site [chemical binding]; other site 867902000257 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 867902000258 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 867902000259 nucleotide binding site [chemical binding]; other site 867902000260 Uncharacterized conserved protein [Function unknown]; Region: COG2966 867902000261 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 867902000262 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 867902000263 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 867902000264 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 867902000265 ATP binding site [chemical binding]; other site 867902000266 putative Mg++ binding site [ion binding]; other site 867902000267 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 867902000268 nucleotide binding region [chemical binding]; other site 867902000269 ATP-binding site [chemical binding]; other site 867902000270 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 867902000271 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 867902000272 putative active site [active] 867902000273 substrate binding site [chemical binding]; other site 867902000274 putative cosubstrate binding site; other site 867902000275 catalytic site [active] 867902000276 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 867902000277 substrate binding site [chemical binding]; other site 867902000278 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 867902000279 IHF dimer interface [polypeptide binding]; other site 867902000280 IHF - DNA interface [nucleotide binding]; other site 867902000281 ATP-grasp domain; Region: ATP-grasp_4; cl17255 867902000282 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 867902000283 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 867902000284 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902000285 catalytic residue [active] 867902000286 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 867902000287 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 867902000288 acyl-activating enzyme (AAE) consensus motif; other site 867902000289 putative AMP binding site [chemical binding]; other site 867902000290 putative active site [active] 867902000291 putative CoA binding site [chemical binding]; other site 867902000292 NAD-dependent deacetylase; Provisional; Region: PRK00481 867902000293 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 867902000294 NAD+ binding site [chemical binding]; other site 867902000295 substrate binding site [chemical binding]; other site 867902000296 Zn binding site [ion binding]; other site 867902000297 diaminopimelate decarboxylase; Region: lysA; TIGR01048 867902000298 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 867902000299 active site 867902000300 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 867902000301 substrate binding site [chemical binding]; other site 867902000302 catalytic residues [active] 867902000303 dimer interface [polypeptide binding]; other site 867902000304 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 867902000305 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 867902000306 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 867902000307 HsdM N-terminal domain; Region: HsdM_N; pfam12161 867902000308 Methyltransferase domain; Region: Methyltransf_26; pfam13659 867902000309 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 867902000310 Virulence protein [General function prediction only]; Region: COG3943 867902000311 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 867902000312 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 867902000313 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 867902000314 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 867902000315 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 867902000316 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 867902000317 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 867902000318 ATP binding site [chemical binding]; other site 867902000319 putative Mg++ binding site [ion binding]; other site 867902000320 Protein of unknown function DUF45; Region: DUF45; pfam01863 867902000321 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 867902000322 CHC2 zinc finger; Region: zf-CHC2; cl17510 867902000323 Toprim-like; Region: Toprim_2; pfam13155 867902000324 Helix-turn-helix domain; Region: HTH_28; pfam13518 867902000325 putative transposase OrfB; Reviewed; Region: PHA02517 867902000326 Homeodomain-like domain; Region: HTH_32; pfam13565 867902000327 Integrase core domain; Region: rve; pfam00665 867902000328 Integrase core domain; Region: rve_3; pfam13683 867902000329 Transposase; Region: HTH_Tnp_1; pfam01527 867902000330 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 867902000331 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 867902000332 NlpC/P60 family; Region: NLPC_P60; pfam00877 867902000333 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 867902000334 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 867902000335 Cl- selectivity filter; other site 867902000336 Cl- binding residues [ion binding]; other site 867902000337 pore gating glutamate residue; other site 867902000338 dimer interface [polypeptide binding]; other site 867902000339 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 867902000340 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 867902000341 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 867902000342 dimer interface [polypeptide binding]; other site 867902000343 anticodon binding site; other site 867902000344 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 867902000345 homodimer interface [polypeptide binding]; other site 867902000346 motif 1; other site 867902000347 active site 867902000348 motif 2; other site 867902000349 GAD domain; Region: GAD; pfam02938 867902000350 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 867902000351 motif 3; other site 867902000352 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 867902000353 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 867902000354 FMN binding site [chemical binding]; other site 867902000355 substrate binding site [chemical binding]; other site 867902000356 putative catalytic residue [active] 867902000357 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 867902000358 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 867902000359 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 867902000360 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 867902000361 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 867902000362 nucleotide binding region [chemical binding]; other site 867902000363 ATP-binding site [chemical binding]; other site 867902000364 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 867902000365 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 867902000366 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 867902000367 active site 867902000368 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 867902000369 Protein of unknown function (DUF445); Region: DUF445; pfam04286 867902000370 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 867902000371 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 867902000372 putative active site [active] 867902000373 putative metal binding site [ion binding]; other site 867902000374 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 867902000375 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 867902000376 dimer interface [polypeptide binding]; other site 867902000377 active site 867902000378 CoA binding pocket [chemical binding]; other site 867902000379 excinuclease ABC subunit B; Provisional; Region: PRK05298 867902000380 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 867902000381 ATP binding site [chemical binding]; other site 867902000382 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 867902000383 nucleotide binding region [chemical binding]; other site 867902000384 ATP-binding site [chemical binding]; other site 867902000385 Ultra-violet resistance protein B; Region: UvrB; pfam12344 867902000386 Mechanosensitive ion channel; Region: MS_channel; pfam00924 867902000387 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 867902000388 chaperone protein DnaJ; Provisional; Region: PRK14277 867902000389 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 867902000390 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 867902000391 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 867902000392 FeS/SAM binding site; other site 867902000393 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 867902000394 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 867902000395 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 867902000396 homodimer interface [polypeptide binding]; other site 867902000397 NADP binding site [chemical binding]; other site 867902000398 substrate binding site [chemical binding]; other site 867902000399 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 867902000400 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 867902000401 active site 867902000402 Riboflavin kinase; Region: Flavokinase; pfam01687 867902000403 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 867902000404 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 867902000405 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 867902000406 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 867902000407 FeS/SAM binding site; other site 867902000408 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 867902000409 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 867902000410 substrate binding pocket [chemical binding]; other site 867902000411 chain length determination region; other site 867902000412 substrate-Mg2+ binding site; other site 867902000413 catalytic residues [active] 867902000414 aspartate-rich region 1; other site 867902000415 active site lid residues [active] 867902000416 aspartate-rich region 2; other site 867902000417 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 867902000418 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 867902000419 Ligand binding site; other site 867902000420 Putative Catalytic site; other site 867902000421 DXD motif; other site 867902000422 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 867902000423 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 867902000424 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 867902000425 active site 867902000426 substrate binding site [chemical binding]; other site 867902000427 metal binding site [ion binding]; metal-binding site 867902000428 Predicted membrane protein [Function unknown]; Region: COG2323 867902000429 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 867902000430 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 867902000431 dimer interface [polypeptide binding]; other site 867902000432 putative anticodon binding site; other site 867902000433 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 867902000434 motif 1; other site 867902000435 active site 867902000436 motif 2; other site 867902000437 motif 3; other site 867902000438 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 867902000439 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 867902000440 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 867902000441 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 867902000442 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 867902000443 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 867902000444 putative dimer interface [polypeptide binding]; other site 867902000445 putative anticodon binding site; other site 867902000446 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 867902000447 homodimer interface [polypeptide binding]; other site 867902000448 motif 1; other site 867902000449 motif 2; other site 867902000450 active site 867902000451 motif 3; other site 867902000452 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 867902000453 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 867902000454 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 867902000455 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902000456 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 867902000457 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 867902000458 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 867902000459 acyl-activating enzyme (AAE) consensus motif; other site 867902000460 AMP binding site [chemical binding]; other site 867902000461 active site 867902000462 CoA binding site [chemical binding]; other site 867902000463 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 867902000464 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 867902000465 active site 867902000466 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 867902000467 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 867902000468 putative ligand binding site [chemical binding]; other site 867902000469 NAD binding site [chemical binding]; other site 867902000470 dimerization interface [polypeptide binding]; other site 867902000471 catalytic site [active] 867902000472 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 867902000473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902000474 catalytic residue [active] 867902000475 Leucine rich repeat; Region: LRR_8; pfam13855 867902000476 bifunctional cytidylate kinase/ribosomal protein S1; Provisional; Region: PRK12269 867902000477 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 867902000478 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 867902000479 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 867902000480 Interferon-induced transmembrane protein; Region: CD225; pfam04505 867902000481 nucleoside transporter; Region: 2A0110; TIGR00889 867902000482 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 867902000483 putative substrate translocation pore; other site 867902000484 Bifunctional nuclease; Region: DNase-RNase; pfam02577 867902000485 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 867902000486 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 867902000487 Ligand Binding Site [chemical binding]; other site 867902000488 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 867902000489 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 867902000490 Ligand binding site [chemical binding]; other site 867902000491 Electron transfer flavoprotein domain; Region: ETF; pfam01012 867902000492 UPF0126 domain; Region: UPF0126; pfam03458 867902000493 Predicted membrane protein [Function unknown]; Region: COG2860 867902000494 UPF0126 domain; Region: UPF0126; pfam03458 867902000495 Part of AAA domain; Region: AAA_19; pfam13245 867902000496 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 867902000497 Family description; Region: UvrD_C_2; pfam13538 867902000498 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 867902000499 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 867902000500 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 867902000501 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 867902000502 6-phosphofructokinase; Provisional; Region: PRK03202 867902000503 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 867902000504 active site 867902000505 ADP/pyrophosphate binding site [chemical binding]; other site 867902000506 dimerization interface [polypeptide binding]; other site 867902000507 allosteric effector site; other site 867902000508 fructose-1,6-bisphosphate binding site; other site 867902000509 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 867902000510 nudix motif; other site 867902000511 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 867902000512 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 867902000513 putative nucleotide binding site [chemical binding]; other site 867902000514 uridine monophosphate binding site [chemical binding]; other site 867902000515 homohexameric interface [polypeptide binding]; other site 867902000516 ribosome recycling factor; Reviewed; Region: frr; PRK00083 867902000517 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 867902000518 hinge region; other site 867902000519 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 867902000520 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 867902000521 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902000522 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902000523 ligand binding site [chemical binding]; other site 867902000524 hypothetical protein; Validated; Region: PRK06886 867902000525 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 867902000526 active site 867902000527 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 867902000528 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 867902000529 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 867902000530 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 867902000531 FeS/SAM binding site; other site 867902000532 HemN C-terminal domain; Region: HemN_C; pfam06969 867902000533 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 867902000534 active site 867902000535 adenylate kinase; Reviewed; Region: adk; PRK00279 867902000536 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 867902000537 AMP-binding site [chemical binding]; other site 867902000538 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 867902000539 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 867902000540 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 867902000541 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 867902000542 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 867902000543 Potassium binding sites [ion binding]; other site 867902000544 Cesium cation binding sites [ion binding]; other site 867902000545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 867902000546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 867902000547 Coenzyme A binding pocket [chemical binding]; other site 867902000548 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 867902000549 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 867902000550 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 867902000551 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 867902000552 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 867902000553 PhoH-like protein; Region: PhoH; pfam02562 867902000554 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 867902000555 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 867902000556 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 867902000557 folate binding site [chemical binding]; other site 867902000558 NADP+ binding site [chemical binding]; other site 867902000559 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 867902000560 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 867902000561 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 867902000562 Zn2+ binding site [ion binding]; other site 867902000563 Mg2+ binding site [ion binding]; other site 867902000564 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 867902000565 synthetase active site [active] 867902000566 NTP binding site [chemical binding]; other site 867902000567 metal binding site [ion binding]; metal-binding site 867902000568 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 867902000569 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 867902000570 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 867902000571 metal binding site 2 [ion binding]; metal-binding site 867902000572 putative DNA binding helix; other site 867902000573 metal binding site 1 [ion binding]; metal-binding site 867902000574 dimer interface [polypeptide binding]; other site 867902000575 structural Zn2+ binding site [ion binding]; other site 867902000576 OstA-like protein; Region: OstA_2; pfam13100 867902000577 OstA-like protein; Region: OstA; cl00844 867902000578 OstA-like protein; Region: OstA; cl00844 867902000579 OstA-like protein; Region: OstA; cl00844 867902000580 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 867902000581 Mechanosensitive ion channel; Region: MS_channel; pfam00924 867902000582 Membrane protein of unknown function; Region: DUF360; pfam04020 867902000583 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 867902000584 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 867902000585 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 867902000586 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 867902000587 putative DNA binding site [nucleotide binding]; other site 867902000588 putative Zn2+ binding site [ion binding]; other site 867902000589 AsnC family; Region: AsnC_trans_reg; pfam01037 867902000590 Family of unknown function (DUF490); Region: DUF490; pfam04357 867902000591 Family of unknown function (DUF490); Region: DUF490; pfam04357 867902000592 UGMP family protein; Validated; Region: PRK09604 867902000593 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 867902000594 Fumble; Region: Fumble; cl17357 867902000595 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 867902000596 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902000597 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902000598 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 867902000599 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 867902000600 S-adenosylmethionine binding site [chemical binding]; other site 867902000601 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 867902000602 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 867902000603 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 867902000604 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 867902000605 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 867902000606 S-adenosylmethionine binding site [chemical binding]; other site 867902000607 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 867902000608 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 867902000609 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 867902000610 trimer interface [polypeptide binding]; other site 867902000611 active site 867902000612 substrate binding site [chemical binding]; other site 867902000613 CoA binding site [chemical binding]; other site 867902000614 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 867902000615 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 867902000616 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 867902000617 YceG-like family; Region: YceG; pfam02618 867902000618 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 867902000619 dimerization interface [polypeptide binding]; other site 867902000620 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 867902000621 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 867902000622 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 867902000623 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 867902000624 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 867902000625 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 867902000626 protein binding site [polypeptide binding]; other site 867902000627 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 867902000628 protein binding site [polypeptide binding]; other site 867902000629 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 867902000630 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 867902000631 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 867902000632 Protein export membrane protein; Region: SecD_SecF; pfam02355 867902000633 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902000634 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902000635 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 867902000636 starch binding outer membrane protein SusD; Region: SusD; cl17845 867902000637 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 867902000638 active site 867902000639 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 867902000640 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 867902000641 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 867902000642 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 867902000643 DHH family; Region: DHH; pfam01368 867902000644 DHHA1 domain; Region: DHHA1; pfam02272 867902000645 Sulfatase; Region: Sulfatase; pfam00884 867902000646 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 867902000647 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 867902000648 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 867902000649 ArsC family; Region: ArsC; pfam03960 867902000650 catalytic residues [active] 867902000651 Mac 1; Region: Mac-1; pfam09028 867902000652 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 867902000653 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 867902000654 active site 867902000655 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 867902000656 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 867902000657 PspC domain; Region: PspC; cl00864 867902000658 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 867902000659 peptide chain release factor 1; Validated; Region: prfA; PRK00591 867902000660 This domain is found in peptide chain release factors; Region: PCRF; smart00937 867902000661 RF-1 domain; Region: RF-1; pfam00472 867902000662 cell division protein FtsE; Provisional; Region: PRK10908 867902000663 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 867902000664 active site 867902000665 Ap6A binding site [chemical binding]; other site 867902000666 nudix motif; other site 867902000667 metal binding site [ion binding]; metal-binding site 867902000668 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 867902000669 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 867902000670 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902000671 active site 867902000672 HIGH motif; other site 867902000673 nucleotide binding site [chemical binding]; other site 867902000674 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 867902000675 KMSK motif region; other site 867902000676 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 867902000677 tRNA binding surface [nucleotide binding]; other site 867902000678 anticodon binding site; other site 867902000679 exopolyphosphatase; Region: exo_poly_only; TIGR03706 867902000680 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 867902000681 polyphosphate kinase; Provisional; Region: PRK05443 867902000682 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 867902000683 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 867902000684 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 867902000685 domain interface [polypeptide binding]; other site 867902000686 active site 867902000687 catalytic site [active] 867902000688 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 867902000689 domain interface [polypeptide binding]; other site 867902000690 active site 867902000691 catalytic site [active] 867902000692 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 867902000693 catalytic residues [active] 867902000694 dimer interface [polypeptide binding]; other site 867902000695 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 867902000696 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 867902000697 alpha-galactosidase; Region: PLN02808; cl17638 867902000698 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 867902000699 nucleoside/Zn binding site; other site 867902000700 dimer interface [polypeptide binding]; other site 867902000701 catalytic motif [active] 867902000702 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 867902000703 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 867902000704 active site 867902000705 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 867902000706 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 867902000707 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 867902000708 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 867902000709 putative catalytic site [active] 867902000710 putative metal binding site [ion binding]; other site 867902000711 putative phosphate binding site [ion binding]; other site 867902000712 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 867902000713 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 867902000714 catalytic loop [active] 867902000715 iron binding site [ion binding]; other site 867902000716 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 867902000717 FAD binding pocket [chemical binding]; other site 867902000718 FAD binding motif [chemical binding]; other site 867902000719 phosphate binding motif [ion binding]; other site 867902000720 beta-alpha-beta structure motif; other site 867902000721 NAD binding pocket [chemical binding]; other site 867902000722 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 867902000723 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 867902000724 FMN-binding domain; Region: FMN_bind; cl01081 867902000725 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 867902000726 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 867902000727 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 867902000728 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 867902000729 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 867902000730 S-adenosylmethionine binding site [chemical binding]; other site 867902000731 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 867902000732 MgtE intracellular N domain; Region: MgtE_N; pfam03448 867902000733 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 867902000734 Divalent cation transporter; Region: MgtE; pfam01769 867902000735 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902000736 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902000737 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 867902000738 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 867902000739 TPP-binding site [chemical binding]; other site 867902000740 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 867902000741 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 867902000742 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 867902000743 active site 867902000744 Zn binding site [ion binding]; other site 867902000745 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 867902000746 active site residue [active] 867902000747 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 867902000748 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 867902000749 Sulfatase; Region: Sulfatase; cl17466 867902000750 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 867902000751 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 867902000752 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 867902000753 FeS/SAM binding site; other site 867902000754 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 867902000755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 867902000756 Transposase; Region: DEDD_Tnp_IS110; pfam01548 867902000757 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 867902000758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902000759 Walker A/P-loop; other site 867902000760 ATP binding site [chemical binding]; other site 867902000761 Q-loop/lid; other site 867902000762 ABC transporter signature motif; other site 867902000763 Walker B; other site 867902000764 D-loop; other site 867902000765 H-loop/switch region; other site 867902000766 S-adenosylmethionine synthetase; Validated; Region: PRK05250 867902000767 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 867902000768 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 867902000769 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 867902000770 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 867902000771 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 867902000772 CPE1046 is an uncharacterized Clostridium perfringens protein with a glycosyl hydrolase family 31 (GH31) domain. The domain architecture of CPE1046 and its orthologs includes a C-terminal fibronectin type 3 (FN3) domain and a coagulation factor 5/8 type...; Region: GH31_CPE1046; cd06596 867902000773 putative active site [active] 867902000774 putative catalytic site [active] 867902000775 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 867902000776 Interdomain contacts; other site 867902000777 Cytokine receptor motif; other site 867902000778 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902000779 sugar binding site [chemical binding]; other site 867902000780 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 867902000781 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 867902000782 dihydrodipicolinate synthase; Region: dapA; TIGR00674 867902000783 dimer interface [polypeptide binding]; other site 867902000784 active site 867902000785 catalytic residue [active] 867902000786 Predicted ATPase [General function prediction only]; Region: COG4637 867902000787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902000788 Walker A/P-loop; other site 867902000789 ATP binding site [chemical binding]; other site 867902000790 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902000791 Walker B; other site 867902000792 D-loop; other site 867902000793 H-loop/switch region; other site 867902000794 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 867902000795 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 867902000796 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 867902000797 amidase catalytic site [active] 867902000798 Zn binding residues [ion binding]; other site 867902000799 substrate binding site [chemical binding]; other site 867902000800 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 867902000801 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 867902000802 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 867902000803 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 867902000804 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 867902000805 Lyase, N terminal; Region: Lyase_N; pfam09092 867902000806 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 867902000807 substrate binding site [chemical binding]; other site 867902000808 catalytic residues [active] 867902000809 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 867902000810 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 867902000811 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 867902000812 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902000813 sugar binding site [chemical binding]; other site 867902000814 Domain of unknown function (DUF386); Region: DUF386; cl01047 867902000815 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 867902000816 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 867902000817 Na binding site [ion binding]; other site 867902000818 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 867902000819 dimerization interface [polypeptide binding]; other site 867902000820 putative active cleft [active] 867902000821 Ion transport protein; Region: Ion_trans; pfam00520 867902000822 Ion channel; Region: Ion_trans_2; pfam07885 867902000823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 867902000824 pyruvate dehydrogenase; Provisional; Region: PRK06546 867902000825 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 867902000826 PYR/PP interface [polypeptide binding]; other site 867902000827 dimer interface [polypeptide binding]; other site 867902000828 tetramer interface [polypeptide binding]; other site 867902000829 TPP binding site [chemical binding]; other site 867902000830 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 867902000831 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 867902000832 TPP-binding site [chemical binding]; other site 867902000833 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 867902000834 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 867902000835 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 867902000836 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 867902000837 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 867902000838 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 867902000839 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 867902000840 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 867902000841 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 867902000842 GLPGLI family protein; Region: GLPGLI; TIGR01200 867902000843 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902000844 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 867902000845 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 867902000846 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 867902000847 DNA polymerase III, delta subunit; Region: holA; TIGR01128 867902000848 Peptidase family M23; Region: Peptidase_M23; pfam01551 867902000849 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 867902000850 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 867902000851 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 867902000852 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902000853 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902000854 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 867902000855 16S/18S rRNA binding site [nucleotide binding]; other site 867902000856 S13e-L30e interaction site [polypeptide binding]; other site 867902000857 25S rRNA binding site [nucleotide binding]; other site 867902000858 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 867902000859 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 867902000860 RNase E interface [polypeptide binding]; other site 867902000861 trimer interface [polypeptide binding]; other site 867902000862 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 867902000863 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 867902000864 RNase E interface [polypeptide binding]; other site 867902000865 trimer interface [polypeptide binding]; other site 867902000866 active site 867902000867 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 867902000868 putative nucleic acid binding region [nucleotide binding]; other site 867902000869 G-X-X-G motif; other site 867902000870 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 867902000871 RNA binding site [nucleotide binding]; other site 867902000872 domain interface; other site 867902000873 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 867902000874 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902000875 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 867902000876 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 867902000877 trmE is a tRNA modification GTPase; Region: trmE; cd04164 867902000878 G1 box; other site 867902000879 GTP/Mg2+ binding site [chemical binding]; other site 867902000880 Switch I region; other site 867902000881 G2 box; other site 867902000882 Switch II region; other site 867902000883 G3 box; other site 867902000884 G4 box; other site 867902000885 G5 box; other site 867902000886 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 867902000887 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 867902000888 catalytic core [active] 867902000889 Sulfocyanin (SoxE); Region: SoxE; cl17563 867902000890 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902000891 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902000892 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902000893 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 867902000894 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 867902000895 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902000896 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902000897 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 867902000898 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902000899 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 867902000900 active site 867902000901 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 867902000902 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902000903 SdpI/YhfL protein family; Region: SdpI; pfam13630 867902000904 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 867902000905 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 867902000906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902000907 catalytic residue [active] 867902000908 16S rRNA methyltransferase B; Provisional; Region: PRK14902 867902000909 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 867902000910 FtsJ-like methyltransferase; Region: FtsJ; cl17430 867902000911 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 867902000912 S-adenosylmethionine binding site [chemical binding]; other site 867902000913 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 867902000914 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 867902000915 Glutamate binding site [chemical binding]; other site 867902000916 NAD binding site [chemical binding]; other site 867902000917 catalytic residues [active] 867902000918 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 867902000919 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902000920 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902000921 ABC transporter; Region: ABC_tran_2; pfam12848 867902000922 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902000923 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 867902000924 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 867902000925 dimer interface [polypeptide binding]; other site 867902000926 active site 867902000927 CoA binding pocket [chemical binding]; other site 867902000928 Helix-turn-helix domain; Region: HTH_28; pfam13518 867902000929 putative transposase OrfB; Reviewed; Region: PHA02517 867902000930 Homeodomain-like domain; Region: HTH_32; pfam13565 867902000931 Integrase core domain; Region: rve; pfam00665 867902000932 Integrase core domain; Region: rve_3; pfam13683 867902000933 Transposase; Region: HTH_Tnp_1; pfam01527 867902000934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 867902000935 PAP2_like_4 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_4; cd03395 867902000936 active site 867902000937 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 867902000938 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 867902000939 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 867902000940 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 867902000941 active site 867902000942 substrate binding site [chemical binding]; other site 867902000943 metal binding site [ion binding]; metal-binding site 867902000944 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 867902000945 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 867902000946 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 867902000947 Helix-turn-helix domain; Region: HTH_17; pfam12728 867902000948 Helix-turn-helix domain; Region: HTH_17; cl17695 867902000949 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 867902000950 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902000951 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902000952 Integrase core domain; Region: rve; pfam00665 867902000953 trigger factor; Region: tig; TIGR00115 867902000954 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 867902000955 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 867902000956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902000957 homodimer interface [polypeptide binding]; other site 867902000958 catalytic residue [active] 867902000959 gliding motility-associated protein GldC; Region: GldC; TIGR03515 867902000960 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 867902000961 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 867902000962 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 867902000963 homodimer interface [polypeptide binding]; other site 867902000964 NAD binding pocket [chemical binding]; other site 867902000965 ATP binding pocket [chemical binding]; other site 867902000966 Mg binding site [ion binding]; other site 867902000967 active-site loop [active] 867902000968 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 867902000969 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 867902000970 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 867902000971 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 867902000972 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 867902000973 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 867902000974 Peptidase family U32; Region: Peptidase_U32; pfam01136 867902000975 Recombination protein O N terminal; Region: RecO_N; pfam11967 867902000976 Recombination protein O C terminal; Region: RecO_C; pfam02565 867902000977 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 867902000978 Malic enzyme, N-terminal domain; Region: malic; pfam00390 867902000979 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 867902000980 putative NAD(P) binding site [chemical binding]; other site 867902000981 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 867902000982 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 867902000983 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 867902000984 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 867902000985 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902000986 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902000987 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902000988 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 867902000989 Methyltransferase domain; Region: Methyltransf_23; pfam13489 867902000990 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 867902000991 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 867902000992 core domain interface [polypeptide binding]; other site 867902000993 delta subunit interface [polypeptide binding]; other site 867902000994 epsilon subunit interface [polypeptide binding]; other site 867902000995 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 867902000996 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 867902000997 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 867902000998 beta subunit interaction interface [polypeptide binding]; other site 867902000999 Walker A motif; other site 867902001000 ATP binding site [chemical binding]; other site 867902001001 Walker B motif; other site 867902001002 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 867902001003 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 867902001004 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 867902001005 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 867902001006 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 867902001007 ATP synthase A chain; Region: ATP-synt_A; cl00413 867902001008 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 867902001009 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902001010 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902001011 Integrase core domain; Region: rve; pfam00665 867902001012 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 867902001013 Cysteine-rich domain; Region: CCG; pfam02754 867902001014 Cysteine-rich domain; Region: CCG; pfam02754 867902001015 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 867902001016 dimer interface [polypeptide binding]; other site 867902001017 Citrate synthase; Region: Citrate_synt; pfam00285 867902001018 active site 867902001019 citrylCoA binding site [chemical binding]; other site 867902001020 NADH binding [chemical binding]; other site 867902001021 cationic pore residues; other site 867902001022 oxalacetate/citrate binding site [chemical binding]; other site 867902001023 coenzyme A binding site [chemical binding]; other site 867902001024 catalytic triad [active] 867902001025 enolase; Provisional; Region: eno; PRK00077 867902001026 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 867902001027 dimer interface [polypeptide binding]; other site 867902001028 metal binding site [ion binding]; metal-binding site 867902001029 substrate binding pocket [chemical binding]; other site 867902001030 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 867902001031 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 867902001032 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 867902001033 alphaNTD - beta interaction site [polypeptide binding]; other site 867902001034 alphaNTD homodimer interface [polypeptide binding]; other site 867902001035 alphaNTD - beta' interaction site [polypeptide binding]; other site 867902001036 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 867902001037 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 867902001038 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 867902001039 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 867902001040 RNA binding surface [nucleotide binding]; other site 867902001041 30S ribosomal protein S11; Validated; Region: PRK05309 867902001042 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 867902001043 30S ribosomal protein S13; Region: bact_S13; TIGR03631 867902001044 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 867902001045 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 867902001046 rRNA binding site [nucleotide binding]; other site 867902001047 predicted 30S ribosome binding site; other site 867902001048 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 867902001049 SecY translocase; Region: SecY; pfam00344 867902001050 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 867902001051 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 867902001052 23S rRNA binding site [nucleotide binding]; other site 867902001053 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 867902001054 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 867902001055 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 867902001056 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 867902001057 5S rRNA interface [nucleotide binding]; other site 867902001058 L27 interface [polypeptide binding]; other site 867902001059 23S rRNA interface [nucleotide binding]; other site 867902001060 L5 interface [polypeptide binding]; other site 867902001061 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 867902001062 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 867902001063 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 867902001064 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 867902001065 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 867902001066 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 867902001067 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 867902001068 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 867902001069 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 867902001070 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 867902001071 RNA binding site [nucleotide binding]; other site 867902001072 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 867902001073 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 867902001074 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 867902001075 23S rRNA interface [nucleotide binding]; other site 867902001076 putative translocon interaction site; other site 867902001077 signal recognition particle (SRP54) interaction site; other site 867902001078 L23 interface [polypeptide binding]; other site 867902001079 trigger factor interaction site; other site 867902001080 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 867902001081 23S rRNA interface [nucleotide binding]; other site 867902001082 5S rRNA interface [nucleotide binding]; other site 867902001083 putative antibiotic binding site [chemical binding]; other site 867902001084 L25 interface [polypeptide binding]; other site 867902001085 L27 interface [polypeptide binding]; other site 867902001086 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 867902001087 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 867902001088 G-X-X-G motif; other site 867902001089 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 867902001090 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 867902001091 putative translocon binding site; other site 867902001092 protein-rRNA interface [nucleotide binding]; other site 867902001093 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 867902001094 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 867902001095 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 867902001096 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 867902001097 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 867902001098 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 867902001099 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 867902001100 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 867902001101 elongation factor G; Reviewed; Region: PRK12739 867902001102 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 867902001103 G1 box; other site 867902001104 putative GEF interaction site [polypeptide binding]; other site 867902001105 GTP/Mg2+ binding site [chemical binding]; other site 867902001106 Switch I region; other site 867902001107 G2 box; other site 867902001108 G3 box; other site 867902001109 Switch II region; other site 867902001110 G4 box; other site 867902001111 G5 box; other site 867902001112 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 867902001113 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 867902001114 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 867902001115 30S ribosomal protein S7; Validated; Region: PRK05302 867902001116 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 867902001117 S17 interaction site [polypeptide binding]; other site 867902001118 S8 interaction site; other site 867902001119 16S rRNA interaction site [nucleotide binding]; other site 867902001120 streptomycin interaction site [chemical binding]; other site 867902001121 23S rRNA interaction site [nucleotide binding]; other site 867902001122 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 867902001123 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 867902001124 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902001125 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902001126 ligand binding site [chemical binding]; other site 867902001127 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 867902001128 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 867902001129 putative acyl-acceptor binding pocket; other site 867902001130 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 867902001131 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 867902001132 Probable Catalytic site; other site 867902001133 metal-binding site 867902001134 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 867902001135 putative substrate translocation pore; other site 867902001136 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 867902001137 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 867902001138 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 867902001139 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 867902001140 Cytokine receptor motif; other site 867902001141 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 867902001142 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902001143 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902001144 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902001145 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902001146 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 867902001147 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 867902001148 chaperone protein DnaJ; Provisional; Region: PRK14289 867902001149 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 867902001150 HSP70 interaction site [polypeptide binding]; other site 867902001151 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 867902001152 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 867902001153 dimer interface [polypeptide binding]; other site 867902001154 GrpE; Region: GrpE; pfam01025 867902001155 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 867902001156 dimer interface [polypeptide binding]; other site 867902001157 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 867902001158 Peptidase S46; Region: Peptidase_S46; pfam10459 867902001159 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 867902001160 multiple promoter invertase; Provisional; Region: mpi; PRK13413 867902001161 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 867902001162 catalytic residues [active] 867902001163 catalytic nucleophile [active] 867902001164 Presynaptic Site I dimer interface [polypeptide binding]; other site 867902001165 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 867902001166 Synaptic Flat tetramer interface [polypeptide binding]; other site 867902001167 Synaptic Site I dimer interface [polypeptide binding]; other site 867902001168 DNA binding site [nucleotide binding] 867902001169 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 867902001170 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 867902001171 PLD-like domain; Region: PLDc_2; pfam13091 867902001172 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 867902001173 putative active site [active] 867902001174 catalytic site [active] 867902001175 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 867902001176 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 867902001177 nucleotide binding region [chemical binding]; other site 867902001178 ATP-binding site [chemical binding]; other site 867902001179 Predicted esterase [General function prediction only]; Region: COG0400 867902001180 putative hydrolase; Provisional; Region: PRK11460 867902001181 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 867902001182 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 867902001183 substrate-cofactor binding pocket; other site 867902001184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902001185 catalytic residue [active] 867902001186 Clp protease; Region: CLP_protease; pfam00574 867902001187 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 867902001188 oligomer interface [polypeptide binding]; other site 867902001189 active site residues [active] 867902001190 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 867902001191 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 867902001192 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 867902001193 GTP-binding protein YchF; Reviewed; Region: PRK09601 867902001194 YchF GTPase; Region: YchF; cd01900 867902001195 G1 box; other site 867902001196 GTP/Mg2+ binding site [chemical binding]; other site 867902001197 Switch I region; other site 867902001198 G2 box; other site 867902001199 Switch II region; other site 867902001200 G3 box; other site 867902001201 G4 box; other site 867902001202 G5 box; other site 867902001203 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 867902001204 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 867902001205 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 867902001206 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 867902001207 GTP-binding protein Der; Reviewed; Region: PRK00093 867902001208 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 867902001209 G1 box; other site 867902001210 GTP/Mg2+ binding site [chemical binding]; other site 867902001211 Switch I region; other site 867902001212 G2 box; other site 867902001213 Switch II region; other site 867902001214 G3 box; other site 867902001215 G4 box; other site 867902001216 G5 box; other site 867902001217 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 867902001218 G1 box; other site 867902001219 GTP/Mg2+ binding site [chemical binding]; other site 867902001220 Switch I region; other site 867902001221 G2 box; other site 867902001222 G3 box; other site 867902001223 Switch II region; other site 867902001224 G4 box; other site 867902001225 G5 box; other site 867902001226 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 867902001227 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 867902001228 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 867902001229 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 867902001230 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 867902001231 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 867902001232 putative substrate translocation pore; other site 867902001233 GTPase Era; Reviewed; Region: era; PRK00089 867902001234 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 867902001235 G1 box; other site 867902001236 GTP/Mg2+ binding site [chemical binding]; other site 867902001237 Switch I region; other site 867902001238 G2 box; other site 867902001239 Switch II region; other site 867902001240 G3 box; other site 867902001241 G4 box; other site 867902001242 G5 box; other site 867902001243 KH domain; Region: KH_2; pfam07650 867902001244 bifunctional pantoate ligase/cytidylate kinase; Provisional; Region: PRK13477 867902001245 muropeptide transporter; Validated; Region: ampG; cl17669 867902001246 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 867902001247 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 867902001248 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 867902001249 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 867902001250 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 867902001251 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 867902001252 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 867902001253 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 867902001254 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 867902001255 substrate binding site [chemical binding]; other site 867902001256 ligand binding site [chemical binding]; other site 867902001257 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 867902001258 substrate binding site [chemical binding]; other site 867902001259 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 867902001260 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 867902001261 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 867902001262 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 867902001263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902001264 catalytic residue [active] 867902001265 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 867902001266 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 867902001267 DNA binding site [nucleotide binding] 867902001268 active site 867902001269 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 867902001270 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 867902001271 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902001272 FtsX-like permease family; Region: FtsX; pfam02687 867902001273 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 867902001274 MutS domain I; Region: MutS_I; pfam01624 867902001275 MutS domain II; Region: MutS_II; pfam05188 867902001276 MutS domain III; Region: MutS_III; pfam05192 867902001277 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 867902001278 Walker A/P-loop; other site 867902001279 ATP binding site [chemical binding]; other site 867902001280 Q-loop/lid; other site 867902001281 ABC transporter signature motif; other site 867902001282 Walker B; other site 867902001283 D-loop; other site 867902001284 H-loop/switch region; other site 867902001285 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 867902001286 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 867902001287 Cl binding site [ion binding]; other site 867902001288 oligomer interface [polypeptide binding]; other site 867902001289 Staphylococcal nuclease homologues; Region: SNc; smart00318 867902001290 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 867902001291 Catalytic site; other site 867902001292 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 867902001293 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 867902001294 putative active site [active] 867902001295 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 867902001296 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 867902001297 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 867902001298 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 867902001299 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 867902001300 Interdomain contacts; other site 867902001301 Cytokine receptor motif; other site 867902001302 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 867902001303 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902001304 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 867902001305 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 867902001306 putative active site [active] 867902001307 putative nucleic acid binding site [nucleotide binding]; other site 867902001308 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 867902001309 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902001310 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 867902001311 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 867902001312 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 867902001313 TRAM domain; Region: TRAM; pfam01938 867902001314 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 867902001315 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 867902001316 S-adenosylmethionine binding site [chemical binding]; other site 867902001317 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 867902001318 dephospho-CoA kinase; Region: TIGR00152 867902001319 CoA-binding site [chemical binding]; other site 867902001320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 867902001321 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 867902001322 dimer interface [polypeptide binding]; other site 867902001323 phosphorylation site [posttranslational modification] 867902001324 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 867902001325 ATP binding site [chemical binding]; other site 867902001326 Mg2+ binding site [ion binding]; other site 867902001327 G-X-G motif; other site 867902001328 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 867902001329 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 867902001330 active site 867902001331 phosphorylation site [posttranslational modification] 867902001332 intermolecular recognition site; other site 867902001333 dimerization interface [polypeptide binding]; other site 867902001334 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 867902001335 DNA binding site [nucleotide binding] 867902001336 Ribosomal_L32_L32e: L32 is a protein from the large subunit that contains a surface-exposed globular domain and a finger-like projection that extends into the RNA core to stabilize the tertiary structure. L32 does not appear to play a role in forming the...; Region: Ribosomal_L32_L32e; cl00748 867902001337 NlpE N-terminal domain; Region: NlpE; pfam04170 867902001338 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 867902001339 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 867902001340 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 867902001341 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 867902001342 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 867902001343 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 867902001344 Beta-lactamase; Region: Beta-lactamase; pfam00144 867902001345 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 867902001346 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 867902001347 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 867902001348 FeoA domain; Region: FeoA; pfam04023 867902001349 Thiamine pyrophosphokinase; Region: TPK; cd07995 867902001350 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 867902001351 active site 867902001352 dimerization interface [polypeptide binding]; other site 867902001353 thiamine binding site [chemical binding]; other site 867902001354 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 867902001355 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 867902001356 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 867902001357 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 867902001358 G1 box; other site 867902001359 GTP/Mg2+ binding site [chemical binding]; other site 867902001360 Switch I region; other site 867902001361 G2 box; other site 867902001362 G3 box; other site 867902001363 Switch II region; other site 867902001364 G4 box; other site 867902001365 G5 box; other site 867902001366 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 867902001367 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 867902001368 cell division protein MraZ; Reviewed; Region: PRK00326 867902001369 MraZ protein; Region: MraZ; pfam02381 867902001370 MraZ protein; Region: MraZ; pfam02381 867902001371 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 867902001372 MraW methylase family; Region: Methyltransf_5; cl17771 867902001373 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 867902001374 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 867902001375 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 867902001376 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 867902001377 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 867902001378 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 867902001379 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 867902001380 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 867902001381 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 867902001382 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 867902001383 Mg++ binding site [ion binding]; other site 867902001384 putative catalytic motif [active] 867902001385 putative substrate binding site [chemical binding]; other site 867902001386 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 867902001387 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 867902001388 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 867902001389 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 867902001390 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 867902001391 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 867902001392 active site 867902001393 homodimer interface [polypeptide binding]; other site 867902001394 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 867902001395 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 867902001396 NAD binding site [chemical binding]; other site 867902001397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 867902001398 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 867902001399 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 867902001400 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 867902001401 Cell division protein FtsA; Region: FtsA; smart00842 867902001402 Cell division protein FtsA; Region: FtsA; pfam14450 867902001403 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 867902001404 cell division protein FtsZ; Validated; Region: PRK09330 867902001405 nucleotide binding site [chemical binding]; other site 867902001406 SulA interaction site; other site 867902001407 Yqey-like protein; Region: YqeY; pfam09424 867902001408 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 867902001409 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 867902001410 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 867902001411 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 867902001412 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 867902001413 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 867902001414 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 867902001415 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902001416 sugar binding site [chemical binding]; other site 867902001417 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 867902001418 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902001419 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 867902001420 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 867902001421 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 867902001422 motif II; other site 867902001423 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 867902001424 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 867902001425 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 867902001426 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902001427 Phosphotransferase enzyme family; Region: APH; pfam01636 867902001428 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 867902001429 active site 867902001430 substrate binding site [chemical binding]; other site 867902001431 ATP binding site [chemical binding]; other site 867902001432 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 867902001433 active site 867902001434 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 867902001435 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 867902001436 active site 867902001437 trimer interface [polypeptide binding]; other site 867902001438 allosteric site; other site 867902001439 active site lid [active] 867902001440 hexamer (dimer of trimers) interface [polypeptide binding]; other site 867902001441 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 867902001442 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 867902001443 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 867902001444 ATP binding site [chemical binding]; other site 867902001445 Mg2+ binding site [ion binding]; other site 867902001446 G-X-G motif; other site 867902001447 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 867902001448 anchoring element; other site 867902001449 dimer interface [polypeptide binding]; other site 867902001450 ATP binding site [chemical binding]; other site 867902001451 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 867902001452 active site 867902001453 putative metal-binding site [ion binding]; other site 867902001454 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 867902001455 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 867902001456 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 867902001457 Ligand Binding Site [chemical binding]; other site 867902001458 Endonuclease I; Region: Endonuclease_1; cl01003 867902001459 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 867902001460 Interdomain contacts; other site 867902001461 Cytokine receptor motif; other site 867902001462 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 867902001463 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902001464 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902001465 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 867902001466 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 867902001467 CoA-ligase; Region: Ligase_CoA; pfam00549 867902001468 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 867902001469 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 867902001470 alanine racemase; Reviewed; Region: alr; PRK00053 867902001471 active site 867902001472 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 867902001473 dimer interface [polypeptide binding]; other site 867902001474 substrate binding site [chemical binding]; other site 867902001475 catalytic residues [active] 867902001476 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 867902001477 Aspartase; Region: Aspartase; cd01357 867902001478 active sites [active] 867902001479 tetramer interface [polypeptide binding]; other site 867902001480 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 867902001481 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 867902001482 trimer interface [polypeptide binding]; other site 867902001483 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 867902001484 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 867902001485 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 867902001486 catalytic triad [active] 867902001487 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 867902001488 intersubunit interface [polypeptide binding]; other site 867902001489 active site 867902001490 catalytic residue [active] 867902001491 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 867902001492 putative catalytic site [active] 867902001493 putative metal binding site [ion binding]; other site 867902001494 putative phosphate binding site [ion binding]; other site 867902001495 Rrf2 family protein; Region: rrf2_super; TIGR00738 867902001496 Transcriptional regulator; Region: Rrf2; pfam02082 867902001497 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 867902001498 heme-binding site [chemical binding]; other site 867902001499 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 867902001500 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 867902001501 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 867902001502 active site 867902001503 homodimer interface [polypeptide binding]; other site 867902001504 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 867902001505 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 867902001506 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 867902001507 hypothetical protein; Provisional; Region: PRK12378 867902001508 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 867902001509 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 867902001510 ferrochelatase; Reviewed; Region: hemH; PRK00035 867902001511 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 867902001512 C-terminal domain interface [polypeptide binding]; other site 867902001513 active site 867902001514 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 867902001515 active site 867902001516 N-terminal domain interface [polypeptide binding]; other site 867902001517 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 867902001518 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 867902001519 Walker A motif; other site 867902001520 ATP binding site [chemical binding]; other site 867902001521 Walker B motif; other site 867902001522 arginine finger; other site 867902001523 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 867902001524 malate dehydrogenase; Reviewed; Region: PRK06223 867902001525 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 867902001526 dimer interface [polypeptide binding]; other site 867902001527 NAD(P) binding site [chemical binding]; other site 867902001528 tetramer (dimer of dimers) interface [polypeptide binding]; other site 867902001529 substrate binding site [chemical binding]; other site 867902001530 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 867902001531 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 867902001532 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 867902001533 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 867902001534 substrate binding site [chemical binding]; other site 867902001535 oxyanion hole (OAH) forming residues; other site 867902001536 trimer interface [polypeptide binding]; other site 867902001537 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 867902001538 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 867902001539 substrate binding site [chemical binding]; other site 867902001540 oxyanion hole (OAH) forming residues; other site 867902001541 trimer interface [polypeptide binding]; other site 867902001542 DNA polymerase I; Provisional; Region: PRK05755 867902001543 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 867902001544 active site 867902001545 metal binding site 1 [ion binding]; metal-binding site 867902001546 putative 5' ssDNA interaction site; other site 867902001547 metal binding site 3; metal-binding site 867902001548 metal binding site 2 [ion binding]; metal-binding site 867902001549 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 867902001550 putative DNA binding site [nucleotide binding]; other site 867902001551 putative metal binding site [ion binding]; other site 867902001552 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 867902001553 active site 867902001554 catalytic site [active] 867902001555 substrate binding site [chemical binding]; other site 867902001556 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 867902001557 active site 867902001558 DNA binding site [nucleotide binding] 867902001559 catalytic site [active] 867902001560 Sel1 repeat; Region: Sel1; cl02723 867902001561 TPR repeat; Region: TPR_11; pfam13414 867902001562 Sel1-like repeats; Region: SEL1; smart00671 867902001563 TPR repeat; Region: TPR_11; pfam13414 867902001564 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 867902001565 binding surface 867902001566 TPR motif; other site 867902001567 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 867902001568 DHH family; Region: DHH; pfam01368 867902001569 DHHA1 domain; Region: DHHA1; pfam02272 867902001570 MG2 domain; Region: A2M_N; pfam01835 867902001571 Alpha-2-macroglobulin family; Region: A2M; pfam00207 867902001572 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 867902001573 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 867902001574 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 867902001575 inhibitor-cofactor binding pocket; inhibition site 867902001576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902001577 catalytic residue [active] 867902001578 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 867902001579 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 867902001580 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 867902001581 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 867902001582 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 867902001583 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902001584 catalytic residue [active] 867902001585 Helix-turn-helix domain; Region: HTH_17; cl17695 867902001586 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 867902001587 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902001588 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902001589 Integrase core domain; Region: rve; pfam00665 867902001590 periplasmic chaperone; Provisional; Region: PRK10780 867902001591 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 867902001592 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 867902001593 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 867902001594 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 867902001595 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 867902001596 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 867902001597 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 867902001598 Surface antigen; Region: Bac_surface_Ag; pfam01103 867902001599 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 867902001600 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 867902001601 catalytic residue [active] 867902001602 putative FPP diphosphate binding site; other site 867902001603 putative FPP binding hydrophobic cleft; other site 867902001604 dimer interface [polypeptide binding]; other site 867902001605 putative IPP diphosphate binding site; other site 867902001606 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902001607 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 867902001608 ATP-NAD kinase; Region: NAD_kinase; pfam01513 867902001609 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 867902001610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 867902001611 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 867902001612 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 867902001613 purine monophosphate binding site [chemical binding]; other site 867902001614 dimer interface [polypeptide binding]; other site 867902001615 putative catalytic residues [active] 867902001616 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 867902001617 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 867902001618 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 867902001619 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 867902001620 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 867902001621 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 867902001622 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 867902001623 Transglycosylase; Region: Transgly; cl17702 867902001624 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902001625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 867902001626 active site 867902001627 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 867902001628 active site 867902001629 dimer interface [polypeptide binding]; other site 867902001630 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 867902001631 Dihydroorotate dehydrogenase (DHOD) class 1A 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_1A_like; cd04741 867902001632 active site 867902001633 FMN binding site [chemical binding]; other site 867902001634 substrate binding site [chemical binding]; other site 867902001635 catalytic residues [active] 867902001636 homodimer interface [polypeptide binding]; other site 867902001637 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 867902001638 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 867902001639 RNA binding site [nucleotide binding]; other site 867902001640 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 867902001641 RNA binding site [nucleotide binding]; other site 867902001642 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 867902001643 RNA binding site [nucleotide binding]; other site 867902001644 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 867902001645 RNA binding site [nucleotide binding]; other site 867902001646 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 867902001647 RNA binding site [nucleotide binding]; other site 867902001648 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 867902001649 RNA binding site [nucleotide binding]; other site 867902001650 Protein of unknown function (DUF805); Region: DUF805; pfam05656 867902001651 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902001652 hypothetical protein; Reviewed; Region: PRK00024 867902001653 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 867902001654 MPN+ (JAMM) motif; other site 867902001655 Zinc-binding site [ion binding]; other site 867902001656 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 867902001657 GH3 auxin-responsive promoter; Region: GH3; pfam03321 867902001658 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 867902001659 Peptidase family M23; Region: Peptidase_M23; pfam01551 867902001660 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 867902001661 TPR motif; other site 867902001662 binding surface 867902001663 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 867902001664 diphosphomevalonate decarboxylase; Region: PLN02407 867902001665 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 867902001666 Helix-turn-helix domain; Region: HTH_17; cl17695 867902001667 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 867902001668 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902001669 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902001670 Integrase core domain; Region: rve; pfam00665 867902001671 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 867902001672 lipoyl attachment site [posttranslational modification]; other site 867902001673 cell surface protein SprA; Region: surface_SprA; TIGR04189 867902001674 Motility related/secretion protein; Region: SprA_N; pfam14349 867902001675 Motility related/secretion protein; Region: SprA_N; pfam14349 867902001676 Motility related/secretion protein; Region: SprA_N; pfam14349 867902001677 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 867902001678 RuvA N terminal domain; Region: RuvA_N; pfam01330 867902001679 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 867902001680 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 867902001681 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 867902001682 dimer interface [polypeptide binding]; other site 867902001683 decamer (pentamer of dimers) interface [polypeptide binding]; other site 867902001684 catalytic triad [active] 867902001685 peroxidatic and resolving cysteines [active] 867902001686 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 867902001687 catalytic residues [active] 867902001688 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 867902001689 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902001690 active site 867902001691 HIGH motif; other site 867902001692 nucleotide binding site [chemical binding]; other site 867902001693 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902001694 active site 867902001695 KMSKS motif; other site 867902001696 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 867902001697 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 867902001698 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 867902001699 Low-spin heme binding site [chemical binding]; other site 867902001700 Putative water exit pathway; other site 867902001701 Binuclear center (active site) [active] 867902001702 Putative proton exit pathway; other site 867902001703 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 867902001704 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 867902001705 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 867902001706 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 867902001707 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 867902001708 4Fe-4S binding domain; Region: Fer4_5; pfam12801 867902001709 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 867902001710 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 867902001711 FixH; Region: FixH; pfam05751 867902001712 Family description; Region: DsbD_2; pfam13386 867902001713 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 867902001714 A new structural DNA glycosylase; Region: AlkD_like; cd06561 867902001715 active site 867902001716 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 867902001717 CoA binding domain; Region: CoA_binding; smart00881 867902001718 CoA-ligase; Region: Ligase_CoA; pfam00549 867902001719 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902001720 thymidine kinase; Provisional; Region: PRK04296 867902001721 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 867902001722 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 867902001723 active site 867902001724 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 867902001725 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 867902001726 hexamer interface [polypeptide binding]; other site 867902001727 Walker A motif; other site 867902001728 ATP binding site [chemical binding]; other site 867902001729 Walker B motif; other site 867902001730 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 867902001731 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 867902001732 catalytic triad [active] 867902001733 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 867902001734 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 867902001735 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902001736 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 867902001737 POT family; Region: PTR2; cl17359 867902001738 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 867902001739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 867902001740 putative substrate translocation pore; other site 867902001741 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 867902001742 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 867902001743 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 867902001744 POT family; Region: PTR2; cl17359 867902001745 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 867902001746 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 867902001747 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 867902001748 AMP binding site [chemical binding]; other site 867902001749 metal binding site [ion binding]; metal-binding site 867902001750 active site 867902001751 Dehydroquinase class II; Region: DHquinase_II; pfam01220 867902001752 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 867902001753 trimer interface [polypeptide binding]; other site 867902001754 active site 867902001755 dimer interface [polypeptide binding]; other site 867902001756 exonuclease subunit SbcD; Provisional; Region: PRK10966 867902001757 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 867902001758 active site 867902001759 metal binding site [ion binding]; metal-binding site 867902001760 DNA binding site [nucleotide binding] 867902001761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902001762 AAA domain; Region: AAA_23; pfam13476 867902001763 Walker A/P-loop; other site 867902001764 ATP binding site [chemical binding]; other site 867902001765 Q-loop/lid; other site 867902001766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902001767 ABC transporter signature motif; other site 867902001768 Walker B; other site 867902001769 D-loop; other site 867902001770 H-loop/switch region; other site 867902001771 TM2 domain; Region: TM2; cl00984 867902001772 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 867902001773 active site residue [active] 867902001774 RDD family; Region: RDD; pfam06271 867902001775 Integral membrane protein DUF95; Region: DUF95; pfam01944 867902001776 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 867902001777 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 867902001778 Switch I region; other site 867902001779 G3 box; other site 867902001780 MoxR-like ATPases [General function prediction only]; Region: COG0714 867902001781 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 867902001782 Walker A motif; other site 867902001783 ATP binding site [chemical binding]; other site 867902001784 Walker B motif; other site 867902001785 arginine finger; other site 867902001786 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 867902001787 Protein of unknown function DUF58; Region: DUF58; pfam01882 867902001788 GTP-binding protein LepA; Provisional; Region: PRK05433 867902001789 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 867902001790 G1 box; other site 867902001791 putative GEF interaction site [polypeptide binding]; other site 867902001792 GTP/Mg2+ binding site [chemical binding]; other site 867902001793 Switch I region; other site 867902001794 G2 box; other site 867902001795 G3 box; other site 867902001796 Switch II region; other site 867902001797 G4 box; other site 867902001798 G5 box; other site 867902001799 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 867902001800 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 867902001801 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 867902001802 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 867902001803 Protein of unknown function (DUF983); Region: DUF983; cl02211 867902001804 Protein of unknown function (DUF805); Region: DUF805; pfam05656 867902001805 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 867902001806 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 867902001807 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 867902001808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902001809 AAA domain; Region: AAA_21; pfam13304 867902001810 Walker A/P-loop; other site 867902001811 ATP binding site [chemical binding]; other site 867902001812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 867902001813 Walker B; other site 867902001814 D-loop; other site 867902001815 H-loop/switch region; other site 867902001816 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 867902001817 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902001818 fumarate hydratase; Reviewed; Region: fumC; PRK00485 867902001819 Class II fumarases; Region: Fumarase_classII; cd01362 867902001820 active site 867902001821 tetramer interface [polypeptide binding]; other site 867902001822 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902001823 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 867902001824 Sulfatase; Region: Sulfatase; pfam00884 867902001825 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 867902001826 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 867902001827 Sulfate transporter family; Region: Sulfate_transp; pfam00916 867902001828 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 867902001829 active site clefts [active] 867902001830 zinc binding site [ion binding]; other site 867902001831 dimer interface [polypeptide binding]; other site 867902001832 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 867902001833 active site 867902001834 catalytic site [active] 867902001835 substrate binding site [chemical binding]; other site 867902001836 Flagellin N-methylase; Region: FliB; pfam03692 867902001837 Predicted methyltransferases [General function prediction only]; Region: COG0313 867902001838 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 867902001839 putative SAM binding site [chemical binding]; other site 867902001840 putative homodimer interface [polypeptide binding]; other site 867902001841 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 867902001842 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 867902001843 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 867902001844 trimer interface [polypeptide binding]; other site 867902001845 active site 867902001846 UDP-GlcNAc binding site [chemical binding]; other site 867902001847 lipid binding site [chemical binding]; lipid-binding site 867902001848 aspartate aminotransferase; Provisional; Region: PRK05764 867902001849 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 867902001850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902001851 homodimer interface [polypeptide binding]; other site 867902001852 catalytic residue [active] 867902001853 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 867902001854 Heavy-metal-associated domain; Region: HMA; pfam00403 867902001855 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 867902001856 metal-binding site [ion binding] 867902001857 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 867902001858 Soluble P-type ATPase [General function prediction only]; Region: COG4087 867902001859 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 867902001860 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 867902001861 ligand binding site [chemical binding]; other site 867902001862 flexible hinge region; other site 867902001863 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 867902001864 putative switch regulator; other site 867902001865 non-specific DNA interactions [nucleotide binding]; other site 867902001866 DNA binding site [nucleotide binding] 867902001867 sequence specific DNA binding site [nucleotide binding]; other site 867902001868 putative cAMP binding site [chemical binding]; other site 867902001869 Peptidase family M48; Region: Peptidase_M48; cl12018 867902001870 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 867902001871 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 867902001872 G1 box; other site 867902001873 GTP/Mg2+ binding site [chemical binding]; other site 867902001874 Switch I region; other site 867902001875 G2 box; other site 867902001876 G3 box; other site 867902001877 Switch II region; other site 867902001878 G4 box; other site 867902001879 G5 box; other site 867902001880 Nucleoside recognition; Region: Gate; pfam07670 867902001881 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 867902001882 Nucleoside recognition; Region: Gate; pfam07670 867902001883 FeoA domain; Region: FeoA; pfam04023 867902001884 Lyase, N terminal; Region: Lyase_N; pfam09092 867902001885 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 867902001886 substrate binding site [chemical binding]; other site 867902001887 catalytic residues [active] 867902001888 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 867902001889 substrate binding site [chemical binding]; other site 867902001890 catalytic residues [active] 867902001891 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 867902001892 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 867902001893 active site 867902001894 intersubunit interface [polypeptide binding]; other site 867902001895 catalytic residue [active] 867902001896 Histidine kinase; Region: His_kinase; pfam06580 867902001897 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 867902001898 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 867902001899 active site 867902001900 phosphorylation site [posttranslational modification] 867902001901 intermolecular recognition site; other site 867902001902 dimerization interface [polypeptide binding]; other site 867902001903 LytTr DNA-binding domain; Region: LytTR; smart00850 867902001904 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 867902001905 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 867902001906 Tetramer interface [polypeptide binding]; other site 867902001907 active site 867902001908 FMN-binding site [chemical binding]; other site 867902001909 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 867902001910 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 867902001911 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 867902001912 HIGH motif; other site 867902001913 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 867902001914 active site 867902001915 KMSKS motif; other site 867902001916 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 867902001917 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902001918 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 867902001919 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 867902001920 metal binding site [ion binding]; metal-binding site 867902001921 dimer interface [polypeptide binding]; other site 867902001922 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 867902001923 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 867902001924 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902001925 Peptidase M60-like family; Region: M60-like; pfam13402 867902001926 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 867902001927 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 867902001928 minor groove reading motif; other site 867902001929 helix-hairpin-helix signature motif; other site 867902001930 substrate binding pocket [chemical binding]; other site 867902001931 active site 867902001932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 867902001933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 867902001934 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 867902001935 putative dimerization interface [polypeptide binding]; other site 867902001936 Predicted membrane protein [Function unknown]; Region: COG2855 867902001937 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902001938 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 867902001939 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 867902001940 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 867902001941 Hemerythrin-like domain; Region: Hr-like; cd12108 867902001942 peptide chain release factor 2; Validated; Region: prfB; PRK00578 867902001943 This domain is found in peptide chain release factors; Region: PCRF; smart00937 867902001944 RF-1 domain; Region: RF-1; pfam00472 867902001945 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 867902001946 ATP-grasp domain; Region: ATP-grasp_4; cl17255 867902001947 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 867902001948 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 867902001949 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 867902001950 hexamer interface [polypeptide binding]; other site 867902001951 ligand binding site [chemical binding]; other site 867902001952 putative active site [active] 867902001953 NAD(P) binding site [chemical binding]; other site 867902001954 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 867902001955 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 867902001956 homodimer interface [polypeptide binding]; other site 867902001957 catalytic residues [active] 867902001958 NAD binding site [chemical binding]; other site 867902001959 substrate binding pocket [chemical binding]; other site 867902001960 flexible flap; other site 867902001961 Type III pantothenate kinase; Region: Pan_kinase; cl17198 867902001962 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 867902001963 Zn binding site [ion binding]; other site 867902001964 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 867902001965 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 867902001966 G1 box; other site 867902001967 putative GEF interaction site [polypeptide binding]; other site 867902001968 GTP/Mg2+ binding site [chemical binding]; other site 867902001969 Switch I region; other site 867902001970 G2 box; other site 867902001971 G3 box; other site 867902001972 Switch II region; other site 867902001973 G4 box; other site 867902001974 G5 box; other site 867902001975 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 867902001976 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 867902001977 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902001978 starch binding outer membrane protein SusD; Region: SusD; cl17845 867902001979 SusD family; Region: SusD; pfam07980 867902001980 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902001981 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902001982 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902001983 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 867902001984 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 867902001985 Walker A/P-loop; other site 867902001986 ATP binding site [chemical binding]; other site 867902001987 Q-loop/lid; other site 867902001988 ABC transporter signature motif; other site 867902001989 Walker B; other site 867902001990 D-loop; other site 867902001991 H-loop/switch region; other site 867902001992 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 867902001993 HlyD family secretion protein; Region: HlyD_3; pfam13437 867902001994 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902001995 FtsX-like permease family; Region: FtsX; pfam02687 867902001996 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 867902001997 Ion channel; Region: Ion_trans_2; pfam07885 867902001998 TrkA-N domain; Region: TrkA_N; pfam02254 867902001999 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 867902002000 putative active site [active] 867902002001 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 867902002002 active site 867902002003 GSCFA family; Region: GSCFA; pfam08885 867902002004 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 867902002005 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 867902002006 substrate binding pocket [chemical binding]; other site 867902002007 chain length determination region; other site 867902002008 substrate-Mg2+ binding site; other site 867902002009 catalytic residues [active] 867902002010 aspartate-rich region 1; other site 867902002011 active site lid residues [active] 867902002012 aspartate-rich region 2; other site 867902002013 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 867902002014 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 867902002015 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 867902002016 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 867902002017 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 867902002018 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 867902002019 rod shape-determining protein MreC; Provisional; Region: PRK13922 867902002020 rod shape-determining protein MreC; Region: MreC; pfam04085 867902002021 rod shape-determining protein MreB; Provisional; Region: PRK13927 867902002022 MreB and similar proteins; Region: MreB_like; cd10225 867902002023 nucleotide binding site [chemical binding]; other site 867902002024 Mg binding site [ion binding]; other site 867902002025 putative protofilament interaction site [polypeptide binding]; other site 867902002026 RodZ interaction site [polypeptide binding]; other site 867902002027 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902002028 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902002029 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902002030 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902002031 Rhomboid family; Region: Rhomboid; cl11446 867902002032 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 867902002033 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 867902002034 CAP-like domain; other site 867902002035 active site 867902002036 primary dimer interface [polypeptide binding]; other site 867902002037 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 867902002038 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 867902002039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902002040 Walker A/P-loop; other site 867902002041 ATP binding site [chemical binding]; other site 867902002042 Q-loop/lid; other site 867902002043 ABC transporter signature motif; other site 867902002044 Walker B; other site 867902002045 D-loop; other site 867902002046 H-loop/switch region; other site 867902002047 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902002048 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902002049 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902002050 ligand binding site [chemical binding]; other site 867902002051 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 867902002052 catalytic center binding site [active] 867902002053 ATP binding site [chemical binding]; other site 867902002054 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 867902002055 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 867902002056 HflX GTPase family; Region: HflX; cd01878 867902002057 G1 box; other site 867902002058 GTP/Mg2+ binding site [chemical binding]; other site 867902002059 Switch I region; other site 867902002060 G2 box; other site 867902002061 G3 box; other site 867902002062 Switch II region; other site 867902002063 G4 box; other site 867902002064 Bacterial sugar transferase; Region: Bac_transf; pfam02397 867902002065 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 867902002066 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 867902002067 putative trimer interface [polypeptide binding]; other site 867902002068 putative CoA binding site [chemical binding]; other site 867902002069 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 867902002070 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 867902002071 inhibitor-cofactor binding pocket; inhibition site 867902002072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902002073 catalytic residue [active] 867902002074 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 867902002075 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 867902002076 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 867902002077 NAD(P) binding site [chemical binding]; other site 867902002078 homodimer interface [polypeptide binding]; other site 867902002079 substrate binding site [chemical binding]; other site 867902002080 active site 867902002081 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 867902002082 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 867902002083 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 867902002084 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 867902002085 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 867902002086 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 867902002087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902002088 Walker A/P-loop; other site 867902002089 ATP binding site [chemical binding]; other site 867902002090 Q-loop/lid; other site 867902002091 ABC transporter signature motif; other site 867902002092 Walker B; other site 867902002093 D-loop; other site 867902002094 H-loop/switch region; other site 867902002095 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 867902002096 ligand binding site; other site 867902002097 tetramer interface; other site 867902002098 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 867902002099 putative glycosyl transferase; Provisional; Region: PRK10073 867902002100 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 867902002101 active site 867902002102 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 867902002103 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 867902002104 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 867902002105 active site 867902002106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 867902002107 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 867902002108 putative ADP-binding pocket [chemical binding]; other site 867902002109 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 867902002110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 867902002111 putative ADP-binding pocket [chemical binding]; other site 867902002112 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 867902002113 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 867902002114 NAD binding site [chemical binding]; other site 867902002115 substrate binding site [chemical binding]; other site 867902002116 homodimer interface [polypeptide binding]; other site 867902002117 active site 867902002118 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 867902002119 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 867902002120 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 867902002121 substrate binding site; other site 867902002122 tetramer interface; other site 867902002123 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 867902002124 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 867902002125 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 867902002126 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 867902002127 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 867902002128 putative hydrolase; Provisional; Region: PRK02113 867902002129 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 867902002130 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 867902002131 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 867902002132 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902002133 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902002134 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 867902002135 binding surface 867902002136 TPR motif; other site 867902002137 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 867902002138 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 867902002139 binding surface 867902002140 TPR motif; other site 867902002141 Tetratricopeptide repeat; Region: TPR_16; pfam13432 867902002142 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 867902002143 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 867902002144 binding surface 867902002145 TPR motif; other site 867902002146 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 867902002147 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 867902002148 dimer interface [polypeptide binding]; other site 867902002149 allosteric magnesium binding site [ion binding]; other site 867902002150 active site 867902002151 aspartate-rich active site metal binding site; other site 867902002152 Schiff base residues; other site 867902002153 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 867902002154 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 867902002155 NADP binding site [chemical binding]; other site 867902002156 homodimer interface [polypeptide binding]; other site 867902002157 active site 867902002158 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 867902002159 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 867902002160 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 867902002161 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 867902002162 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902002163 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002164 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902002165 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 867902002166 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902002167 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 867902002168 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 867902002169 substrate binding site [chemical binding]; other site 867902002170 ATP binding site [chemical binding]; other site 867902002171 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 867902002172 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 867902002173 active site 867902002174 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 867902002175 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 867902002176 ATP binding site [chemical binding]; other site 867902002177 active site 867902002178 substrate binding site [chemical binding]; other site 867902002179 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 867902002180 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 867902002181 dimerization interface [polypeptide binding]; other site 867902002182 putative ATP binding site [chemical binding]; other site 867902002183 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 867902002184 Oxygen tolerance; Region: BatD; pfam13584 867902002185 Aerotolerance regulator N-terminal; Region: BatA; cl06567 867902002186 von Willebrand factor type A domain; Region: VWA_2; pfam13519 867902002187 metal ion-dependent adhesion site (MIDAS); other site 867902002188 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 867902002189 metal ion-dependent adhesion site (MIDAS); other site 867902002190 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 867902002191 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 867902002192 metal ion-dependent adhesion site (MIDAS); other site 867902002193 MoxR-like ATPases [General function prediction only]; Region: COG0714 867902002194 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 867902002195 Walker A motif; other site 867902002196 ATP binding site [chemical binding]; other site 867902002197 Walker B motif; other site 867902002198 arginine finger; other site 867902002199 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 867902002200 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 867902002201 dimer interface [polypeptide binding]; other site 867902002202 motif 1; other site 867902002203 active site 867902002204 motif 2; other site 867902002205 motif 3; other site 867902002206 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 867902002207 anticodon binding site; other site 867902002208 elongation factor P; Validated; Region: PRK00529 867902002209 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 867902002210 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 867902002211 RNA binding site [nucleotide binding]; other site 867902002212 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 867902002213 RNA binding site [nucleotide binding]; other site 867902002214 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 867902002215 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 867902002216 active site 867902002217 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 867902002218 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 867902002219 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 867902002220 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 867902002221 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 867902002222 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 867902002223 trimer interface [polypeptide binding]; other site 867902002224 active site 867902002225 UDP-GlcNAc binding site [chemical binding]; other site 867902002226 lipid binding site [chemical binding]; lipid-binding site 867902002227 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 867902002228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 867902002229 Zn2+ binding site [ion binding]; other site 867902002230 Mg2+ binding site [ion binding]; other site 867902002231 Response regulator receiver domain; Region: Response_reg; pfam00072 867902002232 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 867902002233 active site 867902002234 phosphorylation site [posttranslational modification] 867902002235 intermolecular recognition site; other site 867902002236 dimerization interface [polypeptide binding]; other site 867902002237 PglZ domain; Region: PglZ; pfam08665 867902002238 glutamate racemase; Provisional; Region: PRK00865 867902002239 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 867902002240 HemN C-terminal domain; Region: HemN_C; pfam06969 867902002241 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 867902002242 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902002243 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902002244 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 867902002245 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 867902002246 substrate binding site [chemical binding]; other site 867902002247 ATP binding site [chemical binding]; other site 867902002248 Protein of unknown function (DUF456); Region: DUF456; pfam04306 867902002249 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 867902002250 active site 867902002251 hydrophilic channel; other site 867902002252 dimerization interface [polypeptide binding]; other site 867902002253 catalytic residues [active] 867902002254 active site lid [active] 867902002255 Putative serine esterase (DUF676); Region: DUF676; pfam05057 867902002256 acyl-CoA esterase; Provisional; Region: PRK10673 867902002257 PEGA domain; Region: PEGA; pfam08308 867902002258 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 867902002259 non-specific DNA binding site [nucleotide binding]; other site 867902002260 salt bridge; other site 867902002261 sequence-specific DNA binding site [nucleotide binding]; other site 867902002262 Domain of unknown function (DUF389); Region: DUF389; pfam04087 867902002263 ribonuclease R; Region: RNase_R; TIGR02063 867902002264 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 867902002265 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 867902002266 RNB domain; Region: RNB; pfam00773 867902002267 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 867902002268 RNA binding site [nucleotide binding]; other site 867902002269 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 867902002270 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 867902002271 Substrate binding site; other site 867902002272 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 867902002273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902002274 Walker A/P-loop; other site 867902002275 ATP binding site [chemical binding]; other site 867902002276 Q-loop/lid; other site 867902002277 ABC transporter signature motif; other site 867902002278 Walker B; other site 867902002279 D-loop; other site 867902002280 H-loop/switch region; other site 867902002281 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 867902002282 Permease; Region: Permease; pfam02405 867902002283 recombination factor protein RarA; Reviewed; Region: PRK13342 867902002284 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 867902002285 Walker A motif; other site 867902002286 ATP binding site [chemical binding]; other site 867902002287 Walker B motif; other site 867902002288 arginine finger; other site 867902002289 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 867902002290 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 867902002291 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 867902002292 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 867902002293 S-adenosylmethionine binding site [chemical binding]; other site 867902002294 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 867902002295 TrkA-N domain; Region: TrkA_N; pfam02254 867902002296 TrkA-C domain; Region: TrkA_C; pfam02080 867902002297 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 867902002298 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 867902002299 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 867902002300 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 867902002301 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 867902002302 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 867902002303 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 867902002304 active site 867902002305 nucleophile elbow; other site 867902002306 Surface antigen; Region: Bac_surface_Ag; pfam01103 867902002307 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 867902002308 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 867902002309 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 867902002310 Methyltransferase domain; Region: Methyltransf_23; pfam13489 867902002311 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 867902002312 S-adenosylmethionine binding site [chemical binding]; other site 867902002313 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902002314 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902002315 ligand binding site [chemical binding]; other site 867902002316 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 867902002317 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 867902002318 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 867902002319 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 867902002320 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 867902002321 trimer interface [polypeptide binding]; other site 867902002322 putative metal binding site [ion binding]; other site 867902002323 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 867902002324 aspartate kinase; Validated; Region: PRK08841 867902002325 nucleotide binding site [chemical binding]; other site 867902002326 substrate binding site [chemical binding]; other site 867902002327 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 867902002328 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 867902002329 putative acyl-acceptor binding pocket; other site 867902002330 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 867902002331 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 867902002332 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 867902002333 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 867902002334 Histidine carboxylase PI chain; Region: HDC; cl03540 867902002335 Maf-like protein; Region: Maf; pfam02545 867902002336 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 867902002337 active site 867902002338 dimer interface [polypeptide binding]; other site 867902002339 Peptidase family M48; Region: Peptidase_M48; cl12018 867902002340 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 867902002341 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 867902002342 HIGH motif; other site 867902002343 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 867902002344 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902002345 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902002346 active site 867902002347 KMSKS motif; other site 867902002348 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 867902002349 tRNA binding surface [nucleotide binding]; other site 867902002350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 867902002351 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 867902002352 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 867902002353 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 867902002354 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 867902002355 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 867902002356 active site 867902002357 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 867902002358 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 867902002359 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 867902002360 Substrate binding site; other site 867902002361 metal-binding site 867902002362 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 867902002363 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 867902002364 homopentamer interface [polypeptide binding]; other site 867902002365 active site 867902002366 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 867902002367 RNA/DNA hybrid binding site [nucleotide binding]; other site 867902002368 active site 867902002369 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902002370 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902002371 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002372 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 867902002373 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 867902002374 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 867902002375 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 867902002376 active site 867902002377 phosphorylation site [posttranslational modification] 867902002378 intermolecular recognition site; other site 867902002379 dimerization interface [polypeptide binding]; other site 867902002380 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 867902002381 DNA binding site [nucleotide binding] 867902002382 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 867902002383 dimer interface [polypeptide binding]; other site 867902002384 phosphorylation site [posttranslational modification] 867902002385 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 867902002386 ATP binding site [chemical binding]; other site 867902002387 Mg2+ binding site [ion binding]; other site 867902002388 G-X-G motif; other site 867902002389 hypothetical protein; Reviewed; Region: PRK12497 867902002390 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 867902002391 dimer interface [polypeptide binding]; other site 867902002392 catalytic triad [active] 867902002393 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 867902002394 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902002395 active site 867902002396 HIGH motif; other site 867902002397 nucleotide binding site [chemical binding]; other site 867902002398 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 867902002399 KMSKS motif; other site 867902002400 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 867902002401 tRNA binding surface [nucleotide binding]; other site 867902002402 anticodon binding site; other site 867902002403 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 867902002404 GTP cyclohydrolase I; Provisional; Region: PLN03044 867902002405 active site 867902002406 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902002407 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 867902002408 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 867902002409 active site 867902002410 NTP binding site [chemical binding]; other site 867902002411 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 867902002412 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902002413 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 867902002414 Sm and related proteins; Region: Sm_like; cl00259 867902002415 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 867902002416 putative oligomer interface [polypeptide binding]; other site 867902002417 putative RNA binding site [nucleotide binding]; other site 867902002418 transcription termination factor NusA; Region: NusA; TIGR01953 867902002419 NusA N-terminal domain; Region: NusA_N; pfam08529 867902002420 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 867902002421 RNA binding site [nucleotide binding]; other site 867902002422 homodimer interface [polypeptide binding]; other site 867902002423 NusA-like KH domain; Region: KH_5; pfam13184 867902002424 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 867902002425 G-X-X-G motif; other site 867902002426 translation initiation factor IF-2; Region: IF-2; TIGR00487 867902002427 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 867902002428 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 867902002429 G1 box; other site 867902002430 putative GEF interaction site [polypeptide binding]; other site 867902002431 GTP/Mg2+ binding site [chemical binding]; other site 867902002432 Switch I region; other site 867902002433 G2 box; other site 867902002434 G3 box; other site 867902002435 Switch II region; other site 867902002436 G4 box; other site 867902002437 G5 box; other site 867902002438 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 867902002439 Translation-initiation factor 2; Region: IF-2; pfam11987 867902002440 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 867902002441 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902002442 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002443 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902002444 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 867902002445 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 867902002446 starch binding outer membrane protein SusD; Region: SusD; cl17845 867902002447 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002448 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 867902002449 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 867902002450 putative catalytic site [active] 867902002451 putative metal binding site [ion binding]; other site 867902002452 putative phosphate binding site [ion binding]; other site 867902002453 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 867902002454 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 867902002455 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 867902002456 minor groove reading motif; other site 867902002457 helix-hairpin-helix signature motif; other site 867902002458 substrate binding pocket [chemical binding]; other site 867902002459 active site 867902002460 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 867902002461 DNA binding and oxoG recognition site [nucleotide binding] 867902002462 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 867902002463 IHF - DNA interface [nucleotide binding]; other site 867902002464 IHF dimer interface [polypeptide binding]; other site 867902002465 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 867902002466 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 867902002467 homodimer interface [polypeptide binding]; other site 867902002468 oligonucleotide binding site [chemical binding]; other site 867902002469 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 867902002470 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 867902002471 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 867902002472 active site 867902002473 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 867902002474 active site 867902002475 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 867902002476 putative active site [active] 867902002477 putative metal binding site [ion binding]; other site 867902002478 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 867902002479 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902002480 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902002481 ABC transporter; Region: ABC_tran_2; pfam12848 867902002482 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902002483 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 867902002484 SmpB-tmRNA interface; other site 867902002485 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902002486 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902002487 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902002488 ligand binding site [chemical binding]; other site 867902002489 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 867902002490 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 867902002491 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 867902002492 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 867902002493 active site 867902002494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 867902002495 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; cl00080 867902002496 phosphorylation site [posttranslational modification] 867902002497 dimer interface [polypeptide binding]; other site 867902002498 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 867902002499 ATP binding site [chemical binding]; other site 867902002500 Mg2+ binding site [ion binding]; other site 867902002501 G-X-G motif; other site 867902002502 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 867902002503 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 867902002504 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 867902002505 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 867902002506 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 867902002507 RNA binding surface [nucleotide binding]; other site 867902002508 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 867902002509 active site 867902002510 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 867902002511 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 867902002512 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 867902002513 prephenate dehydrogenase; Validated; Region: PRK08507 867902002514 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 867902002515 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 867902002516 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 867902002517 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 867902002518 Ligand binding site; other site 867902002519 Putative Catalytic site; other site 867902002520 DXD motif; other site 867902002521 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 867902002522 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 867902002523 active site 867902002524 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 867902002525 PIF1-like helicase; Region: PIF1; pfam05970 867902002526 Walker A motif; other site 867902002527 ATP binding site [chemical binding]; other site 867902002528 Walker B motif; other site 867902002529 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902002530 Helix-turn-helix domain; Region: HTH_17; cl17695 867902002531 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 867902002532 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902002533 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902002534 Integrase core domain; Region: rve; pfam00665 867902002535 Predicted permeases [General function prediction only]; Region: COG0795 867902002536 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 867902002537 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 867902002538 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 867902002539 Sulfatase; Region: Sulfatase; cl17466 867902002540 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 867902002541 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 867902002542 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 867902002543 active site 867902002544 catalytic site [active] 867902002545 substrate binding site [chemical binding]; other site 867902002546 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 867902002547 GIY-YIG motif/motif A; other site 867902002548 active site 867902002549 catalytic site [active] 867902002550 metal binding site [ion binding]; metal-binding site 867902002551 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 867902002552 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 867902002553 putative catalytic site [active] 867902002554 putative metal binding site [ion binding]; other site 867902002555 putative phosphate binding site [ion binding]; other site 867902002556 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 867902002557 OmpA family; Region: OmpA; pfam00691 867902002558 ligand binding site [chemical binding]; other site 867902002559 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 867902002560 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 867902002561 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 867902002562 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 867902002563 Walker A/P-loop; other site 867902002564 ATP binding site [chemical binding]; other site 867902002565 Q-loop/lid; other site 867902002566 ABC transporter signature motif; other site 867902002567 Walker B; other site 867902002568 D-loop; other site 867902002569 H-loop/switch region; other site 867902002570 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 867902002571 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 867902002572 Walker A/P-loop; other site 867902002573 ATP binding site [chemical binding]; other site 867902002574 Q-loop/lid; other site 867902002575 ABC transporter signature motif; other site 867902002576 Walker B; other site 867902002577 D-loop; other site 867902002578 H-loop/switch region; other site 867902002579 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 867902002580 RIP metalloprotease RseP; Region: TIGR00054 867902002581 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 867902002582 active site 867902002583 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 867902002584 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 867902002585 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 867902002586 putative substrate binding region [chemical binding]; other site 867902002587 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 867902002588 Isochorismatase family; Region: Isochorismatase; pfam00857 867902002589 catalytic triad [active] 867902002590 metal binding site [ion binding]; metal-binding site 867902002591 conserved cis-peptide bond; other site 867902002592 Phosphoglycerate kinase; Region: PGK; pfam00162 867902002593 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 867902002594 substrate binding site [chemical binding]; other site 867902002595 hinge regions; other site 867902002596 ADP binding site [chemical binding]; other site 867902002597 catalytic site [active] 867902002598 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 867902002599 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 867902002600 active site 867902002601 HIGH motif; other site 867902002602 dimer interface [polypeptide binding]; other site 867902002603 KMSKS motif; other site 867902002604 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 867902002605 RNA binding surface [nucleotide binding]; other site 867902002606 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902002607 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902002608 Integrase core domain; Region: rve; pfam00665 867902002609 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 867902002610 Helix-turn-helix domain; Region: HTH_17; cl17695 867902002611 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 867902002612 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 867902002613 Haem-binding domain; Region: Haem_bd; pfam14376 867902002614 Bacterial Ig-like domain; Region: Big_5; pfam13205 867902002615 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 867902002616 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 867902002617 oligomerisation interface [polypeptide binding]; other site 867902002618 mobile loop; other site 867902002619 roof hairpin; other site 867902002620 GLPGLI family protein; Region: GLPGLI; TIGR01200 867902002621 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002622 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 867902002623 hypothetical protein; Validated; Region: PRK09104 867902002624 metal binding site [ion binding]; metal-binding site 867902002625 putative dimer interface [polypeptide binding]; other site 867902002626 Protein of unknown function (DUF3843); Region: DUF3843; pfam12954 867902002627 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 867902002628 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 867902002629 active site 867902002630 dimer interface [polypeptide binding]; other site 867902002631 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 867902002632 dimer interface [polypeptide binding]; other site 867902002633 active site 867902002634 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 867902002635 Prephenate dehydratase; Region: PDT; pfam00800 867902002636 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 867902002637 putative L-Phe binding site [chemical binding]; other site 867902002638 GLPGLI family protein; Region: GLPGLI; TIGR01200 867902002639 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002640 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 867902002641 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 867902002642 Chorismate mutase type II; Region: CM_2; smart00830 867902002643 GTPase RsgA; Reviewed; Region: PRK00098 867902002644 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 867902002645 RNA binding site [nucleotide binding]; other site 867902002646 homodimer interface [polypeptide binding]; other site 867902002647 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 867902002648 GTPase/Zn-binding domain interface [polypeptide binding]; other site 867902002649 GTP/Mg2+ binding site [chemical binding]; other site 867902002650 G4 box; other site 867902002651 G5 box; other site 867902002652 G1 box; other site 867902002653 Switch I region; other site 867902002654 G2 box; other site 867902002655 G3 box; other site 867902002656 Switch II region; other site 867902002657 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 867902002658 putative active site [active] 867902002659 dimerization interface [polypeptide binding]; other site 867902002660 putative tRNAtyr binding site [nucleotide binding]; other site 867902002661 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 867902002662 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 867902002663 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 867902002664 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 867902002665 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 867902002666 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 867902002667 Dihydroneopterin aldolase; Region: FolB; pfam02152 867902002668 active site 867902002669 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 867902002670 NHAD transporter family protein; Provisional; Region: PLN00137 867902002671 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 867902002672 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 867902002673 active site 867902002674 HIGH motif; other site 867902002675 KMSKS motif; other site 867902002676 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 867902002677 tRNA binding surface [nucleotide binding]; other site 867902002678 anticodon binding site; other site 867902002679 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 867902002680 dimer interface [polypeptide binding]; other site 867902002681 putative tRNA-binding site [nucleotide binding]; other site 867902002682 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 867902002683 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 867902002684 active site 867902002685 Zn binding site [ion binding]; other site 867902002686 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 867902002687 Transglycosylase; Region: Transgly; pfam00912 867902002688 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 867902002689 GldH lipoprotein; Region: GldH_lipo; pfam14109 867902002690 PSP1 C-terminal conserved region; Region: PSP1; cl00770 867902002691 SurA N-terminal domain; Region: SurA_N_3; cl07813 867902002692 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 867902002693 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 867902002694 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 867902002695 Domain of unknown function DUF21; Region: DUF21; pfam01595 867902002696 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 867902002697 Transporter associated domain; Region: CorC_HlyC; smart01091 867902002698 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 867902002699 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 867902002700 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 867902002701 putative catalytic site [active] 867902002702 putative metal binding site [ion binding]; other site 867902002703 putative phosphate binding site [ion binding]; other site 867902002704 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 867902002705 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 867902002706 pantoate--beta-alanine ligase; Region: panC; TIGR00018 867902002707 Pantoate-beta-alanine ligase; Region: PanC; cd00560 867902002708 active site 867902002709 ATP-binding site [chemical binding]; other site 867902002710 pantoate-binding site; other site 867902002711 HXXH motif; other site 867902002712 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 867902002713 tetramerization interface [polypeptide binding]; other site 867902002714 active site 867902002715 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 867902002716 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902002717 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902002718 Integrase core domain; Region: rve; pfam00665 867902002719 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 867902002720 Helix-turn-helix domain; Region: HTH_17; cl17695 867902002721 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 867902002722 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 867902002723 active site 867902002724 intersubunit interface [polypeptide binding]; other site 867902002725 zinc binding site [ion binding]; other site 867902002726 Na+ binding site [ion binding]; other site 867902002727 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 867902002728 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 867902002729 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 867902002730 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 867902002731 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 867902002732 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 867902002733 dimerization interface [polypeptide binding]; other site 867902002734 active site 867902002735 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 867902002736 active site 867902002737 metal binding site [ion binding]; metal-binding site 867902002738 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 867902002739 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 867902002740 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 867902002741 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 867902002742 Protein of unknown function (DUF935); Region: DUF935; pfam06074 867902002743 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 867902002744 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 867902002745 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 867902002746 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 867902002747 Walker A motif; other site 867902002748 ATP binding site [chemical binding]; other site 867902002749 Walker B motif; other site 867902002750 AAA domain; Region: AAA_22; pfam13401 867902002751 AntA/AntB antirepressor; Region: AntA; cl01430 867902002752 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 867902002753 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 867902002754 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 867902002755 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 867902002756 HlyD family secretion protein; Region: HlyD_3; pfam13437 867902002757 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 867902002758 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 867902002759 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 867902002760 ATP binding site [chemical binding]; other site 867902002761 Mg2+ binding site [ion binding]; other site 867902002762 G-X-G motif; other site 867902002763 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 867902002764 ATP binding site [chemical binding]; other site 867902002765 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 867902002766 active site 867902002767 putative metal-binding site [ion binding]; other site 867902002768 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 867902002769 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 867902002770 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 867902002771 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 867902002772 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 867902002773 DNA binding residues [nucleotide binding] 867902002774 lipoyl synthase; Provisional; Region: PRK05481 867902002775 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 867902002776 FeS/SAM binding site; other site 867902002777 competence damage-inducible protein A; Provisional; Region: PRK00549 867902002778 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 867902002779 putative MPT binding site; other site 867902002780 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 867902002781 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 867902002782 RimM N-terminal domain; Region: RimM; pfam01782 867902002783 PRC-barrel domain; Region: PRC; pfam05239 867902002784 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 867902002785 flavoprotein, HI0933 family; Region: TIGR00275 867902002786 biotin synthase; Region: bioB; TIGR00433 867902002787 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 867902002788 FeS/SAM binding site; other site 867902002789 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 867902002790 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 867902002791 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 867902002792 protein binding site [polypeptide binding]; other site 867902002793 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 867902002794 Catalytic dyad [active] 867902002795 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 867902002796 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 867902002797 MarR family; Region: MarR; pfam01047 867902002798 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 867902002799 Domain of unknown function DUF20; Region: UPF0118; pfam01594 867902002800 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 867902002801 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 867902002802 S-adenosylmethionine binding site [chemical binding]; other site 867902002803 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 867902002804 Competence protein; Region: Competence; pfam03772 867902002805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 867902002806 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 867902002807 NAD(P) binding site [chemical binding]; other site 867902002808 active site 867902002809 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 867902002810 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 867902002811 substrate binding site [chemical binding]; other site 867902002812 active site 867902002813 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 867902002814 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 867902002815 active site 867902002816 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 867902002817 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 867902002818 domain interfaces; other site 867902002819 active site 867902002820 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 867902002821 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 867902002822 tRNA; other site 867902002823 putative tRNA binding site [nucleotide binding]; other site 867902002824 putative NADP binding site [chemical binding]; other site 867902002825 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 867902002826 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902002827 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 867902002828 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 867902002829 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 867902002830 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 867902002831 catalytic residues [active] 867902002832 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 867902002833 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 867902002834 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 867902002835 ABC-2 type transporter; Region: ABC2_membrane; cl17235 867902002836 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 867902002837 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 867902002838 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 867902002839 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 867902002840 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 867902002841 HlyD family secretion protein; Region: HlyD_3; pfam13437 867902002842 Outer membrane efflux protein; Region: OEP; pfam02321 867902002843 Outer membrane efflux protein; Region: OEP; pfam02321 867902002844 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 867902002845 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 867902002846 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 867902002847 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 867902002848 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 867902002849 Walker A motif; other site 867902002850 ATP binding site [chemical binding]; other site 867902002851 Walker B motif; other site 867902002852 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 867902002853 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902002854 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902002855 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 867902002856 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 867902002857 TPP-binding site [chemical binding]; other site 867902002858 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 867902002859 PYR/PP interface [polypeptide binding]; other site 867902002860 dimer interface [polypeptide binding]; other site 867902002861 TPP binding site [chemical binding]; other site 867902002862 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 867902002863 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 867902002864 E3 interaction surface; other site 867902002865 lipoyl attachment site [posttranslational modification]; other site 867902002866 e3 binding domain; Region: E3_binding; pfam02817 867902002867 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 867902002868 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 867902002869 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 867902002870 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 867902002871 catalytic residues [active] 867902002872 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 867902002873 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 867902002874 domain interfaces; other site 867902002875 active site 867902002876 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 867902002877 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 867902002878 dimerization interface [polypeptide binding]; other site 867902002879 active site 867902002880 metal binding site [ion binding]; metal-binding site 867902002881 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 867902002882 dsRNA binding site [nucleotide binding]; other site 867902002883 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 867902002884 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 867902002885 dimer interface [polypeptide binding]; other site 867902002886 active site 867902002887 acyl carrier protein; Provisional; Region: acpP; PRK00982 867902002888 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 867902002889 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 867902002890 active site 867902002891 substrate-binding site [chemical binding]; other site 867902002892 metal-binding site [ion binding] 867902002893 ATP binding site [chemical binding]; other site 867902002894 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 867902002895 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902002896 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902002897 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902002898 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 867902002899 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902002900 starch binding outer membrane protein SusD; Region: SusD; cl17845 867902002901 SusD family; Region: SusD; pfam07980 867902002902 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 867902002903 EamA-like transporter family; Region: EamA; pfam00892 867902002904 EamA-like transporter family; Region: EamA; pfam00892 867902002905 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 867902002906 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 867902002907 active site 867902002908 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 867902002909 oligomerization interface [polypeptide binding]; other site 867902002910 active site 867902002911 metal binding site [ion binding]; metal-binding site 867902002912 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 867902002913 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902002914 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 867902002915 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 867902002916 DNA binding residues [nucleotide binding] 867902002917 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 867902002918 Peptidase family M23; Region: Peptidase_M23; pfam01551 867902002919 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 867902002920 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 867902002921 motif 1; other site 867902002922 active site 867902002923 motif 2; other site 867902002924 motif 3; other site 867902002925 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 867902002926 DHHA1 domain; Region: DHHA1; pfam02272 867902002927 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 867902002928 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 867902002929 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 867902002930 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 867902002931 metal-binding site [ion binding] 867902002932 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 867902002933 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 867902002934 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 867902002935 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 867902002936 dimer interface [polypeptide binding]; other site 867902002937 active site 867902002938 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 867902002939 active site 867902002940 catalytic residues [active] 867902002941 CsbD-like; Region: CsbD; pfam05532 867902002942 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 867902002943 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 867902002944 motif II; other site 867902002945 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 867902002946 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 867902002947 active site 867902002948 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 867902002949 catalytic triad [active] 867902002950 dimer interface [polypeptide binding]; other site 867902002951 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 867902002952 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 867902002953 catalytic residues [active] 867902002954 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 867902002955 NAD(P) binding pocket [chemical binding]; other site 867902002956 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 867902002957 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 867902002958 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 867902002959 active site 867902002960 motif I; other site 867902002961 motif II; other site 867902002962 C-N hydrolase family amidase; Provisional; Region: PRK10438 867902002963 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 867902002964 active site 867902002965 catalytic triad [active] 867902002966 dimer interface [polypeptide binding]; other site 867902002967 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 867902002968 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 867902002969 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 867902002970 putative Iron-sulfur protein interface [polypeptide binding]; other site 867902002971 proximal heme binding site [chemical binding]; other site 867902002972 distal heme binding site [chemical binding]; other site 867902002973 putative dimer interface [polypeptide binding]; other site 867902002974 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 867902002975 L-aspartate oxidase; Provisional; Region: PRK06175 867902002976 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 867902002977 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 867902002978 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 867902002979 glycine dehydrogenase; Provisional; Region: PRK05367 867902002980 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 867902002981 tetramer interface [polypeptide binding]; other site 867902002982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902002983 catalytic residue [active] 867902002984 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 867902002985 tetramer interface [polypeptide binding]; other site 867902002986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902002987 catalytic residue [active] 867902002988 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 867902002989 serine O-acetyltransferase; Region: cysE; TIGR01172 867902002990 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 867902002991 trimer interface [polypeptide binding]; other site 867902002992 active site 867902002993 substrate binding site [chemical binding]; other site 867902002994 CoA binding site [chemical binding]; other site 867902002995 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 867902002996 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 867902002997 dimer interface [polypeptide binding]; other site 867902002998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902002999 catalytic residue [active] 867902003000 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902003001 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902003002 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902003003 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 867902003004 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902003005 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902003006 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 867902003007 AAA domain; Region: AAA_26; pfam13500 867902003008 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 867902003009 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 867902003010 dimerization interface [polypeptide binding]; other site 867902003011 DPS ferroxidase diiron center [ion binding]; other site 867902003012 ion pore; other site 867902003013 Transcriptional regulator [Transcription]; Region: LysR; COG0583 867902003014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 867902003015 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 867902003016 dimerization interface [polypeptide binding]; other site 867902003017 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 867902003018 catalytic residues [active] 867902003019 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 867902003020 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 867902003021 active site 867902003022 catalytic site [active] 867902003023 substrate binding site [chemical binding]; other site 867902003024 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 867902003025 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 867902003026 active site 867902003027 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 867902003028 generic binding surface II; other site 867902003029 generic binding surface I; other site 867902003030 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 867902003031 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 867902003032 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 867902003033 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 867902003034 ribosomal protein L33; Region: rpl33; CHL00104 867902003035 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 867902003036 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 867902003037 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 867902003038 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 867902003039 GMP synthase; Reviewed; Region: guaA; PRK00074 867902003040 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 867902003041 AMP/PPi binding site [chemical binding]; other site 867902003042 candidate oxyanion hole; other site 867902003043 catalytic triad [active] 867902003044 potential glutamine specificity residues [chemical binding]; other site 867902003045 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 867902003046 ATP Binding subdomain [chemical binding]; other site 867902003047 Ligand Binding sites [chemical binding]; other site 867902003048 Dimerization subdomain; other site 867902003049 putative transporter; Provisional; Region: PRK10504 867902003050 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 867902003051 putative substrate translocation pore; other site 867902003052 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 867902003053 active site 867902003054 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 867902003055 binding surface 867902003056 TPR motif; other site 867902003057 TPR repeat; Region: TPR_11; pfam13414 867902003058 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 867902003059 TPR repeat; Region: TPR_11; pfam13414 867902003060 binding surface 867902003061 TPR motif; other site 867902003062 TPR repeat; Region: TPR_11; pfam13414 867902003063 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 867902003064 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 867902003065 active site 867902003066 metal binding site [ion binding]; metal-binding site 867902003067 Protein of unknown function, DUF479; Region: DUF479; cl01203 867902003068 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 867902003069 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 867902003070 generic binding surface II; other site 867902003071 ssDNA binding site; other site 867902003072 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 867902003073 ATP binding site [chemical binding]; other site 867902003074 putative Mg++ binding site [ion binding]; other site 867902003075 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 867902003076 nucleotide binding region [chemical binding]; other site 867902003077 ATP-binding site [chemical binding]; other site 867902003078 methionine sulfoxide reductase A; Provisional; Region: PRK14054 867902003079 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 867902003080 putative active site [active] 867902003081 putative metal binding residues [ion binding]; other site 867902003082 signature motif; other site 867902003083 putative triphosphate binding site [ion binding]; other site 867902003084 dimer interface [polypeptide binding]; other site 867902003085 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 867902003086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 867902003087 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902003088 Mechanosensitive ion channel; Region: MS_channel; pfam00924 867902003089 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 867902003090 Sulfatase; Region: Sulfatase; cl17466 867902003091 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 867902003092 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 867902003093 5S rRNA interface [nucleotide binding]; other site 867902003094 CTC domain interface [polypeptide binding]; other site 867902003095 L16 interface [polypeptide binding]; other site 867902003096 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 867902003097 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 867902003098 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 867902003099 active site 867902003100 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 867902003101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902003102 Walker A/P-loop; other site 867902003103 ATP binding site [chemical binding]; other site 867902003104 Q-loop/lid; other site 867902003105 ABC transporter signature motif; other site 867902003106 Walker B; other site 867902003107 D-loop; other site 867902003108 H-loop/switch region; other site 867902003109 CAAX protease self-immunity; Region: Abi; pfam02517 867902003110 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 867902003111 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 867902003112 Walker A/P-loop; other site 867902003113 ATP binding site [chemical binding]; other site 867902003114 Q-loop/lid; other site 867902003115 ABC transporter signature motif; other site 867902003116 Walker B; other site 867902003117 D-loop; other site 867902003118 H-loop/switch region; other site 867902003119 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 867902003120 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 867902003121 inhibitor-cofactor binding pocket; inhibition site 867902003122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902003123 catalytic residue [active] 867902003124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 867902003125 TIGR01777 family protein; Region: yfcH 867902003126 NAD(P) binding site [chemical binding]; other site 867902003127 active site 867902003128 Sporulation related domain; Region: SPOR; pfam05036 867902003129 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 867902003130 Cytochrome c; Region: Cytochrom_C; pfam00034 867902003131 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 867902003132 heme-binding residues [chemical binding]; other site 867902003133 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 867902003134 molybdopterin cofactor binding site; other site 867902003135 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 867902003136 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 867902003137 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 867902003138 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 867902003139 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 867902003140 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 867902003141 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 867902003142 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 867902003143 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 867902003144 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 867902003145 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 867902003146 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 867902003147 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 867902003148 carboxyltransferase (CT) interaction site; other site 867902003149 biotinylation site [posttranslational modification]; other site 867902003150 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 867902003151 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 867902003152 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 867902003153 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 867902003154 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 867902003155 EamA-like transporter family; Region: EamA; pfam00892 867902003156 EamA-like transporter family; Region: EamA; pfam00892 867902003157 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 867902003158 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902003159 FtsX-like permease family; Region: FtsX; pfam02687 867902003160 Ribosome-binding factor A; Region: RBFA; pfam02033 867902003161 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 867902003162 DEAD-like helicases superfamily; Region: DEXDc; smart00487 867902003163 ATP binding site [chemical binding]; other site 867902003164 Mg++ binding site [ion binding]; other site 867902003165 motif III; other site 867902003166 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 867902003167 nucleotide binding region [chemical binding]; other site 867902003168 ATP-binding site [chemical binding]; other site 867902003169 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 867902003170 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 867902003171 nucleotide binding site [chemical binding]; other site 867902003172 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 867902003173 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 867902003174 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 867902003175 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 867902003176 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 867902003177 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 867902003178 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 867902003179 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 867902003180 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 867902003181 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 867902003182 dimer interface [polypeptide binding]; other site 867902003183 putative radical transfer pathway; other site 867902003184 diiron center [ion binding]; other site 867902003185 tyrosyl radical; other site 867902003186 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 867902003187 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 867902003188 Class I ribonucleotide reductase; Region: RNR_I; cd01679 867902003189 active site 867902003190 dimer interface [polypeptide binding]; other site 867902003191 catalytic residues [active] 867902003192 effector binding site; other site 867902003193 R2 peptide binding site; other site 867902003194 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 867902003195 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 867902003196 FAD binding domain; Region: FAD_binding_4; pfam01565 867902003197 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 867902003198 aspartate aminotransferase; Provisional; Region: PRK07568 867902003199 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 867902003200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902003201 homodimer interface [polypeptide binding]; other site 867902003202 catalytic residue [active] 867902003203 YtxH-like protein; Region: YtxH; pfam12732 867902003204 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 867902003205 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 867902003206 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902003207 active site 867902003208 HIGH motif; other site 867902003209 nucleotide binding site [chemical binding]; other site 867902003210 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 867902003211 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 867902003212 active site 867902003213 KMSKS motif; other site 867902003214 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 867902003215 tRNA binding surface [nucleotide binding]; other site 867902003216 anticodon binding site; other site 867902003217 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 867902003218 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 867902003219 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902003220 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 867902003221 DNA primase, catalytic core; Region: dnaG; TIGR01391 867902003222 CHC2 zinc finger; Region: zf-CHC2; cl17510 867902003223 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 867902003224 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 867902003225 active site 867902003226 metal binding site [ion binding]; metal-binding site 867902003227 interdomain interaction site; other site 867902003228 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 867902003229 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 867902003230 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 867902003231 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 867902003232 shikimate binding site; other site 867902003233 NAD(P) binding site [chemical binding]; other site 867902003234 Domain of unknown function (DUF368); Region: DUF368; pfam04018 867902003235 Domain of unknown function (DUF368); Region: DUF368; pfam04018 867902003236 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 867902003237 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 867902003238 hinge; other site 867902003239 active site 867902003240 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 867902003241 glycyl-tRNA synthetase; Provisional; Region: PRK04173 867902003242 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 867902003243 motif 1; other site 867902003244 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 867902003245 motif 1; other site 867902003246 dimer interface [polypeptide binding]; other site 867902003247 active site 867902003248 motif 2; other site 867902003249 motif 3; other site 867902003250 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 867902003251 anticodon binding site; other site 867902003252 alpha-galactosidase; Region: PLN02808; cl17638 867902003253 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 867902003254 Ca binding site [ion binding]; other site 867902003255 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 867902003256 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 867902003257 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 867902003258 putative trimer interface [polypeptide binding]; other site 867902003259 putative CoA binding site [chemical binding]; other site 867902003260 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 867902003261 Right handed beta helix region; Region: Beta_helix; pfam13229 867902003262 CAAX protease self-immunity; Region: Abi; pfam02517 867902003263 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 867902003264 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 867902003265 RNA binding surface [nucleotide binding]; other site 867902003266 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 867902003267 active site 867902003268 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 867902003269 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 867902003270 peptidase T; Region: peptidase-T; TIGR01882 867902003271 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 867902003272 metal binding site [ion binding]; metal-binding site 867902003273 dimer interface [polypeptide binding]; other site 867902003274 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 867902003275 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 867902003276 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 867902003277 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 867902003278 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 867902003279 active site 867902003280 homodimer interface [polypeptide binding]; other site 867902003281 catalytic site [active] 867902003282 Peptidase family M48; Region: Peptidase_M48; pfam01435 867902003283 Protein of unknown function (DUF423); Region: DUF423; pfam04241 867902003284 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 867902003285 Glycoprotease family; Region: Peptidase_M22; pfam00814 867902003286 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 867902003287 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 867902003288 active site 867902003289 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 867902003290 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 867902003291 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 867902003292 Walker A/P-loop; other site 867902003293 ATP binding site [chemical binding]; other site 867902003294 Q-loop/lid; other site 867902003295 ABC transporter signature motif; other site 867902003296 Walker B; other site 867902003297 D-loop; other site 867902003298 H-loop/switch region; other site 867902003299 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 867902003300 Cation efflux family; Region: Cation_efflux; pfam01545 867902003301 DNA topoisomerase I; Validated; Region: PRK06599 867902003302 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 867902003303 active site 867902003304 interdomain interaction site; other site 867902003305 putative metal-binding site [ion binding]; other site 867902003306 nucleotide binding site [chemical binding]; other site 867902003307 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 867902003308 domain I; other site 867902003309 DNA binding groove [nucleotide binding] 867902003310 phosphate binding site [ion binding]; other site 867902003311 domain II; other site 867902003312 domain III; other site 867902003313 nucleotide binding site [chemical binding]; other site 867902003314 catalytic site [active] 867902003315 domain IV; other site 867902003316 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 867902003317 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 867902003318 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 867902003319 active site 867902003320 metal binding site [ion binding]; metal-binding site 867902003321 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 867902003322 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 867902003323 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 867902003324 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 867902003325 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 867902003326 GldM N-terminal domain; Region: GldM_N; pfam12081 867902003327 GldM C-terminal domain; Region: GldM_C; pfam12080 867902003328 gliding motility associated protien GldN; Region: GldN; TIGR03523 867902003329 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 867902003330 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 867902003331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902003332 Walker A/P-loop; other site 867902003333 ATP binding site [chemical binding]; other site 867902003334 Q-loop/lid; other site 867902003335 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902003336 ABC transporter signature motif; other site 867902003337 Walker B; other site 867902003338 D-loop; other site 867902003339 ABC transporter; Region: ABC_tran_2; pfam12848 867902003340 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 867902003341 signal recognition particle protein; Provisional; Region: PRK10867 867902003342 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 867902003343 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 867902003344 P loop; other site 867902003345 GTP binding site [chemical binding]; other site 867902003346 Signal peptide binding domain; Region: SRP_SPB; pfam02978 867902003347 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902003348 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 867902003349 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 867902003350 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 867902003351 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 867902003352 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 867902003353 non-specific DNA binding site [nucleotide binding]; other site 867902003354 salt bridge; other site 867902003355 sequence-specific DNA binding site [nucleotide binding]; other site 867902003356 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 867902003357 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 867902003358 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 867902003359 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 867902003360 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 867902003361 active site 867902003362 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 867902003363 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 867902003364 putative DNA binding site [nucleotide binding]; other site 867902003365 putative Zn2+ binding site [ion binding]; other site 867902003366 AsnC family; Region: AsnC_trans_reg; pfam01037 867902003367 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 867902003368 EamA-like transporter family; Region: EamA; pfam00892 867902003369 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 867902003370 catalytic core [active] 867902003371 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 867902003372 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 867902003373 RNA binding site [nucleotide binding]; other site 867902003374 active site 867902003375 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 867902003376 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 867902003377 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 867902003378 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902003379 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902003380 putative transporter; Validated; Region: PRK03818 867902003381 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 867902003382 TrkA-C domain; Region: TrkA_C; pfam02080 867902003383 TrkA-C domain; Region: TrkA_C; pfam02080 867902003384 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 867902003385 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 867902003386 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 867902003387 transmembrane helices; other site 867902003388 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 867902003389 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 867902003390 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 867902003391 putative ligand binding site [chemical binding]; other site 867902003392 putative NAD binding site [chemical binding]; other site 867902003393 catalytic site [active] 867902003394 recombination protein RecR; Reviewed; Region: recR; PRK00076 867902003395 RecR protein; Region: RecR; pfam02132 867902003396 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 867902003397 putative active site [active] 867902003398 putative metal-binding site [ion binding]; other site 867902003399 tetramer interface [polypeptide binding]; other site 867902003400 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 867902003401 Na binding site [ion binding]; other site 867902003402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 867902003403 Coenzyme A binding pocket [chemical binding]; other site 867902003404 Predicted amidohydrolase [General function prediction only]; Region: COG0388 867902003405 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 867902003406 putative active site [active] 867902003407 catalytic triad [active] 867902003408 putative dimer interface [polypeptide binding]; other site 867902003409 Imelysin; Region: Peptidase_M75; pfam09375 867902003410 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 867902003411 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 867902003412 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 867902003413 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 867902003414 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 867902003415 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 867902003416 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 867902003417 chaperone protein DnaJ; Provisional; Region: PRK14299 867902003418 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 867902003419 HSP70 interaction site [polypeptide binding]; other site 867902003420 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 867902003421 substrate binding site [polypeptide binding]; other site 867902003422 dimer interface [polypeptide binding]; other site 867902003423 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 867902003424 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 867902003425 homodimer interface [polypeptide binding]; other site 867902003426 metal binding site [ion binding]; metal-binding site 867902003427 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 867902003428 homodimer interface [polypeptide binding]; other site 867902003429 active site 867902003430 putative chemical substrate binding site [chemical binding]; other site 867902003431 metal binding site [ion binding]; metal-binding site 867902003432 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 867902003433 active site 867902003434 catalytic residues [active] 867902003435 metal binding site [ion binding]; metal-binding site 867902003436 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 867902003437 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 867902003438 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 867902003439 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 867902003440 S-adenosylmethionine binding site [chemical binding]; other site 867902003441 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 867902003442 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 867902003443 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 867902003444 triosephosphate isomerase; Provisional; Region: PRK14567 867902003445 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 867902003446 substrate binding site [chemical binding]; other site 867902003447 dimer interface [polypeptide binding]; other site 867902003448 catalytic triad [active] 867902003449 Uncharacterized conserved protein [Function unknown]; Region: COG1479 867902003450 Protein of unknown function DUF262; Region: DUF262; pfam03235 867902003451 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 867902003452 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 867902003453 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 867902003454 Substrate binding site; other site 867902003455 metal-binding site 867902003456 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 867902003457 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 867902003458 active site 867902003459 metal binding site [ion binding]; metal-binding site 867902003460 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 867902003461 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 867902003462 23S rRNA interface [nucleotide binding]; other site 867902003463 L3 interface [polypeptide binding]; other site 867902003464 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 867902003465 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 867902003466 rRNA interaction site [nucleotide binding]; other site 867902003467 S8 interaction site; other site 867902003468 putative laminin-1 binding site; other site 867902003469 elongation factor Ts; Provisional; Region: tsf; PRK09377 867902003470 UBA/TS-N domain; Region: UBA; pfam00627 867902003471 Elongation factor TS; Region: EF_TS; pfam00889 867902003472 Elongation factor TS; Region: EF_TS; pfam00889 867902003473 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 867902003474 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 867902003475 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 867902003476 substrate-cofactor binding pocket; other site 867902003477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902003478 homodimer interface [polypeptide binding]; other site 867902003479 catalytic residue [active] 867902003480 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 867902003481 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 867902003482 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 867902003483 Protein of unknown function (DUF493); Region: DUF493; pfam04359 867902003484 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 867902003485 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 867902003486 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 867902003487 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 867902003488 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 867902003489 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 867902003490 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 867902003491 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 867902003492 Glutamine amidotransferase class-I; Region: GATase; pfam00117 867902003493 glutamine binding [chemical binding]; other site 867902003494 catalytic triad [active] 867902003495 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 867902003496 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 867902003497 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 867902003498 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 867902003499 active site 867902003500 ribulose/triose binding site [chemical binding]; other site 867902003501 phosphate binding site [ion binding]; other site 867902003502 substrate (anthranilate) binding pocket [chemical binding]; other site 867902003503 product (indole) binding pocket [chemical binding]; other site 867902003504 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 867902003505 active site 867902003506 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 867902003507 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 867902003508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902003509 catalytic residue [active] 867902003510 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 867902003511 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 867902003512 substrate binding site [chemical binding]; other site 867902003513 active site 867902003514 catalytic residues [active] 867902003515 heterodimer interface [polypeptide binding]; other site 867902003516 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 867902003517 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 867902003518 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 867902003519 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 867902003520 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 867902003521 Ligand Binding Site [chemical binding]; other site 867902003522 TilS substrate C-terminal domain; Region: TilS_C; smart00977 867902003523 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 867902003524 Domain of unknown function DUF20; Region: UPF0118; pfam01594 867902003525 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 867902003526 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 867902003527 nucleotide binding site [chemical binding]; other site 867902003528 NEF interaction site [polypeptide binding]; other site 867902003529 SBD interface [polypeptide binding]; other site 867902003530 WYL domain; Region: WYL; pfam13280 867902003531 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902003532 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902003533 Integrase core domain; Region: rve; pfam00665 867902003534 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 867902003535 Helix-turn-helix domain; Region: HTH_17; cl17695 867902003536 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 867902003537 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 867902003538 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 867902003539 active site 867902003540 DNA binding site [nucleotide binding] 867902003541 Int/Topo IB signature motif; other site 867902003542 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 867902003543 30S subunit binding site; other site 867902003544 elongation factor Tu; Reviewed; Region: PRK12735 867902003545 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 867902003546 G1 box; other site 867902003547 GEF interaction site [polypeptide binding]; other site 867902003548 GTP/Mg2+ binding site [chemical binding]; other site 867902003549 Switch I region; other site 867902003550 G2 box; other site 867902003551 G3 box; other site 867902003552 Switch II region; other site 867902003553 G4 box; other site 867902003554 G5 box; other site 867902003555 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 867902003556 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 867902003557 Antibiotic Binding Site [chemical binding]; other site 867902003558 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 867902003559 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 867902003560 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 867902003561 putative homodimer interface [polypeptide binding]; other site 867902003562 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 867902003563 heterodimer interface [polypeptide binding]; other site 867902003564 homodimer interface [polypeptide binding]; other site 867902003565 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 867902003566 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 867902003567 23S rRNA interface [nucleotide binding]; other site 867902003568 L7/L12 interface [polypeptide binding]; other site 867902003569 putative thiostrepton binding site; other site 867902003570 L25 interface [polypeptide binding]; other site 867902003571 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 867902003572 mRNA/rRNA interface [nucleotide binding]; other site 867902003573 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 867902003574 23S rRNA interface [nucleotide binding]; other site 867902003575 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 867902003576 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 867902003577 core dimer interface [polypeptide binding]; other site 867902003578 peripheral dimer interface [polypeptide binding]; other site 867902003579 L10 interface [polypeptide binding]; other site 867902003580 L11 interface [polypeptide binding]; other site 867902003581 putative EF-Tu interaction site [polypeptide binding]; other site 867902003582 putative EF-G interaction site [polypeptide binding]; other site 867902003583 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 867902003584 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 867902003585 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 867902003586 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 867902003587 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 867902003588 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 867902003589 RPB3 interaction site [polypeptide binding]; other site 867902003590 RPB1 interaction site [polypeptide binding]; other site 867902003591 RPB11 interaction site [polypeptide binding]; other site 867902003592 RPB10 interaction site [polypeptide binding]; other site 867902003593 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 867902003594 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 867902003595 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 867902003596 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 867902003597 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 867902003598 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 867902003599 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 867902003600 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 867902003601 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 867902003602 DNA binding site [nucleotide binding] 867902003603 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 867902003604 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 867902003605 shikimate kinase; Reviewed; Region: aroK; PRK00131 867902003606 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 867902003607 ADP binding site [chemical binding]; other site 867902003608 magnesium binding site [ion binding]; other site 867902003609 putative shikimate binding site; other site 867902003610 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 867902003611 RNA binding surface [nucleotide binding]; other site 867902003612 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 867902003613 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 867902003614 active site 867902003615 DNA binding site [nucleotide binding] 867902003616 Int/Topo IB signature motif; other site 867902003617 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 867902003618 C-terminal peptidase (prc); Region: prc; TIGR00225 867902003619 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 867902003620 Catalytic dyad [active] 867902003621 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 867902003622 catalytic motif [active] 867902003623 Zn binding site [ion binding]; other site 867902003624 manganese transport protein MntH; Reviewed; Region: PRK00701 867902003625 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 867902003626 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 867902003627 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 867902003628 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 867902003629 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 867902003630 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 867902003631 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 867902003632 Colicin V production protein; Region: Colicin_V; pfam02674 867902003633 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 867902003634 putative active site [active] 867902003635 catalytic residue [active] 867902003636 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 867902003637 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 867902003638 putative acyl-acceptor binding pocket; other site 867902003639 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 867902003640 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 867902003641 CoenzymeA binding site [chemical binding]; other site 867902003642 subunit interaction site [polypeptide binding]; other site 867902003643 PHB binding site; other site 867902003644 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 867902003645 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 867902003646 putative acyl-acceptor binding pocket; other site 867902003647 PspC domain; Region: PspC; pfam04024 867902003648 Predicted transcriptional regulators [Transcription]; Region: COG1695 867902003649 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 867902003650 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 867902003651 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 867902003652 hydrophobic ligand binding site; other site 867902003653 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 867902003654 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 867902003655 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 867902003656 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 867902003657 PYR/PP interface [polypeptide binding]; other site 867902003658 dimer interface [polypeptide binding]; other site 867902003659 TPP binding site [chemical binding]; other site 867902003660 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 867902003661 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 867902003662 TPP-binding site [chemical binding]; other site 867902003663 dimer interface [polypeptide binding]; other site 867902003664 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 867902003665 acetolactate synthase, small subunit; Region: acolac_sm; TIGR00119 867902003666 putative valine binding site [chemical binding]; other site 867902003667 dimer interface [polypeptide binding]; other site 867902003668 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 867902003669 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 867902003670 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 867902003671 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 867902003672 threonine dehydratase; Validated; Region: PRK08639 867902003673 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 867902003674 tetramer interface [polypeptide binding]; other site 867902003675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902003676 catalytic residue [active] 867902003677 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 867902003678 Bax inhibitor 1 like; Region: BaxI_1; cl17691 867902003679 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 867902003680 active site 867902003681 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 867902003682 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 867902003683 dimer interface [polypeptide binding]; other site 867902003684 tetramer interface [polypeptide binding]; other site 867902003685 PYR/PP interface [polypeptide binding]; other site 867902003686 TPP binding site [chemical binding]; other site 867902003687 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 867902003688 TPP-binding site; other site 867902003689 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 867902003690 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 867902003691 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 867902003692 FeS/SAM binding site; other site 867902003693 TRAM domain; Region: TRAM; pfam01938 867902003694 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 867902003695 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 867902003696 Walker A motif; other site 867902003697 ATP binding site [chemical binding]; other site 867902003698 Walker B motif; other site 867902003699 arginine finger; other site 867902003700 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 867902003701 Lipopolysaccharide-assembly; Region: LptE; pfam04390 867902003702 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 867902003703 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 867902003704 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 867902003705 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 867902003706 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 867902003707 oligomerisation interface [polypeptide binding]; other site 867902003708 mobile loop; other site 867902003709 roof hairpin; other site 867902003710 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 867902003711 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 867902003712 ring oligomerisation interface [polypeptide binding]; other site 867902003713 ATP/Mg binding site [chemical binding]; other site 867902003714 stacking interactions; other site 867902003715 hinge regions; other site 867902003716 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 867902003717 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 867902003718 active site 867902003719 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 867902003720 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 867902003721 inhibitor-cofactor binding pocket; inhibition site 867902003722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902003723 catalytic residue [active] 867902003724 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 867902003725 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 867902003726 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 867902003727 ribonuclease P; Reviewed; Region: rnpA; PRK01903 867902003728 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 867902003729 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 867902003730 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 867902003731 alpha subunit interaction interface [polypeptide binding]; other site 867902003732 Walker A motif; other site 867902003733 ATP binding site [chemical binding]; other site 867902003734 Walker B motif; other site 867902003735 inhibitor binding site; inhibition site 867902003736 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 867902003737 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 867902003738 gamma subunit interface [polypeptide binding]; other site 867902003739 LBP interface [polypeptide binding]; other site 867902003740 potential frameshift: common BLAST hit: gi|295132550|ref|YP_003583226.1| copper-translocating P-type ATPase 867902003741 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 867902003742 metal-binding site [ion binding] 867902003743 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 867902003744 metal-binding site [ion binding] 867902003745 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 867902003746 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 867902003747 Soluble P-type ATPase [General function prediction only]; Region: COG4087 867902003748 Outer membrane efflux protein; Region: OEP; pfam02321 867902003749 Outer membrane efflux protein; Region: OEP; pfam02321 867902003750 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902003751 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 867902003752 FtsX-like permease family; Region: FtsX; pfam02687 867902003753 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902003754 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 867902003755 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 867902003756 Walker A/P-loop; other site 867902003757 ATP binding site [chemical binding]; other site 867902003758 Q-loop/lid; other site 867902003759 ABC transporter signature motif; other site 867902003760 Walker B; other site 867902003761 D-loop; other site 867902003762 H-loop/switch region; other site 867902003763 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 867902003764 HlyD family secretion protein; Region: HlyD_3; pfam13437 867902003765 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 867902003766 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 867902003767 active site 867902003768 phosphorylation site [posttranslational modification] 867902003769 intermolecular recognition site; other site 867902003770 dimerization interface [polypeptide binding]; other site 867902003771 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 867902003772 Walker A motif; other site 867902003773 ATP binding site [chemical binding]; other site 867902003774 Walker B motif; other site 867902003775 arginine finger; other site 867902003776 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 867902003777 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 867902003778 ATP binding site [chemical binding]; other site 867902003779 Mg2+ binding site [ion binding]; other site 867902003780 G-X-G motif; other site 867902003781 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 867902003782 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 867902003783 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 867902003784 dimerization interface [polypeptide binding]; other site 867902003785 ATP binding site [chemical binding]; other site 867902003786 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 867902003787 dimerization interface [polypeptide binding]; other site 867902003788 ATP binding site [chemical binding]; other site 867902003789 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 867902003790 conserved cys residue [active] 867902003791 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 867902003792 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 867902003793 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 867902003794 protein binding site [polypeptide binding]; other site 867902003795 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 867902003796 Catalytic dyad [active] 867902003797 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 867902003798 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 867902003799 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 867902003800 dimer interface [polypeptide binding]; other site 867902003801 conserved gate region; other site 867902003802 putative PBP binding loops; other site 867902003803 ABC-ATPase subunit interface; other site 867902003804 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902003805 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902003806 Integrase core domain; Region: rve; pfam00665 867902003807 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 867902003808 Helix-turn-helix domain; Region: HTH_17; cl17695 867902003809 YceI-like domain; Region: YceI; pfam04264 867902003810 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 867902003811 extended (e) SDRs; Region: SDR_e; cd08946 867902003812 NAD(P) binding site [chemical binding]; other site 867902003813 active site 867902003814 substrate binding site [chemical binding]; other site 867902003815 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 867902003816 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 867902003817 Active Sites [active] 867902003818 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 867902003819 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 867902003820 FMN binding site [chemical binding]; other site 867902003821 active site 867902003822 catalytic residues [active] 867902003823 substrate binding site [chemical binding]; other site 867902003824 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902003825 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 867902003826 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 867902003827 Helix-turn-helix domain; Region: HTH_38; pfam13936 867902003828 Integrase core domain; Region: rve; pfam00665 867902003829 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 867902003830 Helix-turn-helix domain; Region: HTH_17; cl17695 867902003831 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 867902003832 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 867902003833 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 867902003834 TrkA-N domain; Region: TrkA_N; pfam02254 867902003835 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 867902003836 ZIP Zinc transporter; Region: Zip; pfam02535 867902003837 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 867902003838 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 867902003839 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 867902003840 proteasome-activating nucleotidase; Provisional; Region: PRK03992 867902003841 Cell division protein ZapA; Region: ZapA; pfam05164 867902003842 Fungal protein of unknown function (DUF1742); Region: DUF1742; pfam08432 867902003843 phosphodiesterase; Provisional; Region: PRK12704 867902003844 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 867902003845 Zn2+ binding site [ion binding]; other site 867902003846 Mg2+ binding site [ion binding]; other site 867902003847 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 867902003848 GH3 auxin-responsive promoter; Region: GH3; pfam03321 867902003849 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 867902003850 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 867902003851 ATP binding site [chemical binding]; other site 867902003852 Mg2+ binding site [ion binding]; other site 867902003853 G-X-G motif; other site 867902003854 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 867902003855 ATP binding site [chemical binding]; other site 867902003856 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 867902003857 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 867902003858 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 867902003859 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 867902003860 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 867902003861 NADP binding site [chemical binding]; other site 867902003862 active site 867902003863 putative substrate binding site [chemical binding]; other site 867902003864 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 867902003865 nucleotide binding site/active site [active] 867902003866 HIT family signature motif; other site 867902003867 catalytic residue [active] 867902003868 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 867902003869 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 867902003870 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 867902003871 DNA repair protein RadA; Provisional; Region: PRK11823 867902003872 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 867902003873 Walker A motif/ATP binding site; other site 867902003874 ATP binding site [chemical binding]; other site 867902003875 Walker B motif; other site 867902003876 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 867902003877 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 867902003878 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 867902003879 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 867902003880 4Fe-4S binding domain; Region: Fer4; cl02805 867902003881 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 867902003882 Cysteine-rich domain; Region: CCG; pfam02754 867902003883 Cysteine-rich domain; Region: CCG; pfam02754 867902003884 short chain dehydrogenase; Provisional; Region: PRK07326 867902003885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 867902003886 NAD(P) binding site [chemical binding]; other site 867902003887 active site 867902003888 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 867902003889 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 867902003890 tetramer interface [polypeptide binding]; other site 867902003891 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902003892 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902003893 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902003894 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 867902003895 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 867902003896 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902003897 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902003898 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 867902003899 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 867902003900 PA/protease or protease-like domain interface [polypeptide binding]; other site 867902003901 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 867902003902 Peptidase family M28; Region: Peptidase_M28; pfam04389 867902003903 metal binding site [ion binding]; metal-binding site 867902003904 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 867902003905 alpha-gamma subunit interface [polypeptide binding]; other site 867902003906 beta-gamma subunit interface [polypeptide binding]; other site 867902003907 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 867902003908 gamma-beta subunit interface [polypeptide binding]; other site 867902003909 alpha-beta subunit interface [polypeptide binding]; other site 867902003910 urease subunit alpha; Reviewed; Region: ureC; PRK13207 867902003911 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 867902003912 subunit interactions [polypeptide binding]; other site 867902003913 active site 867902003914 flap region; other site 867902003915 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 867902003916 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 867902003917 dimer interface [polypeptide binding]; other site 867902003918 catalytic residues [active] 867902003919 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 867902003920 UreF; Region: UreF; pfam01730 867902003921 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 867902003922 G1 box; other site 867902003923 GTP/Mg2+ binding site [chemical binding]; other site 867902003924 G2 box; other site 867902003925 Switch I region; other site 867902003926 G3 box; other site 867902003927 Switch II region; other site 867902003928 G4 box; other site 867902003929 G5 box; other site 867902003930 UreD urease accessory protein; Region: UreD; pfam01774 867902003931 Urea transporter; Region: UT; pfam03253 867902003932 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 867902003933 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 867902003934 Cupin domain; Region: Cupin_2; cl17218 867902003935 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 867902003936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 867902003937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 867902003938 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 867902003939 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 867902003940 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 867902003941 N-terminal plug; other site 867902003942 ligand-binding site [chemical binding]; other site 867902003943 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 867902003944 putative active site [active] 867902003945 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 867902003946 TrbC/VIRB2 family; Region: TrbC; cl01583 867902003947 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 867902003948 Haemolytic domain; Region: Haemolytic; pfam01809 867902003949 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 867902003950 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 867902003951 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 867902003952 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 867902003953 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 867902003954 prolyl-tRNA synthetase; Provisional; Region: PRK08661 867902003955 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 867902003956 dimer interface [polypeptide binding]; other site 867902003957 motif 1; other site 867902003958 active site 867902003959 motif 2; other site 867902003960 motif 3; other site 867902003961 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 867902003962 anticodon binding site; other site 867902003963 zinc-binding site [ion binding]; other site 867902003964 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 867902003965 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 867902003966 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 867902003967 putative active site [active] 867902003968 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 867902003969 homodimer interface [polypeptide binding]; other site 867902003970 metal binding site [ion binding]; metal-binding site 867902003971 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 867902003972 Peptidase family M23; Region: Peptidase_M23; pfam01551 867902003973 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 867902003974 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 867902003975 trimer interface [polypeptide binding]; other site 867902003976 active site 867902003977 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 867902003978 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 867902003979 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 867902003980 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 867902003981 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 867902003982 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 867902003983 ATP cone domain; Region: ATP-cone; pfam03477 867902003984 Class III ribonucleotide reductase; Region: RNR_III; cd01675 867902003985 effector binding site; other site 867902003986 active site 867902003987 Zn binding site [ion binding]; other site 867902003988 glycine loop; other site 867902003989 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 867902003990 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 867902003991 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 867902003992 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 867902003993 NAD binding site [chemical binding]; other site 867902003994 homodimer interface [polypeptide binding]; other site 867902003995 active site 867902003996 substrate binding site [chemical binding]; other site 867902003997 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 867902003998 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 867902003999 inhibitor-cofactor binding pocket; inhibition site 867902004000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902004001 catalytic residue [active] 867902004002 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 867902004003 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 867902004004 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 867902004005 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902004006 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 867902004007 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 867902004008 ligand binding site [chemical binding]; other site 867902004009 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 867902004010 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 867902004011 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 867902004012 active site 867902004013 substrate binding site [chemical binding]; other site 867902004014 cosubstrate binding site; other site 867902004015 catalytic site [active] 867902004016 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 867902004017 active site 867902004018 putative DNA-binding cleft [nucleotide binding]; other site 867902004019 dimer interface [polypeptide binding]; other site 867902004020 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 867902004021 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 867902004022 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 867902004023 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 867902004024 acyl-activating enzyme (AAE) consensus motif; other site 867902004025 acyl-activating enzyme (AAE) consensus motif; other site 867902004026 putative AMP binding site [chemical binding]; other site 867902004027 putative active site [active] 867902004028 putative CoA binding site [chemical binding]; other site 867902004029 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 867902004030 active site 867902004031 DNA binding site [nucleotide binding] 867902004032 Int/Topo IB signature motif; other site 867902004033 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 867902004034 Helix-turn-helix domain; Region: HTH_28; pfam13518 867902004035 putative transposase OrfB; Reviewed; Region: PHA02517 867902004036 Homeodomain-like domain; Region: HTH_32; pfam13565 867902004037 Integrase core domain; Region: rve; pfam00665 867902004038 Integrase core domain; Region: rve_3; pfam13683 867902004039 Transposase; Region: HTH_Tnp_1; pfam01527 867902004040 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 867902004041 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 867902004042 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 867902004043 Walker A/P-loop; other site 867902004044 ATP binding site [chemical binding]; other site 867902004045 Q-loop/lid; other site 867902004046 ABC transporter signature motif; other site 867902004047 Walker B; other site 867902004048 D-loop; other site 867902004049 H-loop/switch region; other site 867902004050 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 867902004051 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 867902004052 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 867902004053 active site 867902004054 catalytic site [active] 867902004055 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 867902004056 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 867902004057 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 867902004058 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 867902004059 TPP-binding site; other site 867902004060 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 867902004061 PYR/PP interface [polypeptide binding]; other site 867902004062 dimer interface [polypeptide binding]; other site 867902004063 TPP binding site [chemical binding]; other site 867902004064 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 867902004065 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 867902004066 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 867902004067 catalytic site [active] 867902004068 G-X2-G-X-G-K; other site 867902004069 hypothetical protein; Provisional; Region: PRK11820 867902004070 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 867902004071 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 867902004072 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 867902004073 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 867902004074 putative transposase OrfB; Reviewed; Region: PHA02517 867902004075 Homeodomain-like domain; Region: HTH_32; pfam13565 867902004076 Integrase core domain; Region: rve; pfam00665 867902004077 Integrase core domain; Region: rve_3; pfam13683 867902004078 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 867902004079 G1 box; other site 867902004080 GTP/Mg2+ binding site [chemical binding]; other site 867902004081 G2 box; other site 867902004082 Switch I region; other site 867902004083 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 867902004084 G3 box; other site 867902004085 Switch II region; other site 867902004086 GTP/Mg2+ binding site [chemical binding]; other site 867902004087 G4 box; other site 867902004088 G5 box; other site 867902004089 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 867902004090 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 867902004091 23S rRNA binding site [nucleotide binding]; other site 867902004092 L21 binding site [polypeptide binding]; other site 867902004093 L13 binding site [polypeptide binding]; other site 867902004094 Transposase; Region: HTH_Tnp_1; pfam01527 867902004095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 867902004096 Helix-turn-helix domain; Region: HTH_28; pfam13518 867902004097 putative transposase OrfB; Reviewed; Region: PHA02517 867902004098 Homeodomain-like domain; Region: HTH_32; pfam13565 867902004099 Integrase core domain; Region: rve; pfam00665 867902004100 Integrase core domain; Region: rve_3; pfam13683 867902004101 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 867902004102 Dynamin family; Region: Dynamin_N; pfam00350 867902004103 G1 box; other site 867902004104 GTP/Mg2+ binding site [chemical binding]; other site 867902004105 G2 box; other site 867902004106 Switch I region; other site 867902004107 G3 box; other site 867902004108 Switch II region; other site 867902004109 G4 box; other site 867902004110 G5 box; other site 867902004111 Dynamin family; Region: Dynamin_N; pfam00350 867902004112 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 867902004113 G1 box; other site 867902004114 GTP/Mg2+ binding site [chemical binding]; other site 867902004115 G2 box; other site 867902004116 Switch I region; other site 867902004117 G3 box; other site 867902004118 Switch II region; other site 867902004119 G4 box; other site 867902004120 G5 box; other site 867902004121 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 867902004122 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 867902004123 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 867902004124 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 867902004125 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 867902004126 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 867902004127 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 867902004128 active site 867902004129 dimer interface [polypeptide binding]; other site 867902004130 motif 1; other site 867902004131 motif 2; other site 867902004132 motif 3; other site 867902004133 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 867902004134 anticodon binding site; other site 867902004135 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 867902004136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902004137 Walker A/P-loop; other site 867902004138 ATP binding site [chemical binding]; other site 867902004139 Q-loop/lid; other site 867902004140 ABC transporter signature motif; other site 867902004141 Walker B; other site 867902004142 D-loop; other site 867902004143 H-loop/switch region; other site 867902004144 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 867902004145 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 867902004146 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 867902004147 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 867902004148 dimer interface [polypeptide binding]; other site 867902004149 PYR/PP interface [polypeptide binding]; other site 867902004150 TPP binding site [chemical binding]; other site 867902004151 substrate binding site [chemical binding]; other site 867902004152 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 867902004153 NifU-like domain; Region: NifU; pfam01106 867902004154 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 867902004155 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 867902004156 Walker A motif; other site 867902004157 YceI-like domain; Region: YceI; pfam04264 867902004158 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 867902004159 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 867902004160 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 867902004161 dimer interface [polypeptide binding]; other site 867902004162 motif 1; other site 867902004163 active site 867902004164 motif 2; other site 867902004165 motif 3; other site 867902004166 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 867902004167 Beta-lactamase; Region: Beta-lactamase; pfam00144 867902004168 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 867902004169 nudix motif; other site 867902004170 Peptidase family M48; Region: Peptidase_M48; pfam01435 867902004171 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 867902004172 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 867902004173 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 867902004174 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 867902004175 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 867902004176 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 867902004177 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 867902004178 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 867902004179 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 867902004180 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 867902004181 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 867902004182 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 867902004183 mce related protein; Region: MCE; pfam02470 867902004184 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 867902004185 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 867902004186 active site 867902004187 metal binding site [ion binding]; metal-binding site 867902004188 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 867902004189 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 867902004190 homotrimer interaction site [polypeptide binding]; other site 867902004191 putative active site [active] 867902004192 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 867902004193 RNA/DNA hybrid binding site [nucleotide binding]; other site 867902004194 active site 867902004195 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 867902004196 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 867902004197 putative active site [active] 867902004198 putative metal binding site [ion binding]; other site 867902004199 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 867902004200 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 867902004201 active site 867902004202 (T/H)XGH motif; other site 867902004203 RecX family; Region: RecX; pfam02631 867902004204 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 867902004205 substrate-cofactor binding pocket; other site 867902004206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902004207 catalytic residue [active] 867902004208 chorismate binding enzyme; Region: Chorismate_bind; cl10555 867902004209 Choline/Carnitine o-acyltransferase; Region: Carn_acyltransf; pfam00755 867902004210 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 867902004211 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902004212 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 867902004213 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 867902004214 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902004215 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 867902004216 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 867902004217 Walker A/P-loop; other site 867902004218 ATP binding site [chemical binding]; other site 867902004219 Q-loop/lid; other site 867902004220 ABC transporter signature motif; other site 867902004221 Walker B; other site 867902004222 D-loop; other site 867902004223 H-loop/switch region; other site 867902004224 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 867902004225 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 867902004226 putative active site [active] 867902004227 catalytic site [active] 867902004228 putative metal binding site [ion binding]; other site 867902004229 oligomer interface [polypeptide binding]; other site 867902004230 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 867902004231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 867902004232 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 867902004233 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 867902004234 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 867902004235 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 867902004236 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 867902004237 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 867902004238 ligand binding site [chemical binding]; other site 867902004239 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 867902004240 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902004241 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 867902004242 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 867902004243 ArsC family; Region: ArsC; pfam03960 867902004244 catalytic residue [active] 867902004245 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 867902004246 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 867902004247 active site 867902004248 metal binding site [ion binding]; metal-binding site 867902004249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 867902004250 Coenzyme A binding pocket [chemical binding]; other site 867902004251 transcription antitermination factor NusB; Region: nusB; TIGR01951 867902004252 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 867902004253 Preprotein translocase subunit; Region: YajC; pfam02699 867902004254 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 867902004255 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 867902004256 NlpC/P60 family; Region: NLPC_P60; pfam00877 867902004257 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 867902004258 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 867902004259 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 867902004260 Walker A/P-loop; other site 867902004261 ATP binding site [chemical binding]; other site 867902004262 Q-loop/lid; other site 867902004263 ABC transporter signature motif; other site 867902004264 Walker B; other site 867902004265 D-loop; other site 867902004266 H-loop/switch region; other site 867902004267 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 867902004268 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 867902004269 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 867902004270 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902004271 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 867902004272 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 867902004273 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 867902004274 GDP-binding site [chemical binding]; other site 867902004275 ACT binding site; other site 867902004276 IMP binding site; other site 867902004277 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 867902004278 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 867902004279 tetramer interface [polypeptide binding]; other site 867902004280 active site 867902004281 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902004282 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902004283 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 867902004284 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 867902004285 active site 867902004286 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 867902004287 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902004288 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902004289 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 867902004290 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902004291 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902004292 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902004293 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 867902004294 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 867902004295 active site 867902004296 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 867902004297 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902004298 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902004299 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 867902004300 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 867902004301 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 867902004302 phosphoglyceromutase; Provisional; Region: PRK05434 867902004303 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 867902004304 active site 867902004305 motif I; other site 867902004306 motif II; other site 867902004307 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 867902004308 active site 867902004309 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 867902004310 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 867902004311 E3 interaction surface; other site 867902004312 lipoyl attachment site [posttranslational modification]; other site 867902004313 e3 binding domain; Region: E3_binding; pfam02817 867902004314 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 867902004315 YceI-like domain; Region: YceI; pfam04264 867902004316 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 867902004317 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 867902004318 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 867902004319 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 867902004320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 867902004321 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 867902004322 AIR carboxylase; Region: AIRC; pfam00731 867902004323 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 867902004324 ATP-grasp domain; Region: ATP-grasp_4; cl17255 867902004325 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 867902004326 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 867902004327 dimer interface [polypeptide binding]; other site 867902004328 active site 867902004329 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 867902004330 catalytic residues [active] 867902004331 substrate binding site [chemical binding]; other site 867902004332 deoxyhypusine synthase; Region: dhys; TIGR00321 867902004333 Deoxyhypusine synthase; Region: DS; cl00826 867902004334 Deoxyhypusine synthase; Region: DS; cl00826 867902004335 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 867902004336 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 867902004337 active site 867902004338 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 867902004339 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 867902004340 transmembrane helices; other site 867902004341 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 867902004342 TrkA-C domain; Region: TrkA_C; pfam02080 867902004343 TrkA-C domain; Region: TrkA_C; pfam02080 867902004344 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 867902004345 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 867902004346 ligand-binding site [chemical binding]; other site 867902004347 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 867902004348 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 867902004349 Active Sites [active] 867902004350 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 867902004351 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 867902004352 CysD dimerization site [polypeptide binding]; other site 867902004353 G1 box; other site 867902004354 putative GEF interaction site [polypeptide binding]; other site 867902004355 GTP/Mg2+ binding site [chemical binding]; other site 867902004356 Switch I region; other site 867902004357 G2 box; other site 867902004358 G3 box; other site 867902004359 Switch II region; other site 867902004360 G4 box; other site 867902004361 G5 box; other site 867902004362 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 867902004363 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 867902004364 Peptidase S46; Region: Peptidase_S46; pfam10459 867902004365 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 867902004366 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902004367 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902004368 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902004369 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 867902004370 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902004371 starch binding outer membrane protein SusD; Region: SusD; cl17845 867902004372 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 867902004373 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 867902004374 Clp amino terminal domain; Region: Clp_N; pfam02861 867902004375 Clp amino terminal domain; Region: Clp_N; pfam02861 867902004376 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 867902004377 Walker A motif; other site 867902004378 ATP binding site [chemical binding]; other site 867902004379 Walker B motif; other site 867902004380 arginine finger; other site 867902004381 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 867902004382 Walker A motif; other site 867902004383 ATP binding site [chemical binding]; other site 867902004384 Walker B motif; other site 867902004385 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 867902004386 Phosphate transporter family; Region: PHO4; pfam01384 867902004387 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 867902004388 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 867902004389 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 867902004390 thiamine-monophosphate kinase; Region: thiL; TIGR01379 867902004391 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 867902004392 ATP binding site [chemical binding]; other site 867902004393 dimerization interface [polypeptide binding]; other site 867902004394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 867902004395 HAMP domain; Region: HAMP; pfam00672 867902004396 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 867902004397 dimer interface [polypeptide binding]; other site 867902004398 phosphorylation site [posttranslational modification] 867902004399 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 867902004400 ATP binding site [chemical binding]; other site 867902004401 Mg2+ binding site [ion binding]; other site 867902004402 G-X-G motif; other site 867902004403 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 867902004404 Lumazine binding domain; Region: Lum_binding; pfam00677 867902004405 Lumazine binding domain; Region: Lum_binding; pfam00677 867902004406 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 867902004407 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 867902004408 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 867902004409 active site 867902004410 NTP binding site [chemical binding]; other site 867902004411 metal binding triad [ion binding]; metal-binding site 867902004412 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 867902004413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 867902004414 Zn2+ binding site [ion binding]; other site 867902004415 Mg2+ binding site [ion binding]; other site 867902004416 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 867902004417 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 867902004418 gliding motility-associated protein GldE; Region: GldE; TIGR03520 867902004419 Domain of unknown function DUF21; Region: DUF21; pfam01595 867902004420 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 867902004421 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 867902004422 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 867902004423 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 867902004424 dimer interface [polypeptide binding]; other site 867902004425 ssDNA binding site [nucleotide binding]; other site 867902004426 tetramer (dimer of dimers) interface [polypeptide binding]; other site 867902004427 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902004428 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 867902004429 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 867902004430 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 867902004431 uracil transporter; Provisional; Region: PRK10720 867902004432 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 867902004433 S-adenosylmethionine binding site [chemical binding]; other site 867902004434 Septum formation initiator; Region: DivIC; pfam04977 867902004435 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 867902004436 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 867902004437 ATP-binding site [chemical binding]; other site 867902004438 Sugar specificity; other site 867902004439 Pyrimidine base specificity; other site 867902004440 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 867902004441 UbiA prenyltransferase family; Region: UbiA; pfam01040 867902004442 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 867902004443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 867902004444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 867902004445 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 867902004446 Isochorismatase family; Region: Isochorismatase; pfam00857 867902004447 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 867902004448 catalytic triad [active] 867902004449 conserved cis-peptide bond; other site 867902004450 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 867902004451 DNA binding residues [nucleotide binding] 867902004452 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 867902004453 putative dimer interface [polypeptide binding]; other site 867902004454 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 867902004455 dimer interface [polypeptide binding]; other site 867902004456 catalytic triad [active] 867902004457 peroxidatic and resolving cysteines [active] 867902004458 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 867902004459 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 867902004460 Substrate-binding site [chemical binding]; other site 867902004461 Substrate specificity [chemical binding]; other site 867902004462 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 867902004463 binding surface 867902004464 TPR motif; other site 867902004465 DNA gyrase subunit A; Validated; Region: PRK05560 867902004466 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 867902004467 CAP-like domain; other site 867902004468 active site 867902004469 primary dimer interface [polypeptide binding]; other site 867902004470 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 867902004471 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 867902004472 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 867902004473 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 867902004474 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 867902004475 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 867902004476 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 867902004477 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 867902004478 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 867902004479 Zn2+ binding site [ion binding]; other site 867902004480 Mg2+ binding site [ion binding]; other site 867902004481 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 867902004482 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 867902004483 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 867902004484 putative metal binding site [ion binding]; other site 867902004485 S-ribosylhomocysteinase; Provisional; Region: PRK02260 867902004486 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 867902004487 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 867902004488 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 867902004489 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 867902004490 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 867902004491 Walker A motif; other site 867902004492 ATP binding site [chemical binding]; other site 867902004493 Walker B motif; other site 867902004494 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 867902004495 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 867902004496 active site 867902004497 catalytic motif [active] 867902004498 Zn binding site [ion binding]; other site 867902004499 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 867902004500 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 867902004501 tetramer interface [polypeptide binding]; other site 867902004502 TPP-binding site [chemical binding]; other site 867902004503 heterodimer interface [polypeptide binding]; other site 867902004504 phosphorylation loop region [posttranslational modification] 867902004505 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 867902004506 E3 interaction surface; other site 867902004507 lipoyl attachment site [posttranslational modification]; other site 867902004508 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 867902004509 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 867902004510 E3 interaction surface; other site 867902004511 lipoyl attachment site [posttranslational modification]; other site 867902004512 e3 binding domain; Region: E3_binding; pfam02817 867902004513 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 867902004514 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 867902004515 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 867902004516 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 867902004517 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 867902004518 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 867902004519 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 867902004520 substrate binding site [chemical binding]; other site 867902004521 oxyanion hole (OAH) forming residues; other site 867902004522 trimer interface [polypeptide binding]; other site 867902004523 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 867902004524 starch-binding site 2 [chemical binding]; other site 867902004525 4-alpha-glucanotransferase; Region: PLN02950 867902004526 starch-binding site 1 [chemical binding]; other site 867902004527 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 867902004528 starch-binding site 2 [chemical binding]; other site 867902004529 starch-binding site 1 [chemical binding]; other site 867902004530 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 867902004531 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 867902004532 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 867902004533 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 867902004534 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 867902004535 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 867902004536 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 867902004537 Predicted permeases [General function prediction only]; Region: COG0795 867902004538 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 867902004539 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 867902004540 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 867902004541 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 867902004542 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 867902004543 dimerization interface [polypeptide binding]; other site 867902004544 active site 867902004545 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902004546 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902004547 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 867902004548 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 867902004549 ligand binding site [chemical binding]; other site 867902004550 active site 867902004551 UGI interface [polypeptide binding]; other site 867902004552 catalytic site [active] 867902004553 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 867902004554 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 867902004555 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 867902004556 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902004557 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 867902004558 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 867902004559 hypothetical protein; Validated; Region: PRK02101 867902004560 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 867902004561 Amidinotransferase; Region: Amidinotransf; cl12043 867902004562 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 867902004563 active site 867902004564 catalytic site [active] 867902004565 substrate binding site [chemical binding]; other site 867902004566 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 867902004567 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 867902004568 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 867902004569 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 867902004570 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 867902004571 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902004572 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902004573 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 867902004574 active site 867902004575 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 867902004576 catalytic site [active] 867902004577 BNR repeat-like domain; Region: BNR_2; pfam13088 867902004578 Asp-box motif; other site 867902004579 trehalose synthase; Region: treS_nterm; TIGR02456 867902004580 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 867902004581 active site 867902004582 catalytic site [active] 867902004583 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 867902004584 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 867902004585 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 867902004586 FtsH Extracellular; Region: FtsH_ext; pfam06480 867902004587 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 867902004588 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 867902004589 Walker A motif; other site 867902004590 ATP binding site [chemical binding]; other site 867902004591 Walker B motif; other site 867902004592 arginine finger; other site 867902004593 Peptidase family M41; Region: Peptidase_M41; pfam01434 867902004594 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902004595 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 867902004596 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 867902004597 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 867902004598 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 867902004599 dimerization interface [polypeptide binding]; other site 867902004600 DNA binding residues [nucleotide binding] 867902004601 ThiF family; Region: ThiF; pfam00899 867902004602 ATP binding site [chemical binding]; other site 867902004603 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 867902004604 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 867902004605 Sulfatase; Region: Sulfatase; cl17466 867902004606 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 867902004607 Amidinotransferase; Region: Amidinotransf; pfam02274 867902004608 DNA protecting protein DprA; Region: dprA; TIGR00732 867902004609 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 867902004610 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; cl00257 867902004611 Sporulation related domain; Region: SPOR; cl10051 867902004612 PQQ-like domain; Region: PQQ_2; pfam13360 867902004613 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 867902004614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 867902004615 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 867902004616 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 867902004617 nucleotide binding pocket [chemical binding]; other site 867902004618 K-X-D-G motif; other site 867902004619 catalytic site [active] 867902004620 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 867902004621 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 867902004622 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 867902004623 Dimer interface [polypeptide binding]; other site 867902004624 BRCT sequence motif; other site 867902004625 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 867902004626 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 867902004627 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 867902004628 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 867902004629 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 867902004630 DNA binding residues [nucleotide binding] 867902004631 Domain of unknown function (DUF377); Region: DUF377; pfam04041 867902004632 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 867902004633 active site 867902004634 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 867902004635 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 867902004636 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 867902004637 active site 867902004638 Fn3 associated; Region: Fn3_assoc; pfam13287 867902004639 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902004640 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 867902004641 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902004642 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 867902004643 DNA photolyase; Region: DNA_photolyase; pfam00875 867902004644 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 867902004645 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902004646 active site 867902004647 HIGH motif; other site 867902004648 nucleotide binding site [chemical binding]; other site 867902004649 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902004650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 867902004651 active site 867902004652 KMSKS motif; other site 867902004653 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 867902004654 tRNA binding surface [nucleotide binding]; other site 867902004655 anticodon binding site; other site 867902004656 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 867902004657 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 867902004658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 867902004659 Transposase; Region: DEDD_Tnp_IS110; pfam01548 867902004660 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 867902004661 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 867902004662 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 867902004663 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 867902004664 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 867902004665 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 867902004666 alpha subunit interface [polypeptide binding]; other site 867902004667 TPP binding site [chemical binding]; other site 867902004668 heterodimer interface [polypeptide binding]; other site 867902004669 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 867902004670 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 867902004671 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 867902004672 active site 867902004673 NTP binding site [chemical binding]; other site 867902004674 metal binding triad [ion binding]; metal-binding site 867902004675 antibiotic binding site [chemical binding]; other site 867902004676 Uncharacterized conserved protein [Function unknown]; Region: COG0327 867902004677 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 867902004678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 867902004679 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 867902004680 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 867902004681 Putative zinc ribbon domain; Region: DUF164; pfam02591 867902004682 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 867902004683 Int/Topo IB signature motif; other site 867902004684 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 867902004685 dimer interface [polypeptide binding]; other site 867902004686 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 867902004687 ssDNA binding site [nucleotide binding]; other site 867902004688 tetramer (dimer of dimers) interface [polypeptide binding]; other site 867902004689 Domain of unknown function (DUF932); Region: DUF932; pfam06067 867902004690 PRTRC system protein E; Region: PRTRC_E; TIGR03741 867902004691 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 867902004692 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 867902004693 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 867902004694 non-specific DNA binding site [nucleotide binding]; other site 867902004695 sequence-specific DNA binding site [nucleotide binding]; other site 867902004696 salt bridge; other site 867902004697 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 867902004698 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 867902004699 ATP binding site [chemical binding]; other site 867902004700 Helix-turn-helix domain; Region: HTH_17; pfam12728 867902004701 Helix-turn-helix domain; Region: HTH_17; pfam12728 867902004702 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 867902004703 Conjugative transposon protein TraO; Region: TraO; pfam10626 867902004704 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 867902004705 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 867902004706 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 867902004707 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 867902004708 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 867902004709 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 867902004710 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 867902004711 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 867902004712 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 867902004713 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 867902004714 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 867902004715 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 867902004716 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 867902004717 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 867902004718 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 867902004719 P-loop; other site 867902004720 Magnesium ion binding site [ion binding]; other site 867902004721 Helix-turn-helix domain; Region: HTH_28; pfam13518 867902004722 putative transposase OrfB; Reviewed; Region: PHA02517 867902004723 Homeodomain-like domain; Region: HTH_32; pfam13565 867902004724 Integrase core domain; Region: rve; pfam00665 867902004725 Integrase core domain; Region: rve_3; pfam13683 867902004726 Transposase; Region: HTH_Tnp_1; pfam01527 867902004727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 867902004728 TANFOR domain; Region: T_forsyth_147; TIGR02542 867902004729 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 867902004730 PQQ-like domain; Region: PQQ_2; pfam13360 867902004731 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 867902004732 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 867902004733 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 867902004734 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 867902004735 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 867902004736 PKD domain; Region: PKD; pfam00801 867902004737 Methyltransferase domain; Region: Methyltransf_26; pfam13659 867902004738 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 867902004739 DEAD-like helicases superfamily; Region: DEXDc; smart00487 867902004740 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 867902004741 helicase superfamily c-terminal domain; Region: HELICc; smart00490 867902004742 ATP-binding site [chemical binding]; other site 867902004743 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 867902004744 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 867902004745 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 867902004746 DNA topoisomerase III; Provisional; Region: PRK07726 867902004747 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 867902004748 active site 867902004749 putative interdomain interaction site [polypeptide binding]; other site 867902004750 putative metal-binding site [ion binding]; other site 867902004751 putative nucleotide binding site [chemical binding]; other site 867902004752 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 867902004753 domain I; other site 867902004754 DNA binding groove [nucleotide binding] 867902004755 phosphate binding site [ion binding]; other site 867902004756 domain II; other site 867902004757 domain III; other site 867902004758 nucleotide binding site [chemical binding]; other site 867902004759 catalytic site [active] 867902004760 domain IV; other site 867902004761 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 867902004762 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 867902004763 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 867902004764 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 867902004765 Helix-turn-helix domain; Region: HTH_17; pfam12728 867902004766 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 867902004767 active site 867902004768 metal binding site [ion binding]; metal-binding site 867902004769 interdomain interaction site; other site 867902004770 AAA domain; Region: AAA_25; pfam13481 867902004771 Helix-turn-helix domain; Region: HTH_17; pfam12728 867902004772 RteC protein; Region: RteC; pfam09357 867902004773 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 867902004774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 867902004775 NAD(P) binding site [chemical binding]; other site 867902004776 active site 867902004777 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 867902004778 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 867902004779 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 867902004780 Walker A/P-loop; other site 867902004781 ATP binding site [chemical binding]; other site 867902004782 Q-loop/lid; other site 867902004783 ABC transporter signature motif; other site 867902004784 Walker B; other site 867902004785 D-loop; other site 867902004786 H-loop/switch region; other site 867902004787 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 867902004788 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 867902004789 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 867902004790 NodB motif; other site 867902004791 active site 867902004792 catalytic site [active] 867902004793 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 867902004794 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 867902004795 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 867902004796 active site 867902004797 multimer interface [polypeptide binding]; other site 867902004798 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 867902004799 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 867902004800 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 867902004801 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 867902004802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902004803 Walker A/P-loop; other site 867902004804 ATP binding site [chemical binding]; other site 867902004805 Q-loop/lid; other site 867902004806 ABC transporter signature motif; other site 867902004807 Walker B; other site 867902004808 D-loop; other site 867902004809 H-loop/switch region; other site 867902004810 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 867902004811 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 867902004812 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 867902004813 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 867902004814 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 867902004815 L-fucose transporter; Provisional; Region: PRK10133; cl17665 867902004816 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 867902004817 active site 867902004818 catalytic residues [active] 867902004819 thymidylate synthase; Reviewed; Region: thyA; PRK01827 867902004820 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 867902004821 dimerization interface [polypeptide binding]; other site 867902004822 active site 867902004823 Response regulator receiver domain; Region: Response_reg; pfam00072 867902004824 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 867902004825 active site 867902004826 phosphorylation site [posttranslational modification] 867902004827 intermolecular recognition site; other site 867902004828 dimerization interface [polypeptide binding]; other site 867902004829 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 867902004830 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 867902004831 Walker A motif; other site 867902004832 ATP binding site [chemical binding]; other site 867902004833 Walker B motif; other site 867902004834 arginine finger; other site 867902004835 multidrug efflux protein; Reviewed; Region: PRK01766 867902004836 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 867902004837 cation binding site [ion binding]; other site 867902004838 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 867902004839 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 867902004840 ATP-grasp domain; Region: ATP-grasp_4; cl17255 867902004841 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 867902004842 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 867902004843 active site 867902004844 (T/H)XGH motif; other site 867902004845 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 867902004846 S-adenosylmethionine binding site [chemical binding]; other site 867902004847 mechanosensitive channel MscS; Provisional; Region: PRK10334 867902004848 Mechanosensitive ion channel; Region: MS_channel; pfam00924 867902004849 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 867902004850 active site pocket [active] 867902004851 oxyanion hole [active] 867902004852 catalytic triad [active] 867902004853 active site nucleophile [active] 867902004854 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 867902004855 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 867902004856 active site 867902004857 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 867902004858 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 867902004859 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 867902004860 Uncharacterized conserved protein [Function unknown]; Region: COG4198 867902004861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 867902004862 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 867902004863 catalytic residue [active] 867902004864 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 867902004865 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 867902004866 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 867902004867 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 867902004868 S-adenosylmethionine binding site [chemical binding]; other site 867902004869 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 867902004870 catalytic residues [active] 867902004871 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 867902004872 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 867902004873 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 867902004874 motif II; other site 867902004875 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 867902004876 putative ABC transporter; Region: ycf24; CHL00085 867902004877 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 867902004878 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 867902004879 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 867902004880 active site 867902004881 HIGH motif; other site 867902004882 dimer interface [polypeptide binding]; other site 867902004883 KMSKS motif; other site 867902004884 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 867902004885 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 867902004886 lipoprotein signal peptidase; Provisional; Region: PRK14787 867902004887 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 867902004888 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 867902004889 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 867902004890 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 867902004891 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 867902004892 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 867902004893 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 867902004894 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 867902004895 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 867902004896 active site 867902004897 catalytic site [active] 867902004898 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 867902004899 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 867902004900 dihydropteroate synthase; Region: DHPS; TIGR01496 867902004901 substrate binding pocket [chemical binding]; other site 867902004902 dimer interface [polypeptide binding]; other site 867902004903 inhibitor binding site; inhibition site 867902004904 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 867902004905 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 867902004906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 867902004907 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 867902004908 dimer interface [polypeptide binding]; other site 867902004909 conserved gate region; other site 867902004910 putative PBP binding loops; other site 867902004911 ABC-ATPase subunit interface; other site 867902004912 inorganic pyrophosphatase; Provisional; Region: PRK02230 867902004913 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 867902004914 dimer interface [polypeptide binding]; other site 867902004915 substrate binding site [chemical binding]; other site 867902004916 metal binding sites [ion binding]; metal-binding site 867902004917 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 867902004918 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 867902004919 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 867902004920 FeS/SAM binding site; other site 867902004921 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 867902004922 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 867902004923 Sulfatase; Region: Sulfatase; pfam00884 867902004924 Peptide-N-glycosidase F, N terminal; Region: N-glycanase_N; pfam09112 867902004925 Peptide-N-glycosidase F, C terminal; Region: N-glycanase_C; pfam09113 867902004926 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 867902004927 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 867902004928 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 867902004929 Class I aldolases; Region: Aldolase_Class_I; cl17187 867902004930 catalytic residue [active] 867902004931 SdpI/YhfL protein family; Region: SdpI; pfam13630 867902004932 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 867902004933 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 867902004934 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902004935 catalytic residue [active] 867902004936 short chain dehydrogenase; Validated; Region: PRK06182 867902004937 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 867902004938 NADP binding site [chemical binding]; other site 867902004939 active site 867902004940 steroid binding site; other site 867902004941 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 867902004942 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 867902004943 dimer interface [polypeptide binding]; other site 867902004944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 867902004945 catalytic residue [active] 867902004946 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902004947 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902004948 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 867902004949 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 867902004950 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 867902004951 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 867902004952 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 867902004953 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 867902004954 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 867902004955 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 867902004956 active site 867902004957 seryl-tRNA synthetase; Provisional; Region: PRK05431 867902004958 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 867902004959 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 867902004960 motif 1; other site 867902004961 dimer interface [polypeptide binding]; other site 867902004962 active site 867902004963 motif 2; other site 867902004964 motif 3; other site 867902004965 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 867902004966 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 867902004967 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 867902004968 G1 box; other site 867902004969 putative GEF interaction site [polypeptide binding]; other site 867902004970 GTP/Mg2+ binding site [chemical binding]; other site 867902004971 Switch I region; other site 867902004972 G2 box; other site 867902004973 G3 box; other site 867902004974 Switch II region; other site 867902004975 G4 box; other site 867902004976 G5 box; other site 867902004977 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 867902004978 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902004979 starch binding outer membrane protein SusD; Region: SusD; cd08977 867902004980 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902004981 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902004982 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902004983 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 867902004984 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 867902004985 active site 867902004986 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 867902004987 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 867902004988 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 867902004989 catalytic residue [active] 867902004990 FeS assembly protein SufD; Region: sufD; TIGR01981 867902004991 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 867902004992 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 867902004993 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 867902004994 Walker A/P-loop; other site 867902004995 ATP binding site [chemical binding]; other site 867902004996 Q-loop/lid; other site 867902004997 ABC transporter signature motif; other site 867902004998 Walker B; other site 867902004999 D-loop; other site 867902005000 H-loop/switch region; other site 867902005001 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 867902005002 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 867902005003 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 867902005004 Ligand binding site; other site 867902005005 oligomer interface; other site 867902005006 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 867902005007 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 867902005008 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 867902005009 S-adenosylmethionine binding site [chemical binding]; other site 867902005010 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 867902005011 ApbE family; Region: ApbE; pfam02424 867902005012 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 867902005013 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 867902005014 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 867902005015 putative acyl-acceptor binding pocket; other site 867902005016 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 867902005017 putative active site [active] 867902005018 putative CoA binding site [chemical binding]; other site 867902005019 nudix motif; other site 867902005020 metal binding site [ion binding]; metal-binding site 867902005021 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 867902005022 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 867902005023 active site 867902005024 catalytic triad [active] 867902005025 WbqC-like protein family; Region: WbqC; pfam08889 867902005026 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 867902005027 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 867902005028 HlyD family secretion protein; Region: HlyD_3; pfam13437 867902005029 NlpE N-terminal domain; Region: NlpE; pfam04170 867902005030 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902005031 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 867902005032 FtsX-like permease family; Region: FtsX; pfam02687 867902005033 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 867902005034 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 867902005035 FtsX-like permease family; Region: FtsX; pfam02687 867902005036 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 867902005037 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 867902005038 Walker A/P-loop; other site 867902005039 ATP binding site [chemical binding]; other site 867902005040 Q-loop/lid; other site 867902005041 ABC transporter signature motif; other site 867902005042 Walker B; other site 867902005043 D-loop; other site 867902005044 H-loop/switch region; other site 867902005045 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 867902005046 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 867902005047 NAD(P) binding site [chemical binding]; other site 867902005048 catalytic residues [active] 867902005049 Domain of unknown function DUF302; Region: DUF302; cl01364 867902005050 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 867902005051 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 867902005052 Bacterial SH3 domain; Region: SH3_3; pfam08239 867902005053 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 867902005054 NlpC/P60 family; Region: NLPC_P60; pfam00877 867902005055 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 867902005056 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 867902005057 S-adenosylmethionine binding site [chemical binding]; other site 867902005058 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 867902005059 active site 867902005060 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902005061 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902005062 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 867902005063 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 867902005064 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 867902005065 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 867902005066 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 867902005067 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 867902005068 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 867902005069 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 867902005070 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 867902005071 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 867902005072 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 867902005073 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 867902005074 Smr domain; Region: Smr; pfam01713 867902005075 Helix-turn-helix domain; Region: HTH_17; cl17695 867902005076 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 867902005077 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 867902005078 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 867902005079 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 867902005080 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 867902005081 active site 867902005082 catalytic triad [active] 867902005083 oxyanion hole [active] 867902005084 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 867902005085 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 867902005086 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 867902005087 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 867902005088 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 867902005089 META domain; Region: META; pfam03724 867902005090 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 867902005091 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 867902005092 putative tRNA-binding site [nucleotide binding]; other site 867902005093 B3/4 domain; Region: B3_4; pfam03483 867902005094 tRNA synthetase B5 domain; Region: B5; pfam03484 867902005095 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 867902005096 dimer interface [polypeptide binding]; other site 867902005097 motif 1; other site 867902005098 motif 3; other site 867902005099 motif 2; other site 867902005100 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 867902005101 DNA polymerase III subunit beta; Validated; Region: PRK05643 867902005102 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 867902005103 putative DNA binding surface [nucleotide binding]; other site 867902005104 dimer interface [polypeptide binding]; other site 867902005105 beta-clamp/clamp loader binding surface; other site 867902005106 beta-clamp/translesion DNA polymerase binding surface; other site 867902005107 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 867902005108 NAD(P) binding site [chemical binding]; other site 867902005109 catalytic residues [active] 867902005110 4Fe-4S binding domain; Region: Fer4; cl02805 867902005111 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 867902005112 metal binding site [ion binding]; metal-binding site 867902005113 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 867902005114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 867902005115 Transposase; Region: DEDD_Tnp_IS110; pfam01548 867902005116 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 867902005117 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 867902005118 Clp amino terminal domain; Region: Clp_N; pfam02861 867902005119 Clp amino terminal domain; Region: Clp_N; pfam02861 867902005120 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 867902005121 Walker A motif; other site 867902005122 ATP binding site [chemical binding]; other site 867902005123 Walker B motif; other site 867902005124 arginine finger; other site 867902005125 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 867902005126 Walker A motif; other site 867902005127 ATP binding site [chemical binding]; other site 867902005128 Walker B motif; other site 867902005129 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 867902005130 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 867902005131 active site 867902005132 dimer interface [polypeptide binding]; other site 867902005133 metal binding site [ion binding]; metal-binding site 867902005134 proline dehydrogenase; Region: PLN02681 867902005135 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 867902005136 primosomal protein N' Region: priA; TIGR00595 867902005137 ATP binding site [chemical binding]; other site 867902005138 putative Mg++ binding site [ion binding]; other site 867902005139 helicase superfamily c-terminal domain; Region: HELICc; smart00490 867902005140 ATP-binding site [chemical binding]; other site 867902005141 transketolase; Reviewed; Region: PRK05899 867902005142 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 867902005143 TPP-binding site [chemical binding]; other site 867902005144 dimer interface [polypeptide binding]; other site 867902005145 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 867902005146 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 867902005147 Domain of unknown function (DUF336); Region: DUF336; cl01249 867902005148 Domain of unknown function (DUF336); Region: DUF336; cl01249 867902005149 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 867902005150 active site 867902005151 homotetramer interface [polypeptide binding]; other site 867902005152 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 867902005153 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 867902005154 PYR/PP interface [polypeptide binding]; other site 867902005155 dimer interface [polypeptide binding]; other site 867902005156 TPP binding site [chemical binding]; other site 867902005157 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 867902005158 Predicted integral membrane protein [Function unknown]; Region: COG5615 867902005159 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 867902005160 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 867902005161 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 867902005162 Ligand Binding Site [chemical binding]; other site 867902005163 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 867902005164 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 867902005165 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 867902005166 NAD(P) binding site [chemical binding]; other site 867902005167 Peptidase M15; Region: Peptidase_M15_3; cl01194 867902005168 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 867902005169 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 867902005170 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 867902005171 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 867902005172 oligomer interface [polypeptide binding]; other site 867902005173 active site residues [active] 867902005174 Terminase-like family; Region: Terminase_6; pfam03237 867902005175 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 867902005176 Protein of unknown function (DUF935); Region: DUF935; pfam06074 867902005177 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 867902005178 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 867902005179 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 867902005180 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 867902005181 AAA domain; Region: AAA_22; pfam13401 867902005182 Walker A motif; other site 867902005183 ATP binding site [chemical binding]; other site 867902005184 Walker B motif; other site 867902005185 Integrase core domain; Region: rve; pfam00665 867902005186 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 867902005187 Catalytic site [active] 867902005188 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 867902005189 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 867902005190 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 867902005191 ATP binding site [chemical binding]; other site 867902005192 putative Mg++ binding site [ion binding]; other site 867902005193 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 867902005194 nucleotide binding region [chemical binding]; other site 867902005195 ATP-binding site [chemical binding]; other site 867902005196 TRCF domain; Region: TRCF; pfam03461 867902005197 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 867902005198 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 867902005199 homodimer interface [polypeptide binding]; other site 867902005200 substrate-cofactor binding pocket; other site 867902005201 catalytic residue [active] 867902005202 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 867902005203 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 867902005204 nudix motif; other site 867902005205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 867902005206 Coenzyme A binding pocket [chemical binding]; other site 867902005207 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 867902005208 non-specific DNA binding site [nucleotide binding]; other site 867902005209 salt bridge; other site 867902005210 sequence-specific DNA binding site [nucleotide binding]; other site 867902005211 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 867902005212 putative active site [active] 867902005213 Zn binding site [ion binding]; other site 867902005214 purine nucleoside phosphorylase; Provisional; Region: PRK08202 867902005215 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 867902005216 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 867902005217 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 867902005218 propionate/acetate kinase; Provisional; Region: PRK12379 867902005219 phosphate acetyltransferase; Reviewed; Region: PRK05632 867902005220 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 867902005221 DRTGG domain; Region: DRTGG; pfam07085 867902005222 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 867902005223 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 867902005224 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 867902005225 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 867902005226 oligomer interface [polypeptide binding]; other site 867902005227 active site 867902005228 metal binding site [ion binding]; metal-binding site 867902005229 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 867902005230 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 867902005231 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 867902005232 substrate binding site [chemical binding]; other site 867902005233 dimer interface [polypeptide binding]; other site 867902005234 ATP binding site [chemical binding]; other site 867902005235 hypothetical protein; Validated; Region: PRK07411 867902005236 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 867902005237 ATP binding site [chemical binding]; other site 867902005238 substrate interface [chemical binding]; other site 867902005239 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 867902005240 active site residue [active] 867902005241 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 867902005242 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 867902005243 FeS/SAM binding site; other site 867902005244 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 867902005245 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 867902005246 ThiS interaction site; other site 867902005247 putative active site [active] 867902005248 tetramer interface [polypeptide binding]; other site 867902005249 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 867902005250 thiamine phosphate binding site [chemical binding]; other site 867902005251 active site 867902005252 pyrophosphate binding site [ion binding]; other site 867902005253 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 867902005254 thiamine phosphate binding site [chemical binding]; other site 867902005255 active site 867902005256 pyrophosphate binding site [ion binding]; other site 867902005257 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 867902005258 ThiC-associated domain; Region: ThiC-associated; pfam13667 867902005259 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 867902005260 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 867902005261 thiS-thiF/thiG interaction site; other site 867902005262 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 867902005263 KpsF/GutQ family protein; Region: kpsF; TIGR00393 867902005264 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 867902005265 putative active site [active] 867902005266 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 867902005267 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 867902005268 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 867902005269 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 867902005270 putative ion selectivity filter; other site 867902005271 putative pore gating glutamate residue; other site 867902005272 putative H+/Cl- coupling transport residue; other site 867902005273 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 867902005274 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 867902005275 FeS/SAM binding site; other site 867902005276 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 867902005277 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 867902005278 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 867902005279 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 867902005280 Walker A/P-loop; other site 867902005281 ATP binding site [chemical binding]; other site 867902005282 Q-loop/lid; other site 867902005283 ABC transporter signature motif; other site 867902005284 Walker B; other site 867902005285 D-loop; other site 867902005286 H-loop/switch region; other site 867902005287 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 867902005288 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 867902005289 dimerization interface 3.5A [polypeptide binding]; other site 867902005290 active site 867902005291 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 867902005292 active site 867902005293 metal binding site [ion binding]; metal-binding site 867902005294 homotetramer interface [polypeptide binding]; other site 867902005295 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 867902005296 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 867902005297 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 867902005298 NAD(P) binding site [chemical binding]; other site 867902005299 homotetramer interface [polypeptide binding]; other site 867902005300 homodimer interface [polypeptide binding]; other site 867902005301 active site 867902005302 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 867902005303 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 867902005304 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 867902005305 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 867902005306 catalytic residues [active] 867902005307 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 867902005308 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 867902005309 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 867902005310 Helix-turn-helix domain; Region: HTH_18; pfam12833 867902005311 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 867902005312 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 867902005313 Predicted membrane protein [Function unknown]; Region: COG3059 867902005314 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 867902005315 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 867902005316 GIY-YIG motif/motif A; other site 867902005317 active site 867902005318 catalytic site [active] 867902005319 putative DNA binding site [nucleotide binding]; other site 867902005320 metal binding site [ion binding]; metal-binding site 867902005321 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 867902005322 cytidylate kinase; Provisional; Region: cmk; PRK00023 867902005323 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 867902005324 CMP-binding site; other site 867902005325 The sites determining sugar specificity; other site 867902005326 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 867902005327 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 867902005328 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 867902005329 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 867902005330 ribonuclease Z; Reviewed; Region: PRK00055 867902005331 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 867902005332 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 867902005333 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 867902005334 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 867902005335 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 867902005336 active site 867902005337 metal binding site [ion binding]; metal-binding site 867902005338 nudix motif; other site 867902005339 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 867902005340 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 867902005341 Sulfatase; Region: Sulfatase; pfam00884 867902005342 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 867902005343 Predicted permeases [General function prediction only]; Region: COG0679 867902005344 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902005345 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 867902005346 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 867902005347 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 867902005348 starch binding outer membrane protein SusD; Region: SusD; cl17845 867902005349 SusD family; Region: SusD; pfam07980 867902005350 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 867902005351 Cna protein B-type domain; Region: Cna_B_2; pfam13715 867902005352 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 867902005353 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 867902005354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 867902005355 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 867902005356 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 867902005357 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 867902005358 oligomer interface; other site 867902005359 ligand binding site; other site 867902005360 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 867902005361 dimer interface [polypeptide binding]; other site 867902005362 N-terminal domain interface [polypeptide binding]; other site 867902005363 sulfate 1 binding site; other site 867902005364 glycogen synthase; Provisional; Region: glgA; PRK00654 867902005365 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 867902005366 ADP-binding pocket [chemical binding]; other site 867902005367 homodimer interface [polypeptide binding]; other site 867902005368 CrcB-like protein; Region: CRCB; cl09114 867902005369 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 867902005370 Part of AAA domain; Region: AAA_19; pfam13245 867902005371 Family description; Region: UvrD_C_2; pfam13538 867902005372 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 867902005373 Found in ATP-dependent protease La (LON); Region: LON; smart00464 867902005374 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 867902005375 Walker A motif; other site 867902005376 ATP binding site [chemical binding]; other site 867902005377 Walker B motif; other site 867902005378 arginine finger; other site 867902005379 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 867902005380 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 867902005381 Coenzyme A binding pocket [chemical binding]; other site 867902005382 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 867902005383 MutS domain III; Region: MutS_III; pfam05192 867902005384 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 867902005385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 867902005386 Walker A/P-loop; other site 867902005387 ATP binding site [chemical binding]; other site 867902005388 Q-loop/lid; other site 867902005389 ABC transporter signature motif; other site 867902005390 Walker B; other site 867902005391 D-loop; other site 867902005392 H-loop/switch region; other site 867902005393 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 867902005394 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 867902005395 OsmC-like protein; Region: OsmC; pfam02566 867902005396 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 867902005397 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 867902005398 catalytic motif [active] 867902005399 Zn binding site [ion binding]; other site 867902005400 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 867902005401 RibD C-terminal domain; Region: RibD_C; cl17279 867902005402 Uncharacterized conserved protein [Function unknown]; Region: COG1739 867902005403 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 867902005404 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 867902005405 active site