-- dump date 20140619_163018 -- class Genbank::misc_feature -- table misc_feature_note -- id note 521006000001 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 521006000002 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 521006000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 521006000004 Walker A motif; other site 521006000005 ATP binding site [chemical binding]; other site 521006000006 Walker B motif; other site 521006000007 arginine finger; other site 521006000008 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 521006000009 DnaA box-binding interface [nucleotide binding]; other site 521006000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 521006000011 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 521006000012 putative DNA binding surface [nucleotide binding]; other site 521006000013 dimer interface [polypeptide binding]; other site 521006000014 beta-clamp/clamp loader binding surface; other site 521006000015 DNA polymerase III subunit beta; Validated; Region: PRK05643 521006000016 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; cl17512 521006000017 beta-clamp/translesion DNA polymerase binding surface; other site 521006000018 beta-clamp/clamp loader binding surface; other site 521006000019 polyphosphate kinase; Provisional; Region: PRK05443 521006000020 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 521006000021 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 521006000022 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 521006000023 putative domain interface [polypeptide binding]; other site 521006000024 putative active site [active] 521006000025 catalytic site [active] 521006000026 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 521006000027 putative domain interface [polypeptide binding]; other site 521006000028 putative active site [active] 521006000029 catalytic site [active] 521006000030 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 521006000031 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 521006000032 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 521006000033 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 521006000034 HIGH motif; other site 521006000035 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 521006000036 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 521006000037 active site 521006000038 KMSKS motif; other site 521006000039 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 521006000040 tRNA binding surface [nucleotide binding]; other site 521006000041 Dam-replacing family; Region: DRP; pfam06044 521006000042 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 521006000043 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 521006000044 DNA methylase; Region: N6_N4_Mtase; pfam01555 521006000045 DNA methylase; Region: N6_N4_Mtase; pfam01555 521006000046 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 521006000047 Predicted transcriptional regulator [Transcription]; Region: COG2944 521006000048 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 521006000049 non-specific DNA binding site [nucleotide binding]; other site 521006000050 salt bridge; other site 521006000051 sequence-specific DNA binding site [nucleotide binding]; other site 521006000052 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 521006000053 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 521006000054 triosephosphate isomerase; Provisional; Region: PRK14567 521006000055 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 521006000056 substrate binding site [chemical binding]; other site 521006000057 dimer interface [polypeptide binding]; other site 521006000058 catalytic triad [active] 521006000059 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 521006000060 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 521006000061 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 521006000062 S-adenosylmethionine binding site [chemical binding]; other site 521006000063 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 521006000064 active site residue [active] 521006000065 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 521006000066 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 521006000067 ligand-binding site [chemical binding]; other site 521006000068 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 521006000069 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 521006000070 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 521006000071 putative ligand binding residues [chemical binding]; other site 521006000072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 521006000073 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 521006000074 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521006000075 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 521006000076 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 521006000077 putative feedback inhibition sensing region; other site 521006000078 putative nucleotide binding site [chemical binding]; other site 521006000079 putative substrate binding site [chemical binding]; other site 521006000080 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521006000081 Coenzyme A binding pocket [chemical binding]; other site 521006000082 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 521006000083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006000084 active site 521006000085 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 521006000086 active site 521006000087 Fe-S cluster binding site [ion binding]; other site 521006000088 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 521006000089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521006000090 Coenzyme A binding pocket [chemical binding]; other site 521006000091 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 521006000092 Glycoprotease family; Region: Peptidase_M22; pfam00814 521006000093 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 521006000094 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 521006000095 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 521006000096 intersubunit interface [polypeptide binding]; other site 521006000097 active site 521006000098 zinc binding site [ion binding]; other site 521006000099 Na+ binding site [ion binding]; other site 521006000100 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 521006000101 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 521006000102 active site 521006000103 Int/Topo IB signature motif; other site 521006000104 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 521006000105 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 521006000106 TPP-binding site; other site 521006000107 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 521006000108 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 521006000109 PYR/PP interface [polypeptide binding]; other site 521006000110 dimer interface [polypeptide binding]; other site 521006000111 TPP binding site [chemical binding]; other site 521006000112 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 521006000113 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 521006000114 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 521006000115 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 521006000116 FeS/SAM binding site; other site 521006000117 TRAM domain; Region: TRAM; pfam01938 521006000118 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 521006000119 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 521006000120 inhibitor-cofactor binding pocket; inhibition site 521006000121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006000122 catalytic residue [active] 521006000123 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006000124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 521006000125 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 521006000126 catalytic site [active] 521006000127 putative active site [active] 521006000128 putative substrate binding site [chemical binding]; other site 521006000129 dimer interface [polypeptide binding]; other site 521006000130 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 521006000131 DNA methylase; Region: N6_N4_Mtase; cl17433 521006000132 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 521006000133 S-adenosylmethionine binding site [chemical binding]; other site 521006000134 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 521006000135 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 521006000136 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 521006000137 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 521006000138 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 521006000139 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 521006000140 carboxyltransferase (CT) interaction site; other site 521006000141 biotinylation site [posttranslational modification]; other site 521006000142 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 521006000143 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 521006000144 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 521006000145 ATP-grasp domain; Region: ATP-grasp_4; cl17255 521006000146 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 521006000147 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 521006000148 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 521006000149 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 521006000150 ATP-grasp domain; Region: ATP-grasp_4; cl17255 521006000151 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 521006000152 IMP binding site; other site 521006000153 dimer interface [polypeptide binding]; other site 521006000154 interdomain contacts; other site 521006000155 partial ornithine binding site; other site 521006000156 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 521006000157 ATP-grasp domain; Region: ATP-grasp_4; cl17255 521006000158 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 521006000159 putative active site [active] 521006000160 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 521006000161 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 521006000162 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 521006000163 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 521006000164 catalytic site [active] 521006000165 subunit interface [polypeptide binding]; other site 521006000166 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 521006000167 catalytic site [active] 521006000168 metal binding site [ion binding]; metal-binding site 521006000169 PhnA protein; Region: PhnA; pfam03831 521006000170 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 521006000171 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 521006000172 antiporter inner membrane protein; Provisional; Region: PRK11670 521006000173 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 521006000174 Walker A motif; other site 521006000175 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 521006000176 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 521006000177 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 521006000178 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 521006000179 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 521006000180 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 521006000181 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 521006000182 Substrate binding site; other site 521006000183 metal-binding site 521006000184 Predicted membrane protein [Function unknown]; Region: COG2510 521006000185 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 521006000186 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 521006000187 Potassium binding sites [ion binding]; other site 521006000188 Cesium cation binding sites [ion binding]; other site 521006000189 GTP-binding protein YchF; Reviewed; Region: PRK09601 521006000190 YchF GTPase; Region: YchF; cd01900 521006000191 G1 box; other site 521006000192 GTP/Mg2+ binding site [chemical binding]; other site 521006000193 Switch I region; other site 521006000194 G2 box; other site 521006000195 Switch II region; other site 521006000196 G3 box; other site 521006000197 G4 box; other site 521006000198 G5 box; other site 521006000199 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 521006000200 Acyltransferase family; Region: Acyl_transf_3; pfam01757 521006000201 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 521006000202 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 521006000203 active site 521006000204 HIGH motif; other site 521006000205 dimer interface [polypeptide binding]; other site 521006000206 KMSKS motif; other site 521006000207 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006000208 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 521006000209 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 521006000210 active site 521006000211 Riboflavin kinase; Region: Flavokinase; smart00904 521006000212 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 521006000213 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 521006000214 active site 521006000215 HIGH motif; other site 521006000216 nucleotide binding site [chemical binding]; other site 521006000217 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 521006000218 active site 521006000219 KMSKS motif; other site 521006000220 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 521006000221 tRNA binding surface [nucleotide binding]; other site 521006000222 anticodon binding site; other site 521006000223 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 521006000224 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006000225 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 521006000226 lipoprotein signal peptidase; Provisional; Region: PRK14787 521006000227 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 521006000228 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 521006000229 Transposase domain (DUF772); Region: DUF772; pfam05598 521006000230 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 521006000231 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 521006000232 motif II; other site 521006000233 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 521006000234 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 521006000235 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 521006000236 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 521006000237 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 521006000238 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 521006000239 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 521006000240 putative active site [active] 521006000241 putative PHP Thumb interface [polypeptide binding]; other site 521006000242 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 521006000243 generic binding surface II; other site 521006000244 generic binding surface I; other site 521006000245 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 521006000246 RNA binding surface [nucleotide binding]; other site 521006000247 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 521006000248 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 521006000249 active site 521006000250 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 521006000251 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]; Region: COG3977 521006000252 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 521006000253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006000254 homodimer interface [polypeptide binding]; other site 521006000255 catalytic residue [active] 521006000256 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 521006000257 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 521006000258 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 521006000259 NAD(P) binding site [chemical binding]; other site 521006000260 homodimer interface [polypeptide binding]; other site 521006000261 substrate binding site [chemical binding]; other site 521006000262 active site 521006000263 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 521006000264 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 521006000265 inhibitor-cofactor binding pocket; inhibition site 521006000266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006000267 catalytic residue [active] 521006000268 Bacterial sugar transferase; Region: Bac_transf; pfam02397 521006000269 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 521006000270 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 521006000271 putative trimer interface [polypeptide binding]; other site 521006000272 putative CoA binding site [chemical binding]; other site 521006000273 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 521006000274 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 521006000275 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 521006000276 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 521006000277 catalytic motif [active] 521006000278 Zn binding site [ion binding]; other site 521006000279 RibD C-terminal domain; Region: RibD_C; cl17279 521006000280 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 521006000281 ATP cone domain; Region: ATP-cone; pfam03477 521006000282 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 521006000283 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 521006000284 putative dimer interface [polypeptide binding]; other site 521006000285 putative active site [active] 521006000286 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 521006000287 active site 521006000288 dimer interface [polypeptide binding]; other site 521006000289 metal binding site [ion binding]; metal-binding site 521006000290 shikimate kinase; Reviewed; Region: aroK; PRK00131 521006000291 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 521006000292 ADP binding site [chemical binding]; other site 521006000293 magnesium binding site [ion binding]; other site 521006000294 putative shikimate binding site; other site 521006000295 AMIN domain; Region: AMIN; pfam11741 521006000296 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 521006000297 Secretin and TonB N terminus short domain; Region: STN; pfam07660 521006000298 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 521006000299 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 521006000300 Pilus assembly protein, PilP; Region: PilP; pfam04351 521006000301 Pilus assembly protein, PilO; Region: PilO; cl01234 521006000302 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 521006000303 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 521006000304 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 521006000305 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 521006000306 Transglycosylase; Region: Transgly; pfam00912 521006000307 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 521006000308 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 521006000309 G1 box; other site 521006000310 GTP/Mg2+ binding site [chemical binding]; other site 521006000311 Switch I region; other site 521006000312 G2 box; other site 521006000313 G3 box; other site 521006000314 Switch II region; other site 521006000315 G4 box; other site 521006000316 G5 box; other site 521006000317 Cytochrome c553 [Energy production and conversion]; Region: COG2863 521006000318 Cytochrome c; Region: Cytochrom_C; cl11414 521006000319 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 521006000320 ResB-like family; Region: ResB; pfam05140 521006000321 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 521006000322 UGMP family protein; Validated; Region: PRK09604 521006000323 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 521006000324 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 521006000325 putative acyl-acceptor binding pocket; other site 521006000326 S-adenosylmethionine synthetase; Validated; Region: PRK05250 521006000327 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 521006000328 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 521006000329 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 521006000330 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; pfam02113 521006000331 Predicted flavoprotein [General function prediction only]; Region: COG0431 521006000332 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 521006000333 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 521006000334 Citrate transporter; Region: CitMHS; pfam03600 521006000335 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 521006000336 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 521006000337 active site 521006000338 phosphorylation site [posttranslational modification] 521006000339 intermolecular recognition site; other site 521006000340 dimerization interface [polypeptide binding]; other site 521006000341 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 521006000342 DNA binding site [nucleotide binding] 521006000343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521006000344 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 521006000345 dimer interface [polypeptide binding]; other site 521006000346 phosphorylation site [posttranslational modification] 521006000347 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 521006000348 ATP binding site [chemical binding]; other site 521006000349 Mg2+ binding site [ion binding]; other site 521006000350 G-X-G motif; other site 521006000351 ribonuclease G; Provisional; Region: PRK11712 521006000352 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 521006000353 homodimer interface [polypeptide binding]; other site 521006000354 oligonucleotide binding site [chemical binding]; other site 521006000355 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 521006000356 GSH binding site [chemical binding]; other site 521006000357 catalytic residues [active] 521006000358 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 521006000359 SecA binding site; other site 521006000360 Preprotein binding site; other site 521006000361 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 521006000362 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 521006000363 generic binding surface II; other site 521006000364 ssDNA binding site; other site 521006000365 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 521006000366 ATP binding site [chemical binding]; other site 521006000367 putative Mg++ binding site [ion binding]; other site 521006000368 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 521006000369 nucleotide binding region [chemical binding]; other site 521006000370 ATP-binding site [chemical binding]; other site 521006000371 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 521006000372 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 521006000373 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 521006000374 Uncharacterized conserved protein [Function unknown]; Region: COG2850 521006000375 Cupin-like domain; Region: Cupin_8; pfam13621 521006000376 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 521006000377 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 521006000378 HlyD family secretion protein; Region: HlyD_3; pfam13437 521006000379 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 521006000380 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 521006000381 putative active site [active] 521006000382 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521006000383 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 521006000384 Walker A/P-loop; other site 521006000385 ATP binding site [chemical binding]; other site 521006000386 Q-loop/lid; other site 521006000387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006000388 ABC transporter signature motif; other site 521006000389 Walker B; other site 521006000390 D-loop; other site 521006000391 H-loop/switch region; other site 521006000392 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 521006000393 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 521006000394 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 521006000395 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 521006000396 Ligand Binding Site [chemical binding]; other site 521006000397 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 521006000398 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 521006000399 active site 521006000400 Predicted membrane protein [Function unknown]; Region: COG3759 521006000401 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 521006000402 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 521006000403 FeS/SAM binding site; other site 521006000404 beta-hexosaminidase; Provisional; Region: PRK05337 521006000405 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 521006000406 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 521006000407 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 521006000408 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 521006000409 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 521006000410 protein binding site [polypeptide binding]; other site 521006000411 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 521006000412 protein binding site [polypeptide binding]; other site 521006000413 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 521006000414 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 521006000415 minor groove reading motif; other site 521006000416 helix-hairpin-helix signature motif; other site 521006000417 substrate binding pocket [chemical binding]; other site 521006000418 active site 521006000419 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 521006000420 Predicted membrane protein [Function unknown]; Region: COG1238 521006000421 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 521006000422 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 521006000423 putative substrate translocation pore; other site 521006000424 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 521006000425 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 521006000426 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 521006000427 Transporter associated domain; Region: CorC_HlyC; smart01091 521006000428 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 521006000429 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 521006000430 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 521006000431 domain interfaces; other site 521006000432 active site 521006000433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006000434 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006000435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 521006000436 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 521006000437 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 521006000438 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 521006000439 DEAD-like helicases superfamily; Region: DEXDc; smart00487 521006000440 ATP binding site [chemical binding]; other site 521006000441 Mg++ binding site [ion binding]; other site 521006000442 motif III; other site 521006000443 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 521006000444 nucleotide binding region [chemical binding]; other site 521006000445 ATP-binding site [chemical binding]; other site 521006000446 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 521006000447 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 521006000448 FMN binding site [chemical binding]; other site 521006000449 active site 521006000450 catalytic residues [active] 521006000451 substrate binding site [chemical binding]; other site 521006000452 DNA-binding protein Fis; Provisional; Region: PRK01905 521006000453 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 521006000454 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 521006000455 active site 521006000456 putative DNA-binding cleft [nucleotide binding]; other site 521006000457 dimer interface [polypeptide binding]; other site 521006000458 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 521006000459 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 521006000460 putative acyl-acceptor binding pocket; other site 521006000461 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 521006000462 active site 521006000463 catalytic site [active] 521006000464 substrate binding site [chemical binding]; other site 521006000465 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 521006000466 aminopeptidase N; Provisional; Region: pepN; PRK14015 521006000467 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 521006000468 active site 521006000469 Zn binding site [ion binding]; other site 521006000470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006000471 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 521006000472 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 521006000473 metal binding site [ion binding]; metal-binding site 521006000474 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 521006000475 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 521006000476 ABC-ATPase subunit interface; other site 521006000477 dimer interface [polypeptide binding]; other site 521006000478 putative PBP binding regions; other site 521006000479 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 521006000480 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 521006000481 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 521006000482 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 521006000483 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 521006000484 RimM N-terminal domain; Region: RimM; pfam01782 521006000485 PRC-barrel domain; Region: PRC; pfam05239 521006000486 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 521006000487 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 521006000488 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 521006000489 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 521006000490 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 521006000491 CoA binding domain; Region: CoA_binding_2; pfam13380 521006000492 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521006000493 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 521006000494 dimerization interface [polypeptide binding]; other site 521006000495 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 521006000496 dimer interface [polypeptide binding]; other site 521006000497 phosphorylation site [posttranslational modification] 521006000498 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 521006000499 ATP binding site [chemical binding]; other site 521006000500 Mg2+ binding site [ion binding]; other site 521006000501 G-X-G motif; other site 521006000502 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521006000503 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 521006000504 active site 521006000505 phosphorylation site [posttranslational modification] 521006000506 intermolecular recognition site; other site 521006000507 dimerization interface [polypeptide binding]; other site 521006000508 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 521006000509 DNA binding site [nucleotide binding] 521006000510 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 521006000511 O-Antigen ligase; Region: Wzy_C; pfam04932 521006000512 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 521006000513 Predicted membrane protein [Function unknown]; Region: COG3308 521006000514 Maf-like protein; Region: Maf; pfam02545 521006000515 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 521006000516 active site 521006000517 dimer interface [polypeptide binding]; other site 521006000518 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 521006000519 sec-independent translocase; Provisional; Region: PRK00708 521006000520 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 521006000521 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 521006000522 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 521006000523 nucleotide binding site/active site [active] 521006000524 HIT family signature motif; other site 521006000525 catalytic residue [active] 521006000526 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 521006000527 metal binding site [ion binding]; metal-binding site 521006000528 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 521006000529 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 521006000530 putative NAD(P) binding site [chemical binding]; other site 521006000531 catalytic Zn binding site [ion binding]; other site 521006000532 Transposase domain (DUF772); Region: DUF772; pfam05598 521006000533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006000534 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006000535 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006000536 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 521006000537 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 521006000538 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 521006000539 Walker B motif; other site 521006000540 arginine finger; other site 521006000541 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 521006000542 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 521006000543 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 521006000544 CAP-like domain; other site 521006000545 active site 521006000546 primary dimer interface [polypeptide binding]; other site 521006000547 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 521006000548 catalytic core [active] 521006000549 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 521006000550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006000551 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 521006000552 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 521006000553 motif 1; other site 521006000554 active site 521006000555 motif 2; other site 521006000556 motif 3; other site 521006000557 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 521006000558 DHHA1 domain; Region: DHHA1; pfam02272 521006000559 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 521006000560 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521006000561 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 521006000562 EamA-like transporter family; Region: EamA; pfam00892 521006000563 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 521006000564 Cupin; Region: Cupin_6; pfam12852 521006000565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 521006000566 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 521006000567 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 521006000568 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 521006000569 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 521006000570 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 521006000571 putative inner membrane peptidase; Provisional; Region: PRK11778 521006000572 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 521006000573 tandem repeat interface [polypeptide binding]; other site 521006000574 oligomer interface [polypeptide binding]; other site 521006000575 active site residues [active] 521006000576 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 521006000577 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 521006000578 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 521006000579 MarR family; Region: MarR_2; pfam12802 521006000580 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 521006000581 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 521006000582 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 521006000583 putative active site pocket [active] 521006000584 4-fold oligomerization interface [polypeptide binding]; other site 521006000585 metal binding residues [ion binding]; metal-binding site 521006000586 3-fold/trimer interface [polypeptide binding]; other site 521006000587 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 521006000588 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 521006000589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006000590 homodimer interface [polypeptide binding]; other site 521006000591 catalytic residue [active] 521006000592 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 521006000593 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 521006000594 NAD binding site [chemical binding]; other site 521006000595 dimerization interface [polypeptide binding]; other site 521006000596 product binding site; other site 521006000597 substrate binding site [chemical binding]; other site 521006000598 zinc binding site [ion binding]; other site 521006000599 catalytic residues [active] 521006000600 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 521006000601 GIY-YIG motif/motif A; other site 521006000602 putative active site [active] 521006000603 putative metal binding site [ion binding]; other site 521006000604 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 521006000605 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 521006000606 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 521006000607 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 521006000608 Cu(I) binding site [ion binding]; other site 521006000609 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 521006000610 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 521006000611 PYR/PP interface [polypeptide binding]; other site 521006000612 dimer interface [polypeptide binding]; other site 521006000613 TPP binding site [chemical binding]; other site 521006000614 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 521006000615 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 521006000616 TPP-binding site [chemical binding]; other site 521006000617 dimer interface [polypeptide binding]; other site 521006000618 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 521006000619 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 521006000620 putative valine binding site [chemical binding]; other site 521006000621 dimer interface [polypeptide binding]; other site 521006000622 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 521006000623 Uncharacterized conserved protein [Function unknown]; Region: COG1359 521006000624 ketol-acid reductoisomerase; Provisional; Region: PRK05479 521006000625 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 521006000626 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 521006000627 ornithine carbamoyltransferase; Validated; Region: PRK02102 521006000628 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 521006000629 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 521006000630 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 521006000631 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 521006000632 substrate binding site [chemical binding]; other site 521006000633 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 521006000634 substrate binding site [chemical binding]; other site 521006000635 ligand binding site [chemical binding]; other site 521006000636 Predicted permeases [General function prediction only]; Region: COG0795 521006000637 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 521006000638 Predicted permeases [General function prediction only]; Region: COG0795 521006000639 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 521006000640 multifunctional aminopeptidase A; Provisional; Region: PRK00913 521006000641 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 521006000642 interface (dimer of trimers) [polypeptide binding]; other site 521006000643 Substrate-binding/catalytic site; other site 521006000644 Zn-binding sites [ion binding]; other site 521006000645 DNA polymerase III, chi subunit [DNA replication, recombination, and repair]; Region: HolC; COG2927 521006000646 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 521006000647 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 521006000648 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 521006000649 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 521006000650 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 521006000651 active site 521006000652 substrate binding site [chemical binding]; other site 521006000653 cosubstrate binding site; other site 521006000654 catalytic site [active] 521006000655 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 521006000656 OsmC-like protein; Region: OsmC; cl00767 521006000657 Transcriptional regulators [Transcription]; Region: GntR; COG1802 521006000658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521006000659 DNA-binding site [nucleotide binding]; DNA binding site 521006000660 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 521006000661 Predicted membrane protein [Function unknown]; Region: COG2431 521006000662 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 521006000663 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 521006000664 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 521006000665 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 521006000666 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 521006000667 active site 521006000668 HIGH motif; other site 521006000669 nucleotide binding site [chemical binding]; other site 521006000670 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 521006000671 KMSKS motif; other site 521006000672 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 521006000673 glutathione synthetase; Provisional; Region: PRK05246 521006000674 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 521006000675 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 521006000676 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 521006000677 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 521006000678 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 521006000679 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 521006000680 Ligand Binding Site [chemical binding]; other site 521006000681 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 521006000682 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 521006000683 acyl-activating enzyme (AAE) consensus motif; other site 521006000684 putative AMP binding site [chemical binding]; other site 521006000685 putative active site [active] 521006000686 putative CoA binding site [chemical binding]; other site 521006000687 CTP synthetase; Validated; Region: pyrG; PRK05380 521006000688 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 521006000689 Catalytic site [active] 521006000690 active site 521006000691 UTP binding site [chemical binding]; other site 521006000692 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 521006000693 active site 521006000694 putative oxyanion hole; other site 521006000695 catalytic triad [active] 521006000696 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006000697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 521006000698 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006000699 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 521006000700 cofactor binding site; other site 521006000701 DNA binding site [nucleotide binding] 521006000702 substrate interaction site [chemical binding]; other site 521006000703 Catalytic GIY-YIG domain of type II restriction enzyme R.Eco29kI, R.NgoMIII, and similar proteins; Region: GIY-YIG_RE_Eco29kI_NgoMIII; cd10452 521006000704 homodimer interface [polypeptide binding]; other site 521006000705 GIY-YIG motif/motif A; other site 521006000706 active site 521006000707 DNA binding site [nucleotide binding] 521006000708 putative metal binding site [ion binding]; other site 521006000709 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 521006000710 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 521006000711 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 521006000712 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 521006000713 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 521006000714 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 521006000715 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 521006000716 RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when...; Region: RhoGAP; cl02570 521006000717 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 521006000718 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 521006000719 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 521006000720 glutamine binding [chemical binding]; other site 521006000721 catalytic triad [active] 521006000722 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 521006000723 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 521006000724 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 521006000725 Transposase domain (DUF772); Region: DUF772; pfam05598 521006000726 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 521006000727 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 521006000728 putative active site [active] 521006000729 Zn binding site [ion binding]; other site 521006000730 Preprotein translocase subunit; Region: YajC; pfam02699 521006000731 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 521006000732 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 521006000733 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 521006000734 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 521006000735 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 521006000736 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 521006000737 Protein export membrane protein; Region: SecD_SecF; pfam02355 521006000738 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 521006000739 16S/18S rRNA binding site [nucleotide binding]; other site 521006000740 S13e-L30e interaction site [polypeptide binding]; other site 521006000741 25S rRNA binding site [nucleotide binding]; other site 521006000742 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 521006000743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006000744 Walker A/P-loop; other site 521006000745 ATP binding site [chemical binding]; other site 521006000746 Q-loop/lid; other site 521006000747 ABC transporter signature motif; other site 521006000748 Walker B; other site 521006000749 D-loop; other site 521006000750 H-loop/switch region; other site 521006000751 TOBE domain; Region: TOBE_2; pfam08402 521006000752 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 521006000753 dimer interface [polypeptide binding]; other site 521006000754 conserved gate region; other site 521006000755 putative PBP binding loops; other site 521006000756 ABC-ATPase subunit interface; other site 521006000757 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521006000758 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 521006000759 dimer interface [polypeptide binding]; other site 521006000760 conserved gate region; other site 521006000761 putative PBP binding loops; other site 521006000762 ABC-ATPase subunit interface; other site 521006000763 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 521006000764 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 521006000765 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 521006000766 transcription termination factor Rho; Provisional; Region: rho; PRK09376 521006000767 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 521006000768 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 521006000769 RNA binding site [nucleotide binding]; other site 521006000770 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 521006000771 multimer interface [polypeptide binding]; other site 521006000772 Walker A motif; other site 521006000773 ATP binding site [chemical binding]; other site 521006000774 Walker B motif; other site 521006000775 phosphoenolpyruvate synthase; Validated; Region: PRK06464 521006000776 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 521006000777 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 521006000778 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 521006000779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006000780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 521006000781 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 521006000782 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 521006000783 motif II; other site 521006000784 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 521006000785 dinuclear metal binding motif [ion binding]; other site 521006000786 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 521006000787 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 521006000788 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 521006000789 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521006000790 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 521006000791 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 521006000792 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 521006000793 trimer interface [polypeptide binding]; other site 521006000794 putative metal binding site [ion binding]; other site 521006000795 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 521006000796 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 521006000797 G1 box; other site 521006000798 putative GEF interaction site [polypeptide binding]; other site 521006000799 GTP/Mg2+ binding site [chemical binding]; other site 521006000800 Switch I region; other site 521006000801 G2 box; other site 521006000802 G3 box; other site 521006000803 Switch II region; other site 521006000804 G4 box; other site 521006000805 G5 box; other site 521006000806 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 521006000807 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 521006000808 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 521006000809 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 521006000810 substrate binding site [chemical binding]; other site 521006000811 glutamase interaction surface [polypeptide binding]; other site 521006000812 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 521006000813 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 521006000814 catalytic residues [active] 521006000815 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 521006000816 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 521006000817 putative active site [active] 521006000818 oxyanion strand; other site 521006000819 catalytic triad [active] 521006000820 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 521006000821 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 521006000822 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 521006000823 Walker A/P-loop; other site 521006000824 ATP binding site [chemical binding]; other site 521006000825 Q-loop/lid; other site 521006000826 ABC transporter signature motif; other site 521006000827 Walker B; other site 521006000828 D-loop; other site 521006000829 H-loop/switch region; other site 521006000830 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 521006000831 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 521006000832 dimer interface [polypeptide binding]; other site 521006000833 conserved gate region; other site 521006000834 putative PBP binding loops; other site 521006000835 ABC-ATPase subunit interface; other site 521006000836 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 521006000837 dimer interface [polypeptide binding]; other site 521006000838 conserved gate region; other site 521006000839 ABC-ATPase subunit interface; other site 521006000840 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 521006000841 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 521006000842 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 521006000843 Lyase; Region: Lyase_1; pfam00206 521006000844 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 521006000845 active sites [active] 521006000846 tetramer interface [polypeptide binding]; other site 521006000847 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 521006000848 active site 521006000849 tetramer interface; other site 521006000850 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 521006000851 active site 521006000852 dimerization interface [polypeptide binding]; other site 521006000853 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 521006000854 dimer interface [polypeptide binding]; other site 521006000855 substrate binding site [chemical binding]; other site 521006000856 metal binding sites [ion binding]; metal-binding site 521006000857 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 521006000858 nudix motif; other site 521006000859 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006000860 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 521006000861 Cation transport protein; Region: TrkH; cl17365 521006000862 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 521006000863 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 521006000864 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 521006000865 active site 521006000866 metal binding site [ion binding]; metal-binding site 521006000867 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 521006000868 homotrimer interaction site [polypeptide binding]; other site 521006000869 putative active site [active] 521006000870 Opacity family porin protein; Region: Opacity; pfam02462 521006000871 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 521006000872 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 521006000873 FeS/SAM binding site; other site 521006000874 HemN C-terminal domain; Region: HemN_C; pfam06969 521006000875 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 521006000876 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 521006000877 nucleotide binding pocket [chemical binding]; other site 521006000878 K-X-D-G motif; other site 521006000879 catalytic site [active] 521006000880 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 521006000881 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 521006000882 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 521006000883 Dimer interface [polypeptide binding]; other site 521006000884 BRCT sequence motif; other site 521006000885 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 521006000886 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 521006000887 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 521006000888 amidase catalytic site [active] 521006000889 Zn binding residues [ion binding]; other site 521006000890 substrate binding site [chemical binding]; other site 521006000891 YceG-like family; Region: YceG; pfam02618 521006000892 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 521006000893 dimerization interface [polypeptide binding]; other site 521006000894 thymidylate kinase; Validated; Region: tmk; PRK00698 521006000895 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 521006000896 TMP-binding site; other site 521006000897 ATP-binding site [chemical binding]; other site 521006000898 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 521006000899 Malic enzyme, N-terminal domain; Region: malic; pfam00390 521006000900 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 521006000901 putative NAD(P) binding site [chemical binding]; other site 521006000902 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 521006000903 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 521006000904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 521006000905 Uncharacterized conserved protein [Function unknown]; Region: COG2835 521006000906 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 521006000907 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 521006000908 Ligand binding site; other site 521006000909 oligomer interface; other site 521006000910 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 521006000911 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 521006000912 substrate binding site [chemical binding]; other site 521006000913 active site 521006000914 catalytic residues [active] 521006000915 heterodimer interface [polypeptide binding]; other site 521006000916 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 521006000917 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 521006000918 CNP1-like family; Region: CNP1; pfam08750 521006000919 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 521006000920 CPxP motif; other site 521006000921 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006000922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 521006000923 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 521006000924 active site 521006000925 substrate binding pocket [chemical binding]; other site 521006000926 dimer interface [polypeptide binding]; other site 521006000927 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 521006000928 putative RNA binding site [nucleotide binding]; other site 521006000929 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 521006000930 homopentamer interface [polypeptide binding]; other site 521006000931 active site 521006000932 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4859 521006000933 ribonuclease III; Reviewed; Region: rnc; PRK00102 521006000934 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 521006000935 dimerization interface [polypeptide binding]; other site 521006000936 active site 521006000937 metal binding site [ion binding]; metal-binding site 521006000938 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 521006000939 dsRNA binding site [nucleotide binding]; other site 521006000940 GTPase Era; Reviewed; Region: era; PRK00089 521006000941 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 521006000942 G1 box; other site 521006000943 GTP/Mg2+ binding site [chemical binding]; other site 521006000944 Switch I region; other site 521006000945 G2 box; other site 521006000946 Switch II region; other site 521006000947 G3 box; other site 521006000948 G4 box; other site 521006000949 G5 box; other site 521006000950 KH domain; Region: KH_2; pfam07650 521006000951 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 521006000952 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 521006000953 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 521006000954 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 521006000955 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 521006000956 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 521006000957 active site 521006000958 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 521006000959 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 521006000960 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 521006000961 amidophosphoribosyltransferase; Provisional; Region: PRK09246 521006000962 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 521006000963 active site 521006000964 tetramer interface [polypeptide binding]; other site 521006000965 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006000966 active site 521006000967 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 521006000968 Colicin V production protein; Region: Colicin_V; pfam02674 521006000969 cell division protein FtsN; Region: ftsN; TIGR02223 521006000970 Sporulation related domain; Region: SPOR; pfam05036 521006000971 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 521006000972 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521006000973 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 521006000974 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 521006000975 Walker A/P-loop; other site 521006000976 ATP binding site [chemical binding]; other site 521006000977 Q-loop/lid; other site 521006000978 ABC transporter signature motif; other site 521006000979 Walker B; other site 521006000980 D-loop; other site 521006000981 H-loop/switch region; other site 521006000982 Region found in RelA / SpoT proteins; Region: RelA_SpoT; smart00954 521006000983 metal binding triad [ion binding]; metal-binding site 521006000984 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 521006000985 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 521006000986 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 521006000987 putative active site [active] 521006000988 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 521006000989 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 521006000990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006000991 catalytic residue [active] 521006000992 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 521006000993 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 521006000994 Autotransporter beta-domain; Region: Autotransporter; pfam03797 521006000995 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 521006000996 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 521006000997 Competence protein; Region: Competence; pfam03772 521006000998 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 521006000999 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 521006001000 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 521006001001 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 521006001002 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 521006001003 RNA binding surface [nucleotide binding]; other site 521006001004 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 521006001005 active site 521006001006 bile acid transporter; Region: bass; TIGR00841 521006001007 Sodium Bile acid symporter family; Region: SBF; pfam01758 521006001008 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 521006001009 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 521006001010 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 521006001011 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 521006001012 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 521006001013 Predicted membrane protein/domain [Function unknown]; Region: COG1714 521006001014 hypothetical protein; Provisional; Region: PRK11820 521006001015 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 521006001016 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 521006001017 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 521006001018 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 521006001019 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 521006001020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 521006001021 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 521006001022 DNA binding residues [nucleotide binding] 521006001023 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 521006001024 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 521006001025 putative active site [active] 521006001026 catalytic triad [active] 521006001027 putative dimer interface [polypeptide binding]; other site 521006001028 Protein of unknown function (DUF808); Region: DUF808; cl01002 521006001029 potassium/proton antiporter; Reviewed; Region: PRK05326 521006001030 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 521006001031 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 521006001032 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 521006001033 ferrochelatase; Reviewed; Region: hemH; PRK00035 521006001034 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 521006001035 C-terminal domain interface [polypeptide binding]; other site 521006001036 active site 521006001037 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 521006001038 active site 521006001039 N-terminal domain interface [polypeptide binding]; other site 521006001040 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 521006001041 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 521006001042 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 521006001043 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 521006001044 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 521006001045 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 521006001046 active site 521006001047 dimer interface [polypeptide binding]; other site 521006001048 motif 1; other site 521006001049 motif 2; other site 521006001050 motif 3; other site 521006001051 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 521006001052 anticodon binding site; other site 521006001053 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 521006001054 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 521006001055 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 521006001056 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 521006001057 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 521006001058 23S rRNA binding site [nucleotide binding]; other site 521006001059 L21 binding site [polypeptide binding]; other site 521006001060 L13 binding site [polypeptide binding]; other site 521006001061 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 521006001062 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 521006001063 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 521006001064 dimer interface [polypeptide binding]; other site 521006001065 motif 1; other site 521006001066 active site 521006001067 motif 2; other site 521006001068 motif 3; other site 521006001069 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 521006001070 additional DNA contacts [nucleotide binding]; other site 521006001071 mismatch recognition site; other site 521006001072 active site 521006001073 zinc binding site [ion binding]; other site 521006001074 DNA intercalation site [nucleotide binding]; other site 521006001075 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006001076 cofactor binding site; other site 521006001077 HNH endonuclease; Region: HNH_2; pfam13391 521006001078 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 521006001079 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 521006001080 putative tRNA-binding site [nucleotide binding]; other site 521006001081 B3/4 domain; Region: B3_4; pfam03483 521006001082 tRNA synthetase B5 domain; Region: B5; smart00874 521006001083 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 521006001084 dimer interface [polypeptide binding]; other site 521006001085 motif 1; other site 521006001086 motif 3; other site 521006001087 motif 2; other site 521006001088 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 521006001089 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 521006001090 IHF - DNA interface [nucleotide binding]; other site 521006001091 IHF dimer interface [polypeptide binding]; other site 521006001092 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 521006001093 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 521006001094 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 521006001095 inhibitor-cofactor binding pocket; inhibition site 521006001096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006001097 catalytic residue [active] 521006001098 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 521006001099 AAA domain; Region: AAA_26; pfam13500 521006001100 Chorismate lyase; Region: Chor_lyase; cl01230 521006001101 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 521006001102 UbiA prenyltransferase family; Region: UbiA; pfam01040 521006001103 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 521006001104 active site 521006001105 phosphorylation site [posttranslational modification] 521006001106 HPr kinase/phosphorylase; Provisional; Region: PRK05428 521006001107 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 521006001108 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 521006001109 Hpr binding site; other site 521006001110 active site 521006001111 homohexamer subunit interaction site [polypeptide binding]; other site 521006001112 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 521006001113 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 521006001114 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 521006001115 GTP/Mg2+ binding site [chemical binding]; other site 521006001116 G4 box; other site 521006001117 G5 box; other site 521006001118 G1 box; other site 521006001119 Switch I region; other site 521006001120 G2 box; other site 521006001121 G3 box; other site 521006001122 Switch II region; other site 521006001123 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 521006001124 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 521006001125 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 521006001126 Walker A/P-loop; other site 521006001127 ATP binding site [chemical binding]; other site 521006001128 Q-loop/lid; other site 521006001129 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 521006001130 ABC transporter signature motif; other site 521006001131 Walker B; other site 521006001132 D-loop; other site 521006001133 H-loop/switch region; other site 521006001134 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 521006001135 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 521006001136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 521006001137 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 521006001138 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 521006001139 S-adenosylmethionine binding site [chemical binding]; other site 521006001140 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 521006001141 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 521006001142 catalytic center binding site [active] 521006001143 ATP binding site [chemical binding]; other site 521006001144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 521006001145 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 521006001146 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 521006001147 S-adenosylmethionine binding site [chemical binding]; other site 521006001148 bacterial Hfq-like; Region: Hfq; cd01716 521006001149 hexamer interface [polypeptide binding]; other site 521006001150 Sm1 motif; other site 521006001151 RNA binding site [nucleotide binding]; other site 521006001152 Sm2 motif; other site 521006001153 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 521006001154 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 521006001155 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 521006001156 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 521006001157 catalytic triad [active] 521006001158 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 521006001159 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 521006001160 active site 521006001161 Int/Topo IB signature motif; other site 521006001162 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 521006001163 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 521006001164 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 521006001165 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 521006001166 NADP binding site [chemical binding]; other site 521006001167 active site 521006001168 putative substrate binding site [chemical binding]; other site 521006001169 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 521006001170 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 521006001171 ATP binding site [chemical binding]; other site 521006001172 active site 521006001173 substrate binding site [chemical binding]; other site 521006001174 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 521006001175 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 521006001176 RNase E interface [polypeptide binding]; other site 521006001177 trimer interface [polypeptide binding]; other site 521006001178 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 521006001179 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 521006001180 RNase E interface [polypeptide binding]; other site 521006001181 trimer interface [polypeptide binding]; other site 521006001182 active site 521006001183 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 521006001184 putative nucleic acid binding region [nucleotide binding]; other site 521006001185 G-X-X-G motif; other site 521006001186 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 521006001187 RNA binding site [nucleotide binding]; other site 521006001188 domain interface; other site 521006001189 Uncharacterized conserved protein [Function unknown]; Region: COG2836 521006001190 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 521006001191 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 521006001192 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 521006001193 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 521006001194 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 521006001195 dimer interface [polypeptide binding]; other site 521006001196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006001197 catalytic residue [active] 521006001198 EamA-like transporter family; Region: EamA; pfam00892 521006001199 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 521006001200 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 521006001201 Catalytic site [active] 521006001202 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 521006001203 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 521006001204 GTP-binding protein LepA; Provisional; Region: PRK05433 521006001205 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 521006001206 G1 box; other site 521006001207 putative GEF interaction site [polypeptide binding]; other site 521006001208 GTP/Mg2+ binding site [chemical binding]; other site 521006001209 Switch I region; other site 521006001210 G2 box; other site 521006001211 G3 box; other site 521006001212 Switch II region; other site 521006001213 G4 box; other site 521006001214 G5 box; other site 521006001215 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 521006001216 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 521006001217 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 521006001218 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 521006001219 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 521006001220 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 521006001221 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 521006001222 Walker A motif; other site 521006001223 ATP binding site [chemical binding]; other site 521006001224 Walker B motif; other site 521006001225 DNA polymerase III subunit delta'; Validated; Region: PRK08699 521006001226 DNA polymerase III subunit delta'; Validated; Region: PRK08485 521006001227 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 521006001228 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 521006001229 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 521006001230 active site 521006001231 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 521006001232 putative GSH binding site [chemical binding]; other site 521006001233 catalytic residues [active] 521006001234 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006001235 active site 521006001236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 521006001237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 521006001238 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 521006001239 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 521006001240 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 521006001241 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 521006001242 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 521006001243 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 521006001244 active site 521006001245 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 521006001246 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 521006001247 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 521006001248 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 521006001249 substrate binding site [chemical binding]; other site 521006001250 active site 521006001251 DEAD-like helicases superfamily; Region: DEXDc; smart00487 521006001252 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 521006001253 ATP binding site [chemical binding]; other site 521006001254 putative Mg++ binding site [ion binding]; other site 521006001255 Z1 domain; Region: Z1; pfam10593 521006001256 Putative catalytic domain of type II restriction enzyme NgoFVII and similar proteins; Region: PLDc_RE_NgoFVII; cd09177 521006001257 PLD-like domain; Region: PLDc_2; pfam13091 521006001258 putative homodimer interface [polypeptide binding]; other site 521006001259 putative active site [active] 521006001260 catalytic site [active] 521006001261 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006001262 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 521006001263 cofactor binding site; other site 521006001264 DNA binding site [nucleotide binding] 521006001265 substrate interaction site [chemical binding]; other site 521006001266 DNA repair protein RadA; Provisional; Region: PRK11823 521006001267 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 521006001268 Walker A motif/ATP binding site; other site 521006001269 ATP binding site [chemical binding]; other site 521006001270 Walker B motif; other site 521006001271 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 521006001272 Uncharacterized conserved protein [Function unknown]; Region: COG3439 521006001273 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 521006001274 active site residue [active] 521006001275 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 521006001276 Part of AAA domain; Region: AAA_19; pfam13245 521006001277 Family description; Region: UvrD_C_2; pfam13538 521006001278 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 521006001279 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 521006001280 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 521006001281 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 521006001282 substrate binding pocket [chemical binding]; other site 521006001283 membrane-bound complex binding site; other site 521006001284 hinge residues; other site 521006001285 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 521006001286 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 521006001287 dimer interface [polypeptide binding]; other site 521006001288 conserved gate region; other site 521006001289 putative PBP binding loops; other site 521006001290 ABC-ATPase subunit interface; other site 521006001291 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 521006001292 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 521006001293 Walker A/P-loop; other site 521006001294 ATP binding site [chemical binding]; other site 521006001295 Q-loop/lid; other site 521006001296 ABC transporter signature motif; other site 521006001297 Walker B; other site 521006001298 D-loop; other site 521006001299 H-loop/switch region; other site 521006001300 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 521006001301 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 521006001302 active site 521006001303 substrate binding site [chemical binding]; other site 521006001304 metal binding site [ion binding]; metal-binding site 521006001305 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; cl00197 521006001306 active site 521006001307 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 521006001308 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 521006001309 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 521006001310 putative active site [active] 521006001311 catalytic residue [active] 521006001312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 521006001313 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 521006001314 putative coenzyme Q binding site [chemical binding]; other site 521006001315 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 521006001316 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 521006001317 Walker A motif; other site 521006001318 ATP binding site [chemical binding]; other site 521006001319 Walker B motif; other site 521006001320 arginine finger; other site 521006001321 Peptidase family M41; Region: Peptidase_M41; pfam01434 521006001322 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 521006001323 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 521006001324 S-adenosylmethionine binding site [chemical binding]; other site 521006001325 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 521006001326 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 521006001327 dimer interface [polypeptide binding]; other site 521006001328 active site 521006001329 aspartate-rich active site metal binding site; other site 521006001330 allosteric magnesium binding site [ion binding]; other site 521006001331 Schiff base residues; other site 521006001332 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 521006001333 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 521006001334 homodimer interface [polypeptide binding]; other site 521006001335 substrate-cofactor binding pocket; other site 521006001336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006001337 catalytic residue [active] 521006001338 putative GTP cyclohydrolase; Provisional; Region: PRK13674 521006001339 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 521006001340 dimer interface [polypeptide binding]; other site 521006001341 FMN binding site [chemical binding]; other site 521006001342 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 521006001343 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 521006001344 RNA binding surface [nucleotide binding]; other site 521006001345 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 521006001346 active site 521006001347 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04539 521006001348 ATP-NAD kinase; Region: NAD_kinase; pfam01513 521006001349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 521006001350 SCP-2 sterol transfer family; Region: SCP2; cl01225 521006001351 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 521006001352 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 521006001353 putative NAD(P) binding site [chemical binding]; other site 521006001354 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 521006001355 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 521006001356 Bacterial transcriptional repressor; Region: TetR; pfam13972 521006001357 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 521006001358 FAD binding domain; Region: FAD_binding_4; pfam01565 521006001359 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 521006001360 multidrug efflux protein; Reviewed; Region: PRK01766 521006001361 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 521006001362 cation binding site [ion binding]; other site 521006001363 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 521006001364 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 521006001365 dimer interface [polypeptide binding]; other site 521006001366 motif 1; other site 521006001367 active site 521006001368 motif 2; other site 521006001369 motif 3; other site 521006001370 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 521006001371 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 521006001372 GDP-binding site [chemical binding]; other site 521006001373 ACT binding site; other site 521006001374 IMP binding site; other site 521006001375 heat shock protein HtpX; Provisional; Region: PRK05457 521006001376 adenylate kinase; Reviewed; Region: adk; PRK00279 521006001377 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 521006001378 AMP-binding site [chemical binding]; other site 521006001379 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 521006001380 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 521006001381 active site 521006001382 dimer interface [polypeptide binding]; other site 521006001383 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 521006001384 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521006001385 putative ribose interaction site [chemical binding]; other site 521006001386 putative ADP binding site [chemical binding]; other site 521006001387 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 521006001388 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 521006001389 NADP binding site [chemical binding]; other site 521006001390 homopentamer interface [polypeptide binding]; other site 521006001391 substrate binding site [chemical binding]; other site 521006001392 active site 521006001393 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 521006001394 HsdM N-terminal domain; Region: HsdM_N; pfam12161 521006001395 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 521006001396 S-adenosylmethionine binding site [chemical binding]; other site 521006001397 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 521006001398 BRO family, N-terminal domain; Region: Bro-N; pfam02498 521006001399 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 521006001400 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 521006001401 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 521006001402 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 521006001403 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 521006001404 ATP binding site [chemical binding]; other site 521006001405 putative Mg++ binding site [ion binding]; other site 521006001406 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 521006001407 Clp amino terminal domain; Region: Clp_N; pfam02861 521006001408 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 521006001409 Walker A motif; other site 521006001410 ATP binding site [chemical binding]; other site 521006001411 Walker B motif; other site 521006001412 arginine finger; other site 521006001413 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 521006001414 Walker A motif; other site 521006001415 ATP binding site [chemical binding]; other site 521006001416 Walker B motif; other site 521006001417 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 521006001418 Uncharacterized conserved protein [Function unknown]; Region: COG2127 521006001419 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 521006001420 DNA-binding site [nucleotide binding]; DNA binding site 521006001421 RNA-binding motif; other site 521006001422 peptidase PmbA; Provisional; Region: PRK11040 521006001423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 521006001424 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 521006001425 DHH family; Region: DHH; pfam01368 521006001426 DHHA1 domain; Region: DHHA1; pfam02272 521006001427 poly(A) polymerase; Region: pcnB; TIGR01942 521006001428 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 521006001429 active site 521006001430 NTP binding site [chemical binding]; other site 521006001431 metal binding triad [ion binding]; metal-binding site 521006001432 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 521006001433 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 521006001434 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 521006001435 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 521006001436 PhoH-like protein; Region: PhoH; pfam02562 521006001437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521006001438 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 521006001439 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 521006001440 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 521006001441 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 521006001442 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 521006001443 trimer interface [polypeptide binding]; other site 521006001444 active site 521006001445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 521006001446 MORN repeat; Region: MORN; cl14787 521006001447 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 521006001448 GTP-binding protein Der; Reviewed; Region: PRK00093 521006001449 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 521006001450 G1 box; other site 521006001451 GTP/Mg2+ binding site [chemical binding]; other site 521006001452 Switch I region; other site 521006001453 G2 box; other site 521006001454 Switch II region; other site 521006001455 G3 box; other site 521006001456 G4 box; other site 521006001457 G5 box; other site 521006001458 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 521006001459 G1 box; other site 521006001460 GTP/Mg2+ binding site [chemical binding]; other site 521006001461 Switch I region; other site 521006001462 G2 box; other site 521006001463 G3 box; other site 521006001464 Switch II region; other site 521006001465 G4 box; other site 521006001466 G5 box; other site 521006001467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 521006001468 histidyl-tRNA synthetase; Region: hisS; TIGR00442 521006001469 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 521006001470 dimer interface [polypeptide binding]; other site 521006001471 motif 1; other site 521006001472 active site 521006001473 motif 2; other site 521006001474 motif 3; other site 521006001475 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 521006001476 anticodon binding site; other site 521006001477 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 521006001478 putative active site [active] 521006001479 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 521006001480 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 521006001481 probable active site [active] 521006001482 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 521006001483 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521006001484 spermidine synthase; Provisional; Region: PRK04457 521006001485 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 521006001486 oligomerization interface [polypeptide binding]; other site 521006001487 active site 521006001488 metal binding site [ion binding]; metal-binding site 521006001489 pantoate--beta-alanine ligase; Region: panC; TIGR00018 521006001490 Pantoate-beta-alanine ligase; Region: PanC; cd00560 521006001491 active site 521006001492 ATP-binding site [chemical binding]; other site 521006001493 pantoate-binding site; other site 521006001494 HXXH motif; other site 521006001495 TPR repeat; Region: TPR_11; pfam13414 521006001496 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 521006001497 binding surface 521006001498 TPR motif; other site 521006001499 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 521006001500 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 521006001501 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 521006001502 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 521006001503 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 521006001504 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 521006001505 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 521006001506 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006001507 active site 521006001508 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 521006001509 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 521006001510 5S rRNA interface [nucleotide binding]; other site 521006001511 CTC domain interface [polypeptide binding]; other site 521006001512 L16 interface [polypeptide binding]; other site 521006001513 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 521006001514 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 521006001515 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 521006001516 threonine dehydratase; Reviewed; Region: PRK09224 521006001517 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 521006001518 tetramer interface [polypeptide binding]; other site 521006001519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006001520 catalytic residue [active] 521006001521 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 521006001522 putative Ile/Val binding site [chemical binding]; other site 521006001523 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 521006001524 putative Ile/Val binding site [chemical binding]; other site 521006001525 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 521006001526 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 521006001527 Walker A/P-loop; other site 521006001528 ATP binding site [chemical binding]; other site 521006001529 Q-loop/lid; other site 521006001530 ABC transporter signature motif; other site 521006001531 Walker B; other site 521006001532 D-loop; other site 521006001533 H-loop/switch region; other site 521006001534 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 521006001535 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 521006001536 dimer interface [polypeptide binding]; other site 521006001537 conserved gate region; other site 521006001538 putative PBP binding loops; other site 521006001539 ABC-ATPase subunit interface; other site 521006001540 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 521006001541 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 521006001542 dimer interface [polypeptide binding]; other site 521006001543 conserved gate region; other site 521006001544 putative PBP binding loops; other site 521006001545 ABC-ATPase subunit interface; other site 521006001546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 521006001547 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 521006001548 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 521006001549 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 521006001550 replicative DNA helicase; Region: DnaB; TIGR00665 521006001551 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 521006001552 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 521006001553 Walker A motif; other site 521006001554 ATP binding site [chemical binding]; other site 521006001555 Walker B motif; other site 521006001556 DNA binding loops [nucleotide binding] 521006001557 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 521006001558 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 521006001559 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 521006001560 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 521006001561 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 521006001562 PilX N-terminal; Region: PilX_N; pfam14341 521006001563 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006001564 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 521006001565 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 521006001566 Predicted membrane protein [Function unknown]; Region: COG4541 521006001567 AzlC protein; Region: AzlC; cl00570 521006001568 AzlC protein; Region: AzlC; cl00570 521006001569 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 521006001570 trimer interface [polypeptide binding]; other site 521006001571 active site 521006001572 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 521006001573 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 521006001574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006001575 homodimer interface [polypeptide binding]; other site 521006001576 catalytic residue [active] 521006001577 hypothetical protein; Validated; Region: PRK02101 521006001578 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 521006001579 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 521006001580 active site 521006001581 Int/Topo IB signature motif; other site 521006001582 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 521006001583 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 521006001584 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 521006001585 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 521006001586 non-specific DNA binding site [nucleotide binding]; other site 521006001587 salt bridge; other site 521006001588 sequence-specific DNA binding site [nucleotide binding]; other site 521006001589 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 521006001590 non-specific DNA binding site [nucleotide binding]; other site 521006001591 salt bridge; other site 521006001592 sequence-specific DNA binding site [nucleotide binding]; other site 521006001593 Predicted transcriptional regulator [Transcription]; Region: COG2932 521006001594 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 521006001595 Catalytic site [active] 521006001596 Helix-turn-helix domain; Region: HTH_39; pfam14090 521006001597 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 521006001598 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 521006001599 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 521006001600 Walker A motif; other site 521006001601 ATP binding site [chemical binding]; other site 521006001602 Walker B motif; other site 521006001603 DNA binding loops [nucleotide binding] 521006001604 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 521006001605 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 521006001606 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 521006001607 NinB protein; Region: NinB; pfam05772 521006001608 HNH endonuclease; Region: HNH_3; pfam13392 521006001609 AP2 domain; Region: AP2; pfam00847 521006001610 Phage terminase large subunit; Region: Terminase_3; cl12054 521006001611 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 521006001612 Prophage antirepressor [Transcription]; Region: COG3617 521006001613 BRO family, N-terminal domain; Region: Bro-N; pfam02498 521006001614 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 521006001615 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 521006001616 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 521006001617 Cytochrome C' Region: Cytochrom_C_2; cl01610 521006001618 malonic semialdehyde reductase; Provisional; Region: PRK10538 521006001619 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 521006001620 putative NAD(P) binding site [chemical binding]; other site 521006001621 homotetramer interface [polypeptide binding]; other site 521006001622 homodimer interface [polypeptide binding]; other site 521006001623 active site 521006001624 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 521006001625 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006001626 Autotransporter beta-domain; Region: Autotransporter; pfam03797 521006001627 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 521006001628 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 521006001629 catalytic residues [active] 521006001630 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 521006001631 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 521006001632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006001633 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006001634 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006001635 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006001636 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006001637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006001638 Uncharacterized small protein [Function unknown]; Region: COG2879 521006001639 carbon starvation protein A; Provisional; Region: PRK15015 521006001640 Carbon starvation protein CstA; Region: CstA; pfam02554 521006001641 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 521006001642 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 521006001643 succinic semialdehyde dehydrogenase; Region: PLN02278 521006001644 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 521006001645 tetramerization interface [polypeptide binding]; other site 521006001646 NAD(P) binding site [chemical binding]; other site 521006001647 catalytic residues [active] 521006001648 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 521006001649 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 521006001650 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 521006001651 Transporter associated domain; Region: CorC_HlyC; smart01091 521006001652 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 521006001653 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521006001654 Peptidase family M23; Region: Peptidase_M23; pfam01551 521006001655 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 521006001656 recombination regulator RecX; Reviewed; Region: recX; PRK00117 521006001657 phosphoglycolate phosphatase; Provisional; Region: PRK13222 521006001658 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 521006001659 motif II; other site 521006001660 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 521006001661 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 521006001662 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 521006001663 NAD(P) binding site [chemical binding]; other site 521006001664 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 521006001665 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 521006001666 active site 1 [active] 521006001667 dimer interface [polypeptide binding]; other site 521006001668 hexamer interface [polypeptide binding]; other site 521006001669 active site 2 [active] 521006001670 aminotransferase AlaT; Validated; Region: PRK09265 521006001671 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 521006001672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006001673 homodimer interface [polypeptide binding]; other site 521006001674 catalytic residue [active] 521006001675 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 521006001676 Clp amino terminal domain; Region: Clp_N; pfam02861 521006001677 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 521006001678 Walker A motif; other site 521006001679 ATP binding site [chemical binding]; other site 521006001680 Walker B motif; other site 521006001681 arginine finger; other site 521006001682 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 521006001683 Walker A motif; other site 521006001684 ATP binding site [chemical binding]; other site 521006001685 Walker B motif; other site 521006001686 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 521006001687 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 521006001688 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 521006001689 active site 521006001690 HIGH motif; other site 521006001691 dimer interface [polypeptide binding]; other site 521006001692 KMSKS motif; other site 521006001693 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 521006001694 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 521006001695 Protein of unknown function (DUF560); Region: DUF560; pfam04575 521006001696 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006001697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 521006001698 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 521006001699 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 521006001700 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 521006001701 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 521006001702 N-acetyl-D-glucosamine binding site [chemical binding]; other site 521006001703 catalytic residue [active] 521006001704 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 521006001705 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521006001706 putative substrate translocation pore; other site 521006001707 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 521006001708 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 521006001709 dimer interface [polypeptide binding]; other site 521006001710 ssDNA binding site [nucleotide binding]; other site 521006001711 tetramer (dimer of dimers) interface [polypeptide binding]; other site 521006001712 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 521006001713 EamA-like transporter family; Region: EamA; pfam00892 521006001714 EamA-like transporter family; Region: EamA; pfam00892 521006001715 fumarate hydratase; Reviewed; Region: fumC; PRK00485 521006001716 Class II fumarases; Region: Fumarase_classII; cd01362 521006001717 active site 521006001718 tetramer interface [polypeptide binding]; other site 521006001719 transketolase; Reviewed; Region: PRK12753 521006001720 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 521006001721 TPP-binding site [chemical binding]; other site 521006001722 dimer interface [polypeptide binding]; other site 521006001723 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 521006001724 PYR/PP interface [polypeptide binding]; other site 521006001725 dimer interface [polypeptide binding]; other site 521006001726 TPP binding site [chemical binding]; other site 521006001727 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 521006001728 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 521006001729 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521006001730 4Fe-4S binding domain; Region: Fer4_3; pfam12798 521006001731 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 521006001732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 521006001733 FixH; Region: FixH; pfam05751 521006001734 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 521006001735 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 521006001736 FMN binding site [chemical binding]; other site 521006001737 substrate binding site [chemical binding]; other site 521006001738 putative catalytic residue [active] 521006001739 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 521006001740 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 521006001741 active site 521006001742 catalytic site [active] 521006001743 substrate binding site [chemical binding]; other site 521006001744 Integrase core domain; Region: rve; pfam00665 521006001745 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 521006001746 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 521006001747 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 521006001748 non-specific DNA binding site [nucleotide binding]; other site 521006001749 salt bridge; other site 521006001750 sequence-specific DNA binding site [nucleotide binding]; other site 521006001751 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 521006001752 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 521006001753 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006001754 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 521006001755 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 521006001756 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 521006001757 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 521006001758 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 521006001759 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 521006001760 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 521006001761 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 521006001762 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 521006001763 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 521006001764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 521006001765 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 521006001766 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 521006001767 DNA binding residues [nucleotide binding] 521006001768 DNA primase; Validated; Region: dnaG; PRK05667 521006001769 CHC2 zinc finger; Region: zf-CHC2; pfam01807 521006001770 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 521006001771 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 521006001772 active site 521006001773 metal binding site [ion binding]; metal-binding site 521006001774 interdomain interaction site; other site 521006001775 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 521006001776 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 521006001777 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 521006001778 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 521006001779 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 521006001780 SEC-C motif; Region: SEC-C; pfam02810 521006001781 Protein of unknown function (DUF721); Region: DUF721; pfam05258 521006001782 Azurin [Energy production and conversion]; Region: COG3241 521006001783 Hemerythrin-like domain; Region: Hr-like; cd12108 521006001784 Fe binding site [ion binding]; other site 521006001785 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 521006001786 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 521006001787 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 521006001788 metal binding site [ion binding]; metal-binding site 521006001789 dimer interface [polypeptide binding]; other site 521006001790 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 521006001791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 521006001792 PhosphatidylEthanolamine-Binding Protein (PEBP) domain; Region: PEBP; cl00227 521006001793 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 521006001794 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 521006001795 DNA binding site [nucleotide binding] 521006001796 active site 521006001797 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 521006001798 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 521006001799 putative active site [active] 521006001800 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 521006001801 SmpB-tmRNA interface; other site 521006001802 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 521006001803 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 521006001804 Autotransporter beta-domain; Region: Autotransporter; pfam03797 521006001805 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 521006001806 FAD binding domain; Region: FAD_binding_4; pfam01565 521006001807 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 521006001808 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 521006001809 active site lid residues [active] 521006001810 substrate binding pocket [chemical binding]; other site 521006001811 catalytic residues [active] 521006001812 substrate-Mg2+ binding site; other site 521006001813 aspartate-rich region 1; other site 521006001814 aspartate-rich region 2; other site 521006001815 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 521006001816 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 521006001817 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 521006001818 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 521006001819 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 521006001820 DsbD alpha interface [polypeptide binding]; other site 521006001821 catalytic residues [active] 521006001822 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 521006001823 propionate/acetate kinase; Provisional; Region: PRK12379 521006001824 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 521006001825 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 521006001826 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 521006001827 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 521006001828 active site 521006001829 catalytic site [active] 521006001830 substrate binding site [chemical binding]; other site 521006001831 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 521006001832 substrate binding site; other site 521006001833 dimer interface; other site 521006001834 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 521006001835 homotrimer interaction site [polypeptide binding]; other site 521006001836 zinc binding site [ion binding]; other site 521006001837 CDP-binding sites; other site 521006001838 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 521006001839 tetramer (dimer of dimers) interface [polypeptide binding]; other site 521006001840 active site 521006001841 dimer interface [polypeptide binding]; other site 521006001842 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 521006001843 Catalytic site; other site 521006001844 Staphylococcal nuclease homologue; Region: SNase; pfam00565 521006001845 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 521006001846 dimer interface [polypeptide binding]; other site 521006001847 conserved gate region; other site 521006001848 putative PBP binding loops; other site 521006001849 ABC-ATPase subunit interface; other site 521006001850 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 521006001851 Sulfatase; Region: Sulfatase; cl17466 521006001852 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 521006001853 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 521006001854 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 521006001855 active site 521006001856 HIGH motif; other site 521006001857 KMSK motif region; other site 521006001858 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 521006001859 tRNA binding surface [nucleotide binding]; other site 521006001860 anticodon binding site; other site 521006001861 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 521006001862 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 521006001863 active site 521006001864 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 521006001865 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 521006001866 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 521006001867 putative ATP binding site [chemical binding]; other site 521006001868 putative substrate interface [chemical binding]; other site 521006001869 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 521006001870 Ligand Binding Site [chemical binding]; other site 521006001871 ribonuclease PH; Reviewed; Region: rph; PRK00173 521006001872 Ribonuclease PH; Region: RNase_PH_bact; cd11362 521006001873 hexamer interface [polypeptide binding]; other site 521006001874 active site 521006001875 aspartate kinase; Reviewed; Region: PRK06635 521006001876 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 521006001877 putative nucleotide binding site [chemical binding]; other site 521006001878 putative catalytic residues [active] 521006001879 putative Mg ion binding site [ion binding]; other site 521006001880 putative aspartate binding site [chemical binding]; other site 521006001881 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 521006001882 putative allosteric regulatory site; other site 521006001883 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 521006001884 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 521006001885 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 521006001886 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 521006001887 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006001888 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 521006001889 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 521006001890 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 521006001891 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 521006001892 dihydrodipicolinate synthase; Region: dapA; TIGR00674 521006001893 dimer interface [polypeptide binding]; other site 521006001894 active site 521006001895 catalytic residue [active] 521006001896 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 521006001897 xanthine permease; Region: pbuX; TIGR03173 521006001898 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 521006001899 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 521006001900 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 521006001901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 521006001902 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 521006001903 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 521006001904 nucleoside/Zn binding site; other site 521006001905 dimer interface [polypeptide binding]; other site 521006001906 catalytic motif [active] 521006001907 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 521006001908 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 521006001909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 521006001910 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 521006001911 elongation factor P; Validated; Region: PRK00529 521006001912 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 521006001913 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 521006001914 RNA binding site [nucleotide binding]; other site 521006001915 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 521006001916 RNA binding site [nucleotide binding]; other site 521006001917 Methyltransferase domain; Region: Methyltransf_23; pfam13489 521006001918 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 521006001919 S-adenosylmethionine binding site [chemical binding]; other site 521006001920 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 521006001921 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 521006001922 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 521006001923 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 521006001924 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 521006001925 FAD binding site [chemical binding]; other site 521006001926 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 521006001927 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 521006001928 THF binding site; other site 521006001929 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 521006001930 substrate binding site [chemical binding]; other site 521006001931 THF binding site; other site 521006001932 zinc-binding site [ion binding]; other site 521006001933 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 521006001934 catalytic triad [active] 521006001935 dimer interface [polypeptide binding]; other site 521006001936 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 521006001937 GSH binding site [chemical binding]; other site 521006001938 catalytic residues [active] 521006001939 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 521006001940 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521006001941 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 521006001942 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 521006001943 Iron-sulfur protein interface; other site 521006001944 proximal quinone binding site [chemical binding]; other site 521006001945 SdhD (CybS) interface [polypeptide binding]; other site 521006001946 proximal heme binding site [chemical binding]; other site 521006001947 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 521006001948 SdhC subunit interface [polypeptide binding]; other site 521006001949 proximal heme binding site [chemical binding]; other site 521006001950 cardiolipin binding site; other site 521006001951 Iron-sulfur protein interface; other site 521006001952 proximal quinone binding site [chemical binding]; other site 521006001953 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 521006001954 L-aspartate oxidase; Provisional; Region: PRK06175 521006001955 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 521006001956 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 521006001957 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 521006001958 Uncharacterized conserved protein [Function unknown]; Region: COG2938 521006001959 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 521006001960 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 521006001961 dimer interface [polypeptide binding]; other site 521006001962 active site 521006001963 citrylCoA binding site [chemical binding]; other site 521006001964 NADH binding [chemical binding]; other site 521006001965 cationic pore residues; other site 521006001966 oxalacetate/citrate binding site [chemical binding]; other site 521006001967 coenzyme A binding site [chemical binding]; other site 521006001968 catalytic triad [active] 521006001969 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 521006001970 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 521006001971 TPP-binding site [chemical binding]; other site 521006001972 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 521006001973 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 521006001974 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 521006001975 E3 interaction surface; other site 521006001976 lipoyl attachment site [posttranslational modification]; other site 521006001977 e3 binding domain; Region: E3_binding; pfam02817 521006001978 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 521006001979 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 521006001980 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 521006001981 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521006001982 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 521006001983 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 521006001984 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 521006001985 CoA-ligase; Region: Ligase_CoA; pfam00549 521006001986 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 521006001987 CoA binding domain; Region: CoA_binding; smart00881 521006001988 CoA-ligase; Region: Ligase_CoA; pfam00549 521006001989 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006001990 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006001991 Homeodomain-like domain; Region: HTH_23; cl17451 521006001992 HTH-like domain; Region: HTH_21; pfam13276 521006001993 Integrase core domain; Region: rve; pfam00665 521006001994 Integrase core domain; Region: rve; pfam00665 521006001995 Integrase core domain; Region: rve_2; pfam13333 521006001996 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 521006001997 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 521006001998 putative active site [active] 521006001999 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 521006002000 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 521006002001 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 521006002002 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 521006002003 Uncharacterized conserved protein [Function unknown]; Region: COG1556 521006002004 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 521006002005 Cysteine-rich domain; Region: CCG; pfam02754 521006002006 Cysteine-rich domain; Region: CCG; pfam02754 521006002007 putative transporter; Provisional; Region: PRK10504 521006002008 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 521006002009 putative substrate translocation pore; other site 521006002010 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 521006002011 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 521006002012 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 521006002013 putative active site [active] 521006002014 catalytic site [active] 521006002015 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 521006002016 putative active site [active] 521006002017 catalytic site [active] 521006002018 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 521006002019 NlpC/P60 family; Region: NLPC_P60; pfam00877 521006002020 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 521006002021 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 521006002022 hinge; other site 521006002023 active site 521006002024 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 521006002025 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 521006002026 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 521006002027 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 521006002028 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 521006002029 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 521006002030 trimer interface [polypeptide binding]; other site 521006002031 eyelet of channel; other site 521006002032 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 521006002033 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 521006002034 FMN binding site [chemical binding]; other site 521006002035 active site 521006002036 catalytic residues [active] 521006002037 substrate binding site [chemical binding]; other site 521006002038 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 521006002039 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 521006002040 FAD binding domain; Region: FAD_binding_4; pfam01565 521006002041 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 521006002042 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 521006002043 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 521006002044 Cysteine-rich domain; Region: CCG; pfam02754 521006002045 Cysteine-rich domain; Region: CCG; pfam02754 521006002046 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 521006002047 D-lactate dehydrogenase; Provisional; Region: PRK11183 521006002048 FAD binding domain; Region: FAD_binding_4; pfam01565 521006002049 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 521006002050 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 521006002051 Uncharacterized conserved protein [Function unknown]; Region: COG2128 521006002052 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 521006002053 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 521006002054 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 521006002055 active site 521006002056 Rubredoxin [Energy production and conversion]; Region: COG1773 521006002057 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 521006002058 iron binding site [ion binding]; other site 521006002059 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006002060 Homeodomain-like domain; Region: HTH_23; cl17451 521006002061 HTH-like domain; Region: HTH_21; pfam13276 521006002062 Integrase core domain; Region: rve; pfam00665 521006002063 Integrase core domain; Region: rve; pfam00665 521006002064 Integrase core domain; Region: rve_2; pfam13333 521006002065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 521006002066 Smr domain; Region: Smr; pfam01713 521006002067 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521006002068 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 521006002069 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521006002070 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 521006002071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521006002072 Coenzyme A binding pocket [chemical binding]; other site 521006002073 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 521006002074 XdhC Rossmann domain; Region: XdhC_C; pfam13478 521006002075 ATP-grasp domain; Region: ATP-grasp; pfam02222 521006002076 NgoMIV restriction enzyme; Region: NgoMIV_restric; pfam09015 521006002077 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006002078 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 521006002079 cofactor binding site; other site 521006002080 DNA binding site [nucleotide binding] 521006002081 substrate interaction site [chemical binding]; other site 521006002082 anthranilate synthase component I; Provisional; Region: PRK13565 521006002083 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 521006002084 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 521006002085 hypothetical protein; Provisional; Region: PRK10649 521006002086 ABC transporter ATPase component; Reviewed; Region: PRK11147 521006002087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006002088 Walker A/P-loop; other site 521006002089 ATP binding site [chemical binding]; other site 521006002090 Q-loop/lid; other site 521006002091 ABC transporter signature motif; other site 521006002092 Walker B; other site 521006002093 D-loop; other site 521006002094 H-loop/switch region; other site 521006002095 ABC transporter; Region: ABC_tran_2; pfam12848 521006002096 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006002097 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 521006002098 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 521006002099 Outer membrane protein OpcA; Region: OpcA; pfam07239 521006002100 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 521006002101 non-specific DNA binding site [nucleotide binding]; other site 521006002102 salt bridge; other site 521006002103 sequence-specific DNA binding site [nucleotide binding]; other site 521006002104 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 521006002105 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 521006002106 dimer interface [polypeptide binding]; other site 521006002107 active site 521006002108 glycine-pyridoxal phosphate binding site [chemical binding]; other site 521006002109 folate binding site [chemical binding]; other site 521006002110 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 521006002111 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 521006002112 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 521006002113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 521006002114 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 521006002115 AMP binding site [chemical binding]; other site 521006002116 metal binding site [ion binding]; metal-binding site 521006002117 active site 521006002118 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 521006002119 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 521006002120 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 521006002121 active site 521006002122 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 521006002123 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 521006002124 dimer interface [polypeptide binding]; other site 521006002125 ADP-ribose binding site [chemical binding]; other site 521006002126 active site 521006002127 nudix motif; other site 521006002128 metal binding site [ion binding]; metal-binding site 521006002129 camphor resistance protein CrcB; Provisional; Region: PRK14230 521006002130 Predicted membrane protein [Function unknown]; Region: COG3235 521006002131 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 521006002132 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 521006002133 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 521006002134 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 521006002135 putative catalytic cysteine [active] 521006002136 glutamate 5-kinase; Region: proB; TIGR01027 521006002137 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 521006002138 nucleotide binding site [chemical binding]; other site 521006002139 homotetrameric interface [polypeptide binding]; other site 521006002140 putative phosphate binding site [ion binding]; other site 521006002141 putative allosteric binding site; other site 521006002142 2-isopropylmalate synthase; Validated; Region: PRK00915 521006002143 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 521006002144 active site 521006002145 catalytic residues [active] 521006002146 metal binding site [ion binding]; metal-binding site 521006002147 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 521006002148 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 521006002149 yecA family protein; Region: ygfB_yecA; TIGR02292 521006002150 SEC-C motif; Region: SEC-C; pfam02810 521006002151 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 521006002152 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 521006002153 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 521006002154 putative active site [active] 521006002155 Zn binding site [ion binding]; other site 521006002156 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 521006002157 feedback inhibition sensing region; other site 521006002158 homohexameric interface [polypeptide binding]; other site 521006002159 nucleotide binding site [chemical binding]; other site 521006002160 N-acetyl-L-glutamate binding site [chemical binding]; other site 521006002161 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 521006002162 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 521006002163 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 521006002164 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 521006002165 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 521006002166 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 521006002167 ABC transporter; Region: ABC_tran; pfam00005 521006002168 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 521006002169 Putative bacterial lipoprotein (DUF799); Region: DUF799; pfam05643 521006002170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 521006002171 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 521006002172 short chain dehydrogenase; Provisional; Region: PRK08703 521006002173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 521006002174 NAD(P) binding site [chemical binding]; other site 521006002175 active site 521006002176 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 521006002177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 521006002178 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 521006002179 active site lid residues [active] 521006002180 substrate binding pocket [chemical binding]; other site 521006002181 catalytic residues [active] 521006002182 substrate-Mg2+ binding site; other site 521006002183 aspartate-rich region 1; other site 521006002184 aspartate-rich region 2; other site 521006002185 chaperone protein HscA; Provisional; Region: hscA; PRK05183 521006002186 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 521006002187 nucleotide binding site [chemical binding]; other site 521006002188 putative NEF/HSP70 interaction site [polypeptide binding]; other site 521006002189 SBD interface [polypeptide binding]; other site 521006002190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 521006002191 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 521006002192 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 521006002193 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 521006002194 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 521006002195 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 521006002196 catalytic loop [active] 521006002197 iron binding site [ion binding]; other site 521006002198 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 521006002199 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 521006002200 RNA binding surface [nucleotide binding]; other site 521006002201 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 521006002202 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 521006002203 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 521006002204 Ligand Binding Site [chemical binding]; other site 521006002205 TilS substrate binding domain; Region: TilS; pfam09179 521006002206 tRNA(Ile)-lysidine synthetase, C-terminal domain; Region: lysidine_TilS_C; TIGR02433 521006002207 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 521006002208 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 521006002209 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 521006002210 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 521006002211 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521006002212 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521006002213 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521006002214 biotin synthase; Region: bioB; TIGR00433 521006002215 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 521006002216 FeS/SAM binding site; other site 521006002217 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 521006002218 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 521006002219 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 521006002220 putative active site [active] 521006002221 putative metal binding site [ion binding]; other site 521006002222 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 521006002223 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 521006002224 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 521006002225 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 521006002226 sulfite reductase subunit beta; Provisional; Region: PRK13504 521006002227 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 521006002228 FAD binding pocket [chemical binding]; other site 521006002229 FAD binding motif [chemical binding]; other site 521006002230 catalytic residues [active] 521006002231 NAD binding pocket [chemical binding]; other site 521006002232 phosphate binding motif [ion binding]; other site 521006002233 beta-alpha-beta structure motif; other site 521006002234 Flavodoxin; Region: Flavodoxin_1; pfam00258 521006002235 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 521006002236 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 521006002237 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 521006002238 Cytochrome b [Energy production and conversion]; Region: COG3658 521006002239 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 521006002240 putative substrate binding site [chemical binding]; other site 521006002241 putative ATP binding site [chemical binding]; other site 521006002242 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 521006002243 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 521006002244 G1 box; other site 521006002245 putative GEF interaction site [polypeptide binding]; other site 521006002246 GTP/Mg2+ binding site [chemical binding]; other site 521006002247 Switch I region; other site 521006002248 G2 box; other site 521006002249 G3 box; other site 521006002250 Switch II region; other site 521006002251 G4 box; other site 521006002252 G5 box; other site 521006002253 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 521006002254 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 521006002255 ribonuclease R; Region: RNase_R; TIGR02063 521006002256 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 521006002257 RNB domain; Region: RNB; pfam00773 521006002258 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 521006002259 RNA binding site [nucleotide binding]; other site 521006002260 SPRY domain; Region: SPRY; cl02614 521006002261 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 521006002262 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 521006002263 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 521006002264 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 521006002265 active site 521006002266 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 521006002267 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 521006002268 metal binding triad; other site 521006002269 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 521006002270 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521006002271 Zn2+ binding site [ion binding]; other site 521006002272 Mg2+ binding site [ion binding]; other site 521006002273 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 521006002274 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 521006002275 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 521006002276 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 521006002277 non-specific DNA binding site [nucleotide binding]; other site 521006002278 salt bridge; other site 521006002279 sequence-specific DNA binding site [nucleotide binding]; other site 521006002280 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 521006002281 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 521006002282 heme binding site [chemical binding]; other site 521006002283 ferroxidase pore; other site 521006002284 ferroxidase diiron center [ion binding]; other site 521006002285 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 521006002286 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 521006002287 heme binding site [chemical binding]; other site 521006002288 ferroxidase pore; other site 521006002289 ferroxidase diiron center [ion binding]; other site 521006002290 lipoyl synthase; Provisional; Region: PRK05481 521006002291 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 521006002292 FeS/SAM binding site; other site 521006002293 lipoate-protein ligase B; Provisional; Region: PRK14342 521006002294 Uncharacterized conserved protein [Function unknown]; Region: COG2921 521006002295 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 521006002296 Domain of unknown function DUF20; Region: UPF0118; pfam01594 521006002297 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 521006002298 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 521006002299 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 521006002300 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 521006002301 ligand binding site [chemical binding]; other site 521006002302 active site 521006002303 UGI interface [polypeptide binding]; other site 521006002304 catalytic site [active] 521006002305 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 521006002306 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 521006002307 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 521006002308 P-loop; other site 521006002309 Magnesium ion binding site [ion binding]; other site 521006002310 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 521006002311 Magnesium ion binding site [ion binding]; other site 521006002312 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 521006002313 ParB-like nuclease domain; Region: ParBc; pfam02195 521006002314 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 521006002315 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 521006002316 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 521006002317 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 521006002318 dimer interface [polypeptide binding]; other site 521006002319 ssDNA binding site [nucleotide binding]; other site 521006002320 tetramer (dimer of dimers) interface [polypeptide binding]; other site 521006002321 DNA topoisomerase III; Provisional; Region: PRK07726 521006002322 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 521006002323 active site 521006002324 putative interdomain interaction site [polypeptide binding]; other site 521006002325 putative metal-binding site [ion binding]; other site 521006002326 putative nucleotide binding site [chemical binding]; other site 521006002327 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 521006002328 domain I; other site 521006002329 DNA binding groove [nucleotide binding] 521006002330 phosphate binding site [ion binding]; other site 521006002331 domain II; other site 521006002332 domain III; other site 521006002333 nucleotide binding site [chemical binding]; other site 521006002334 catalytic site [active] 521006002335 domain IV; other site 521006002336 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 521006002337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 521006002338 Peptidase M15; Region: Peptidase_M15_3; cl01194 521006002339 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 521006002340 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 521006002341 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 521006002342 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 521006002343 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 521006002344 DNA binding site [nucleotide binding] 521006002345 helicase superfamily c-terminal domain; Region: HELICc; smart00490 521006002346 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 521006002347 S-adenosylmethionine binding site [chemical binding]; other site 521006002348 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 521006002349 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 521006002350 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 521006002351 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 521006002352 DNA-binding site [nucleotide binding]; DNA binding site 521006002353 RNA-binding motif; other site 521006002354 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 521006002355 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 521006002356 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 521006002357 TraF-like protein; Region: TraF-like; TIGR02740 521006002358 F plasmid transfer operon protein; Region: TraF; pfam13728 521006002359 D1, D2 subunits of photosystem II (PSII); M, L subunits of bacterial photosynthetic reaction center; Region: Photo_RC; cl08220 521006002360 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 521006002361 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 521006002362 TraU protein; Region: TraU; pfam06834 521006002363 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 521006002364 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 521006002365 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 521006002366 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 521006002367 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 521006002368 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 521006002369 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 521006002370 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 521006002371 dimerization domain [polypeptide binding]; other site 521006002372 dimer interface [polypeptide binding]; other site 521006002373 catalytic residues [active] 521006002374 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 521006002375 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 521006002376 TraK protein; Region: TraK; pfam06586 521006002377 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 521006002378 TraE protein; Region: TraE; cl05060 521006002379 TraL protein; Region: TraL; pfam07178 521006002380 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 521006002381 OmpA family; Region: OmpA; pfam00691 521006002382 ligand binding site [chemical binding]; other site 521006002383 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 521006002384 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 521006002385 N-acetyl-D-glucosamine binding site [chemical binding]; other site 521006002386 catalytic residue [active] 521006002387 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 521006002388 Putative helicase; Region: TraI_2; pfam07514 521006002389 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 521006002390 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 521006002391 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 521006002392 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 521006002393 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 521006002394 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006002395 Walker A/P-loop; other site 521006002396 ATP binding site [chemical binding]; other site 521006002397 Q-loop/lid; other site 521006002398 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006002399 ABC transporter signature motif; other site 521006002400 Walker B; other site 521006002401 D-loop; other site 521006002402 ABC transporter; Region: ABC_tran_2; pfam12848 521006002403 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006002404 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 521006002405 homoserine dehydrogenase; Provisional; Region: PRK06349 521006002406 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 521006002407 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 521006002408 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 521006002409 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 521006002410 IHF dimer interface [polypeptide binding]; other site 521006002411 IHF - DNA interface [nucleotide binding]; other site 521006002412 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 521006002413 Found in ATP-dependent protease La (LON); Region: LON; smart00464 521006002414 Protein of unknown function (DUF1357); Region: DUF1357; pfam07094 521006002415 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 521006002416 Walker A motif; other site 521006002417 ATP binding site [chemical binding]; other site 521006002418 Walker B motif; other site 521006002419 arginine finger; other site 521006002420 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 521006002421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006002422 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006002423 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006002424 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 521006002425 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 521006002426 S-adenosylmethionine binding site [chemical binding]; other site 521006002427 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 521006002428 AAA domain; Region: AAA_30; pfam13604 521006002429 Family description; Region: UvrD_C_2; pfam13538 521006002430 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 521006002431 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 521006002432 Walker A/P-loop; other site 521006002433 ATP binding site [chemical binding]; other site 521006002434 Q-loop/lid; other site 521006002435 ABC transporter signature motif; other site 521006002436 Walker B; other site 521006002437 D-loop; other site 521006002438 H-loop/switch region; other site 521006002439 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 521006002440 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 521006002441 FtsX-like permease family; Region: FtsX; pfam02687 521006002442 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 521006002443 RecR protein; Region: RecR; pfam02132 521006002444 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 521006002445 putative active site [active] 521006002446 putative metal-binding site [ion binding]; other site 521006002447 tetramer interface [polypeptide binding]; other site 521006002448 SurA N-terminal domain; Region: SurA_N_3; cl07813 521006002449 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 521006002450 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 521006002451 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 521006002452 ArsC family; Region: ArsC; pfam03960 521006002453 putative catalytic residues [active] 521006002454 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 521006002455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006002456 Walker A/P-loop; other site 521006002457 ATP binding site [chemical binding]; other site 521006002458 ABC transporter signature motif; other site 521006002459 Walker B; other site 521006002460 D-loop; other site 521006002461 H-loop/switch region; other site 521006002462 ABC transporter; Region: ABC_tran_2; pfam12848 521006002463 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006002464 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 521006002465 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 521006002466 active site 521006002467 NTP binding site [chemical binding]; other site 521006002468 metal binding triad [ion binding]; metal-binding site 521006002469 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 521006002470 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521006002471 Zn2+ binding site [ion binding]; other site 521006002472 Mg2+ binding site [ion binding]; other site 521006002473 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 521006002474 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 521006002475 Walker A motif; other site 521006002476 ATP binding site [chemical binding]; other site 521006002477 Walker B motif; other site 521006002478 arginine finger; other site 521006002479 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 521006002480 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 521006002481 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 521006002482 substrate binding site [chemical binding]; other site 521006002483 hexamer interface [polypeptide binding]; other site 521006002484 metal binding site [ion binding]; metal-binding site 521006002485 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; COG3678 521006002486 dimer interface [polypeptide binding]; other site 521006002487 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 521006002488 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 521006002489 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 521006002490 Walker A motif; other site 521006002491 ATP binding site [chemical binding]; other site 521006002492 Walker B motif; other site 521006002493 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 521006002494 Lumazine binding domain; Region: Lum_binding; pfam00677 521006002495 Lumazine binding domain; Region: Lum_binding; pfam00677 521006002496 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 521006002497 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 521006002498 GTP binding site; other site 521006002499 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 521006002500 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 521006002501 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 521006002502 dimerization interface [polypeptide binding]; other site 521006002503 GAF domain; Region: GAF_3; pfam13492 521006002504 Histidine kinase; Region: HisKA_3; pfam07730 521006002505 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 521006002506 ATP binding site [chemical binding]; other site 521006002507 Mg2+ binding site [ion binding]; other site 521006002508 G-X-G motif; other site 521006002509 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 521006002510 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 521006002511 active site 521006002512 phosphorylation site [posttranslational modification] 521006002513 intermolecular recognition site; other site 521006002514 dimerization interface [polypeptide binding]; other site 521006002515 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 521006002516 DNA binding residues [nucleotide binding] 521006002517 dimerization interface [polypeptide binding]; other site 521006002518 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 521006002519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006002520 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006002521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 521006002522 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 521006002523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 521006002524 Tetratricopeptide repeat; Region: TPR_6; pfam13174 521006002525 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 521006002526 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 521006002527 S-adenosylmethionine binding site [chemical binding]; other site 521006002528 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 521006002529 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 521006002530 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 521006002531 ATP binding site [chemical binding]; other site 521006002532 Mg2+ binding site [ion binding]; other site 521006002533 G-X-G motif; other site 521006002534 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 521006002535 ATP binding site [chemical binding]; other site 521006002536 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 521006002537 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 521006002538 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 521006002539 Walker A motif; other site 521006002540 ATP binding site [chemical binding]; other site 521006002541 Walker B motif; other site 521006002542 arginine finger; other site 521006002543 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 521006002544 hypothetical protein; Validated; Region: PRK00153 521006002545 recombinase A; Provisional; Region: recA; PRK09354 521006002546 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 521006002547 hexamer interface [polypeptide binding]; other site 521006002548 Walker A motif; other site 521006002549 ATP binding site [chemical binding]; other site 521006002550 Walker B motif; other site 521006002551 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 521006002552 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 521006002553 active site 521006002554 catalytic residue [active] 521006002555 dimer interface [polypeptide binding]; other site 521006002556 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 521006002557 Part of AAA domain; Region: AAA_19; pfam13245 521006002558 Family description; Region: UvrD_C_2; pfam13538 521006002559 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 521006002560 active site 521006002561 DNA polymerase IV; Validated; Region: PRK02406 521006002562 DNA binding site [nucleotide binding] 521006002563 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 521006002564 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 521006002565 FAD binding pocket [chemical binding]; other site 521006002566 FAD binding motif [chemical binding]; other site 521006002567 phosphate binding motif [ion binding]; other site 521006002568 beta-alpha-beta structure motif; other site 521006002569 NAD binding pocket [chemical binding]; other site 521006002570 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 521006002571 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006002572 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 521006002573 non-specific DNA binding site [nucleotide binding]; other site 521006002574 salt bridge; other site 521006002575 sequence-specific DNA binding site [nucleotide binding]; other site 521006002576 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 521006002577 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 521006002578 Baseplate J-like protein; Region: Baseplate_J; cl01294 521006002579 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 521006002580 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 521006002581 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 521006002582 non-specific DNA binding site [nucleotide binding]; other site 521006002583 salt bridge; other site 521006002584 sequence-specific DNA binding site [nucleotide binding]; other site 521006002585 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 521006002586 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 521006002587 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 521006002588 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 521006002589 active site 521006002590 dimer interface [polypeptide binding]; other site 521006002591 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 521006002592 dimer interface [polypeptide binding]; other site 521006002593 active site 521006002594 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 521006002595 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 521006002596 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 521006002597 putative active site [active] 521006002598 glucokinase; Provisional; Region: glk; PRK00292 521006002599 glucokinase, proteobacterial type; Region: glk; TIGR00749 521006002600 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 521006002601 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 521006002602 putative active site [active] 521006002603 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 521006002604 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 521006002605 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 521006002606 phosphogluconate dehydratase; Validated; Region: PRK09054 521006002607 6-phosphogluconate dehydratase; Region: edd; TIGR01196 521006002608 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 521006002609 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 521006002610 active site 521006002611 intersubunit interface [polypeptide binding]; other site 521006002612 catalytic residue [active] 521006002613 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 521006002614 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 521006002615 catalytic Zn binding site [ion binding]; other site 521006002616 structural Zn binding site [ion binding]; other site 521006002617 NAD(P) binding site [chemical binding]; other site 521006002618 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 521006002619 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 521006002620 minor groove reading motif; other site 521006002621 helix-hairpin-helix signature motif; other site 521006002622 substrate binding pocket [chemical binding]; other site 521006002623 active site 521006002624 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 521006002625 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 521006002626 DNA binding and oxoG recognition site [nucleotide binding] 521006002627 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 521006002628 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 521006002629 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 521006002630 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 521006002631 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 521006002632 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 521006002633 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 521006002634 haemagglutination activity domain; Region: Haemagg_act; pfam05860 521006002635 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 521006002636 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 521006002637 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 521006002638 dimerization interface [polypeptide binding]; other site 521006002639 active site 521006002640 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 521006002641 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 521006002642 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 521006002643 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 521006002644 Virulence protein [General function prediction only]; Region: COG3943 521006002645 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 521006002646 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 521006002647 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 521006002648 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 521006002649 ATP binding site [chemical binding]; other site 521006002650 putative Mg++ binding site [ion binding]; other site 521006002651 recombination factor protein RarA; Reviewed; Region: PRK13342 521006002652 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 521006002653 Walker A motif; other site 521006002654 ATP binding site [chemical binding]; other site 521006002655 Walker B motif; other site 521006002656 arginine finger; other site 521006002657 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 521006002658 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 521006002659 Autotransporter beta-domain; Region: Autotransporter; pfam03797 521006002660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 521006002661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 521006002662 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 521006002663 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 521006002664 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 521006002665 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 521006002666 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 521006002667 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 521006002668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006002669 catalytic residue [active] 521006002670 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 521006002671 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 521006002672 FAD binding pocket [chemical binding]; other site 521006002673 FAD binding motif [chemical binding]; other site 521006002674 phosphate binding motif [ion binding]; other site 521006002675 beta-alpha-beta structure motif; other site 521006002676 NAD binding pocket [chemical binding]; other site 521006002677 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 521006002678 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 521006002679 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 521006002680 metal-binding site [ion binding] 521006002681 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 521006002682 Soluble P-type ATPase [General function prediction only]; Region: COG4087 521006002683 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 521006002684 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 521006002685 HflX GTPase family; Region: HflX; cd01878 521006002686 G1 box; other site 521006002687 GTP/Mg2+ binding site [chemical binding]; other site 521006002688 Switch I region; other site 521006002689 G2 box; other site 521006002690 G3 box; other site 521006002691 Switch II region; other site 521006002692 G4 box; other site 521006002693 G5 box; other site 521006002694 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 521006002695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 521006002696 hypothetical protein; Reviewed; Region: PRK00024 521006002697 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 521006002698 MPN+ (JAMM) motif; other site 521006002699 Zinc-binding site [ion binding]; other site 521006002700 Glutamate-cysteine ligase; Region: GshA; pfam08886 521006002701 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 521006002702 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 521006002703 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 521006002704 substrate binding site [chemical binding]; other site 521006002705 ligand binding site [chemical binding]; other site 521006002706 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 521006002707 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 521006002708 substrate binding site [chemical binding]; other site 521006002709 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006002710 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 521006002711 cofactor binding site; other site 521006002712 DNA binding site [nucleotide binding] 521006002713 substrate interaction site [chemical binding]; other site 521006002714 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006002715 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 521006002716 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 521006002717 tartrate dehydrogenase; Region: TTC; TIGR02089 521006002718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006002719 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 521006002720 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 521006002721 active site 521006002722 dimerization interface [polypeptide binding]; other site 521006002723 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 521006002724 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 521006002725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3782 521006002726 16S rRNA methyltransferase B; Provisional; Region: PRK14904 521006002727 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 521006002728 S-adenosylmethionine binding site [chemical binding]; other site 521006002729 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 521006002730 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 521006002731 NAD(P) binding site [chemical binding]; other site 521006002732 catalytic residues [active] 521006002733 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 521006002734 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 521006002735 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 521006002736 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 521006002737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 521006002738 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 521006002739 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 521006002740 GatB domain; Region: GatB_Yqey; smart00845 521006002741 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 521006002742 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 521006002743 catalytic loop [active] 521006002744 iron binding site [ion binding]; other site 521006002745 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 521006002746 FAD binding pocket [chemical binding]; other site 521006002747 FAD binding motif [chemical binding]; other site 521006002748 phosphate binding motif [ion binding]; other site 521006002749 beta-alpha-beta structure motif; other site 521006002750 NAD binding pocket [chemical binding]; other site 521006002751 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 521006002752 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 521006002753 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 521006002754 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 521006002755 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 521006002756 RNA binding surface [nucleotide binding]; other site 521006002757 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 521006002758 probable active site [active] 521006002759 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 521006002760 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521006002761 putative substrate translocation pore; other site 521006002762 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 521006002763 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 521006002764 generic binding surface II; other site 521006002765 generic binding surface I; other site 521006002766 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 521006002767 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 521006002768 homodimer interface [polypeptide binding]; other site 521006002769 NAD binding pocket [chemical binding]; other site 521006002770 ATP binding pocket [chemical binding]; other site 521006002771 Mg binding site [ion binding]; other site 521006002772 active-site loop [active] 521006002773 Hemerythrin-like domain; Region: Hr-like; cd12108 521006002774 Fe binding site [ion binding]; other site 521006002775 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 521006002776 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 521006002777 catalytic residues [active] 521006002778 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 521006002779 S-adenosylmethionine binding site [chemical binding]; other site 521006002780 helicase 45; Provisional; Region: PTZ00424 521006002781 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 521006002782 ATP binding site [chemical binding]; other site 521006002783 Mg++ binding site [ion binding]; other site 521006002784 motif III; other site 521006002785 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 521006002786 nucleotide binding region [chemical binding]; other site 521006002787 ATP-binding site [chemical binding]; other site 521006002788 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 521006002789 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 521006002790 inhibitor-cofactor binding pocket; inhibition site 521006002791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006002792 catalytic residue [active] 521006002793 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 521006002794 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 521006002795 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 521006002796 Walker A motif; other site 521006002797 ATP binding site [chemical binding]; other site 521006002798 Walker B motif; other site 521006002799 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 521006002800 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 521006002801 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 521006002802 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 521006002803 RNA binding site [nucleotide binding]; other site 521006002804 active site 521006002805 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 521006002806 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 521006002807 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 521006002808 DNA methylase; Region: N6_N4_Mtase; cl17433 521006002809 DNA methylase; Region: N6_N4_Mtase; pfam01555 521006002810 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 521006002811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 521006002812 ATP binding site [chemical binding]; other site 521006002813 putative Mg++ binding site [ion binding]; other site 521006002814 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 521006002815 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 521006002816 phosphate binding site [ion binding]; other site 521006002817 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 521006002818 Rrf2 family protein; Region: rrf2_super; TIGR00738 521006002819 cysteine desulfurase; Provisional; Region: PRK14012 521006002820 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 521006002821 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 521006002822 catalytic residue [active] 521006002823 Fic/DOC family; Region: Fic; cl00960 521006002824 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 521006002825 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 521006002826 trimerization site [polypeptide binding]; other site 521006002827 active site 521006002828 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 521006002829 co-chaperone HscB; Provisional; Region: hscB; PRK03578 521006002830 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 521006002831 HSP70 interaction site [polypeptide binding]; other site 521006002832 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 521006002833 DNA gyrase subunit A; Validated; Region: PRK05560 521006002834 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 521006002835 CAP-like domain; other site 521006002836 active site 521006002837 primary dimer interface [polypeptide binding]; other site 521006002838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521006002839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521006002840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521006002841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521006002842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521006002843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006002844 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 521006002845 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 521006002846 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 521006002847 N-acetyl-D-glucosamine binding site [chemical binding]; other site 521006002848 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 521006002849 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 521006002850 active site 521006002851 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 521006002852 DEAD-like helicases superfamily; Region: DEXDc; smart00487 521006002853 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 521006002854 ATP binding site [chemical binding]; other site 521006002855 putative Mg++ binding site [ion binding]; other site 521006002856 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 521006002857 nucleotide binding region [chemical binding]; other site 521006002858 ATP-binding site [chemical binding]; other site 521006002859 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 521006002860 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 521006002861 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 521006002862 tetramerization interface [polypeptide binding]; other site 521006002863 active site 521006002864 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 521006002865 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 521006002866 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 521006002867 enolase; Provisional; Region: eno; PRK00077 521006002868 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 521006002869 dimer interface [polypeptide binding]; other site 521006002870 metal binding site [ion binding]; metal-binding site 521006002871 substrate binding pocket [chemical binding]; other site 521006002872 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 521006002873 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 521006002874 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 521006002875 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 521006002876 catalytic loop [active] 521006002877 iron binding site [ion binding]; other site 521006002878 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 521006002879 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 521006002880 dimer interface [polypeptide binding]; other site 521006002881 putative radical transfer pathway; other site 521006002882 diiron center [ion binding]; other site 521006002883 tyrosyl radical; other site 521006002884 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 521006002885 ATP cone domain; Region: ATP-cone; pfam03477 521006002886 Class I ribonucleotide reductase; Region: RNR_I; cd01679 521006002887 active site 521006002888 dimer interface [polypeptide binding]; other site 521006002889 catalytic residues [active] 521006002890 effector binding site; other site 521006002891 R2 peptide binding site; other site 521006002892 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 521006002893 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 521006002894 putative acyl-acceptor binding pocket; other site 521006002895 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 521006002896 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 521006002897 DNA binding site [nucleotide binding] 521006002898 catalytic residue [active] 521006002899 H2TH interface [polypeptide binding]; other site 521006002900 putative catalytic residues [active] 521006002901 turnover-facilitating residue; other site 521006002902 intercalation triad [nucleotide binding]; other site 521006002903 8OG recognition residue [nucleotide binding]; other site 521006002904 putative reading head residues; other site 521006002905 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 521006002906 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 521006002907 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 521006002908 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 521006002909 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 521006002910 N-acetyl-D-glucosamine binding site [chemical binding]; other site 521006002911 catalytic residue [active] 521006002912 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521006002913 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 521006002914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521006002915 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 521006002916 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 521006002917 active site 521006002918 uracil binding [chemical binding]; other site 521006002919 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 521006002920 Na2 binding site [ion binding]; other site 521006002921 putative substrate binding site 1 [chemical binding]; other site 521006002922 Na binding site 1 [ion binding]; other site 521006002923 putative substrate binding site 2 [chemical binding]; other site 521006002924 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 521006002925 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 521006002926 CMP-binding site; other site 521006002927 The sites determining sugar specificity; other site 521006002928 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 521006002929 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 521006002930 RNA binding site [nucleotide binding]; other site 521006002931 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 521006002932 RNA binding site [nucleotide binding]; other site 521006002933 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 521006002934 RNA binding site [nucleotide binding]; other site 521006002935 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 521006002936 RNA binding site [nucleotide binding]; other site 521006002937 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 521006002938 RNA binding site [nucleotide binding]; other site 521006002939 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 521006002940 RNA binding site [nucleotide binding]; other site 521006002941 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 521006002942 IHF dimer interface [polypeptide binding]; other site 521006002943 IHF - DNA interface [nucleotide binding]; other site 521006002944 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 521006002945 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 521006002946 DNA binding residues [nucleotide binding] 521006002947 putative dimer interface [polypeptide binding]; other site 521006002948 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 521006002949 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 521006002950 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 521006002951 S-formylglutathione hydrolase; Region: PLN02442 521006002952 Predicted ATPase [General function prediction only]; Region: COG1485 521006002953 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 521006002954 active site 521006002955 multimer interface [polypeptide binding]; other site 521006002956 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 521006002957 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 521006002958 FeS/SAM binding site; other site 521006002959 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 521006002960 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 521006002961 binding surface 521006002962 TPR motif; other site 521006002963 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 521006002964 TPR motif; other site 521006002965 binding surface 521006002966 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 521006002967 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 521006002968 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 521006002969 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 521006002970 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 521006002971 oligomer interface [polypeptide binding]; other site 521006002972 active site residues [active] 521006002973 trigger factor; Provisional; Region: tig; PRK01490 521006002974 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 521006002975 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 521006002976 Transposase domain (DUF772); Region: DUF772; pfam05598 521006002977 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 521006002978 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 521006002979 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 521006002980 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 521006002981 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 521006002982 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 521006002983 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 521006002984 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 521006002985 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 521006002986 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 521006002987 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 521006002988 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 521006002989 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 521006002990 generic binding surface I; other site 521006002991 generic binding surface II; other site 521006002992 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 521006002993 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 521006002994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521006002995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521006002996 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 521006002997 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 521006002998 metal-binding site [ion binding] 521006002999 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 521006003000 Soluble P-type ATPase [General function prediction only]; Region: COG4087 521006003001 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 521006003002 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 521006003003 GIY-YIG motif/motif A; other site 521006003004 active site 521006003005 catalytic site [active] 521006003006 putative DNA binding site [nucleotide binding]; other site 521006003007 metal binding site [ion binding]; metal-binding site 521006003008 UvrB/uvrC motif; Region: UVR; pfam02151 521006003009 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 521006003010 Helix-hairpin-helix motif; Region: HHH; pfam00633 521006003011 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 521006003012 Sel1-like repeats; Region: SEL1; smart00671 521006003013 Sel1-like repeats; Region: SEL1; smart00671 521006003014 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 521006003015 S-adenosylmethionine binding site [chemical binding]; other site 521006003016 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 521006003017 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 521006003018 active site 521006003019 zinc binding site [ion binding]; other site 521006003020 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 521006003021 excinuclease ABC subunit B; Provisional; Region: PRK05298 521006003022 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 521006003023 ATP-binding site [chemical binding]; other site 521006003024 ATP binding site [chemical binding]; other site 521006003025 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 521006003026 nucleotide binding region [chemical binding]; other site 521006003027 ATP-binding site [chemical binding]; other site 521006003028 Ultra-violet resistance protein B; Region: UvrB; pfam12344 521006003029 UvrB/uvrC motif; Region: UVR; pfam02151 521006003030 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 521006003031 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 521006003032 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 521006003033 protein binding site [polypeptide binding]; other site 521006003034 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 521006003035 Catalytic dyad [active] 521006003036 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 521006003037 Peptidase family M23; Region: Peptidase_M23; pfam01551 521006003038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 521006003039 CreA protein; Region: CreA; pfam05981 521006003040 Putative transcriptional regulator [Transcription]; Region: COG1678 521006003041 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 521006003042 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 521006003043 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 521006003044 prolyl-tRNA synthetase; Provisional; Region: PRK09194 521006003045 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 521006003046 dimer interface [polypeptide binding]; other site 521006003047 motif 1; other site 521006003048 active site 521006003049 motif 2; other site 521006003050 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 521006003051 putative deacylase active site [active] 521006003052 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 521006003053 active site 521006003054 motif 3; other site 521006003055 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 521006003056 anticodon binding site; other site 521006003057 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 521006003058 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 521006003059 dimer interface [polypeptide binding]; other site 521006003060 TPP-binding site [chemical binding]; other site 521006003061 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 521006003062 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 521006003063 E3 interaction surface; other site 521006003064 lipoyl attachment site [posttranslational modification]; other site 521006003065 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 521006003066 E3 interaction surface; other site 521006003067 lipoyl attachment site [posttranslational modification]; other site 521006003068 e3 binding domain; Region: E3_binding; pfam02817 521006003069 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 521006003070 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 521006003071 E3 interaction surface; other site 521006003072 lipoyl attachment site [posttranslational modification]; other site 521006003073 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 521006003074 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 521006003075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521006003076 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 521006003077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 521006003078 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 521006003079 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 521006003080 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 521006003081 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 521006003082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006003083 Uncharacterized conserved protein [Function unknown]; Region: COG2353 521006003084 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 521006003085 Aspartase; Region: Aspartase; cd01357 521006003086 active sites [active] 521006003087 tetramer interface [polypeptide binding]; other site 521006003088 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 521006003089 TPR repeat; Region: TPR_11; pfam13414 521006003090 binding surface 521006003091 TPR motif; other site 521006003092 Protein of unknown function (DUF560); Region: DUF560; pfam04575 521006003093 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 521006003094 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 521006003095 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 521006003096 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 521006003097 HSP70 interaction site [polypeptide binding]; other site 521006003098 Predicted membrane protein [Function unknown]; Region: COG3671 521006003099 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 521006003100 putative deacylase active site [active] 521006003101 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 521006003102 homotrimer interaction site [polypeptide binding]; other site 521006003103 putative active site [active] 521006003104 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 521006003105 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 521006003106 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 521006003107 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 521006003108 Ligand Binding Site [chemical binding]; other site 521006003109 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 521006003110 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 521006003111 DNA methylase; Region: N6_N4_Mtase; pfam01555 521006003112 DNA methylase; Region: N6_N4_Mtase; pfam01555 521006003113 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 521006003114 substrate binding site [chemical binding]; other site 521006003115 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 521006003116 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 521006003117 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 521006003118 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 521006003119 metal binding site 2 [ion binding]; metal-binding site 521006003120 putative DNA binding helix; other site 521006003121 metal binding site 1 [ion binding]; metal-binding site 521006003122 dimer interface [polypeptide binding]; other site 521006003123 structural Zn2+ binding site [ion binding]; other site 521006003124 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 521006003125 Low molecular weight phosphatase family; Region: LMWPc; cd00115 521006003126 active site 521006003127 glycerate kinase; Region: TIGR00045 521006003128 Methyltransferase domain; Region: Methyltransf_31; pfam13847 521006003129 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 521006003130 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 521006003131 metal-binding site [ion binding] 521006003132 putative arabinose transporter; Provisional; Region: PRK03545 521006003133 putative arabinose transporter; Provisional; Region: PRK03545 521006003134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 521006003135 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 521006003136 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 521006003137 active site 521006003138 catalytic triad [active] 521006003139 oxyanion hole [active] 521006003140 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 521006003141 SGNH_peri1; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri1; cd01825 521006003142 active site 521006003143 oxyanion hole [active] 521006003144 catalytic triad [active] 521006003145 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 521006003146 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 521006003147 acyl-activating enzyme (AAE) consensus motif; other site 521006003148 putative AMP binding site [chemical binding]; other site 521006003149 putative active site [active] 521006003150 putative CoA binding site [chemical binding]; other site 521006003151 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 521006003152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006003153 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 521006003154 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 521006003155 dimerization interface [polypeptide binding]; other site 521006003156 putative ATP binding site [chemical binding]; other site 521006003157 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 521006003158 active site 521006003159 DNA binding site [nucleotide binding] 521006003160 Int/Topo IB signature motif; other site 521006003161 Phage-related minor tail protein [Function unknown]; Region: COG5281 521006003162 tape measure domain; Region: tape_meas_nterm; TIGR02675 521006003163 TIGR02594 family protein; Region: TIGR02594 521006003164 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 521006003165 PemK-like protein; Region: PemK; cl00995 521006003166 Putative phage tail protein; Region: Phage-tail_3; pfam13550 521006003167 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 521006003168 Fibronectin type III protein; Region: DUF3672; pfam12421 521006003169 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 521006003170 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 521006003171 non-specific DNA binding site [nucleotide binding]; other site 521006003172 sequence-specific DNA binding site [nucleotide binding]; other site 521006003173 salt bridge; other site 521006003174 NlpC/P60 family; Region: NLPC_P60; cl17555 521006003175 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 521006003176 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 521006003177 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 521006003178 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 521006003179 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 521006003180 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 521006003181 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 521006003182 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 521006003183 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 521006003184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 521006003185 Terminase-like family; Region: Terminase_6; pfam03237 521006003186 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 521006003187 Prophage antirepressor [Transcription]; Region: COG3617 521006003188 BRO family, N-terminal domain; Region: Bro-N; smart01040 521006003189 Uncharacterized conserved protein [Function unknown]; Region: COG4748 521006003190 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 521006003191 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 521006003192 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 521006003193 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 521006003194 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 521006003195 Walker A motif; other site 521006003196 ATP binding site [chemical binding]; other site 521006003197 Walker B motif; other site 521006003198 arginine finger; other site 521006003199 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 521006003200 Predicted transcriptional regulator [Transcription]; Region: COG2932 521006003201 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 521006003202 Catalytic site [active] 521006003203 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 521006003204 non-specific DNA binding site [nucleotide binding]; other site 521006003205 salt bridge; other site 521006003206 sequence-specific DNA binding site [nucleotide binding]; other site 521006003207 Predicted transcriptional regulator [Transcription]; Region: COG2932 521006003208 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 521006003209 Catalytic site [active] 521006003210 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 521006003211 YcfA-like protein; Region: YcfA; pfam07927 521006003212 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 521006003213 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 521006003214 Helix-turn-helix domain; Region: HTH_17; cl17695 521006003215 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 521006003216 dimerization interface [polypeptide binding]; other site 521006003217 active site 521006003218 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 521006003219 active site 521006003220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006003221 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006003222 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006003223 Zonular occludens toxin (Zot); Region: Zot; cl17485 521006003224 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 521006003225 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 521006003226 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 521006003227 Replication initiation factor; Region: Rep_trans; pfam02486 521006003228 HIT domain; Region: HIT; pfam01230 521006003229 HIT family signature motif; other site 521006003230 catalytic residue [active] 521006003231 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 521006003232 dimer interface [polypeptide binding]; other site 521006003233 catalytic triad [active] 521006003234 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 521006003235 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 521006003236 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 521006003237 Multicopper oxidase; Region: Cu-oxidase; pfam00394 521006003238 Uncharacterized conserved protein [Function unknown]; Region: COG1262 521006003239 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 521006003240 Pilin (bacterial filament); Region: Pilin; pfam00114 521006003241 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006003242 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006003243 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 521006003244 putative FMN binding site [chemical binding]; other site 521006003245 putative metal dependent hydrolase; Provisional; Region: PRK11598 521006003246 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 521006003247 Sulfatase; Region: Sulfatase; pfam00884 521006003248 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 521006003249 homodimer interface [polypeptide binding]; other site 521006003250 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 521006003251 substrate-cofactor binding pocket; other site 521006003252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006003253 catalytic residue [active] 521006003254 ribosome maturation protein RimP; Reviewed; Region: PRK00092 521006003255 Sm and related proteins; Region: Sm_like; cl00259 521006003256 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 521006003257 putative oligomer interface [polypeptide binding]; other site 521006003258 putative RNA binding site [nucleotide binding]; other site 521006003259 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 521006003260 NusA N-terminal domain; Region: NusA_N; pfam08529 521006003261 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 521006003262 RNA binding site [nucleotide binding]; other site 521006003263 homodimer interface [polypeptide binding]; other site 521006003264 NusA-like KH domain; Region: KH_5; pfam13184 521006003265 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 521006003266 G-X-X-G motif; other site 521006003267 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 521006003268 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 521006003269 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 521006003270 translation initiation factor IF-2; Region: IF-2; TIGR00487 521006003271 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 521006003272 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 521006003273 G1 box; other site 521006003274 putative GEF interaction site [polypeptide binding]; other site 521006003275 GTP/Mg2+ binding site [chemical binding]; other site 521006003276 Switch I region; other site 521006003277 G2 box; other site 521006003278 G3 box; other site 521006003279 Switch II region; other site 521006003280 G4 box; other site 521006003281 G5 box; other site 521006003282 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 521006003283 Translation-initiation factor 2; Region: IF-2; pfam11987 521006003284 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 521006003285 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 521006003286 G1 box; other site 521006003287 GTP/Mg2+ binding site [chemical binding]; other site 521006003288 G2 box; other site 521006003289 Switch I region; other site 521006003290 G3 box; other site 521006003291 Switch II region; other site 521006003292 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 521006003293 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 521006003294 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 521006003295 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 521006003296 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 521006003297 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 521006003298 hypothetical protein; Validated; Region: PRK00110 521006003299 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 521006003300 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 521006003301 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 521006003302 putative DNA binding site [nucleotide binding]; other site 521006003303 putative Zn2+ binding site [ion binding]; other site 521006003304 AsnC family; Region: AsnC_trans_reg; pfam01037 521006003305 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 521006003306 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 521006003307 active site 521006003308 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521006003309 substrate binding site [chemical binding]; other site 521006003310 catalytic residues [active] 521006003311 dimer interface [polypeptide binding]; other site 521006003312 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 521006003313 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 521006003314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 521006003315 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 521006003316 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 521006003317 S-adenosylmethionine binding site [chemical binding]; other site 521006003318 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 521006003319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006003320 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 521006003321 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 521006003322 Flavoprotein; Region: Flavoprotein; pfam02441 521006003323 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 521006003324 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 521006003325 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521006003326 Zn2+ binding site [ion binding]; other site 521006003327 Mg2+ binding site [ion binding]; other site 521006003328 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 521006003329 synthetase active site [active] 521006003330 NTP binding site [chemical binding]; other site 521006003331 metal binding site [ion binding]; metal-binding site 521006003332 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 521006003333 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 521006003334 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 521006003335 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 521006003336 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 521006003337 catalytic site [active] 521006003338 G-X2-G-X-G-K; other site 521006003339 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006003340 active site 521006003341 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 521006003342 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 521006003343 active site 521006003344 motif I; other site 521006003345 motif II; other site 521006003346 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 521006003347 putative protease; Provisional; Region: PRK15452 521006003348 Peptidase family U32; Region: Peptidase_U32; pfam01136 521006003349 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 521006003350 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 521006003351 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 521006003352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006003353 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 521006003354 heme binding pocket [chemical binding]; other site 521006003355 heme ligand [chemical binding]; other site 521006003356 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 521006003357 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 521006003358 Paraquat-inducible protein A; Region: PqiA; pfam04403 521006003359 Paraquat-inducible protein A; Region: PqiA; pfam04403 521006003360 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 521006003361 mce related protein; Region: MCE; pfam02470 521006003362 mce related protein; Region: MCE; pfam02470 521006003363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 521006003364 Protein of unknown function (DUF330); Region: DUF330; pfam03886 521006003365 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 521006003366 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 521006003367 active site 521006003368 catalytic triad [active] 521006003369 oxyanion hole [active] 521006003370 switch loop; other site 521006003371 glycine dehydrogenase; Provisional; Region: PRK05367 521006003372 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 521006003373 tetramer interface [polypeptide binding]; other site 521006003374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006003375 catalytic residue [active] 521006003376 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 521006003377 tetramer interface [polypeptide binding]; other site 521006003378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006003379 catalytic residue [active] 521006003380 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006003381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 521006003382 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 521006003383 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 521006003384 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 521006003385 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 521006003386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006003387 homodimer interface [polypeptide binding]; other site 521006003388 catalytic residue [active] 521006003389 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 521006003390 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 521006003391 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 521006003392 Tetramer interface [polypeptide binding]; other site 521006003393 active site 521006003394 FMN-binding site [chemical binding]; other site 521006003395 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 521006003396 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 521006003397 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 521006003398 ATP binding site [chemical binding]; other site 521006003399 Mg2+ binding site [ion binding]; other site 521006003400 G-X-G motif; other site 521006003401 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 521006003402 anchoring element; other site 521006003403 dimer interface [polypeptide binding]; other site 521006003404 ATP binding site [chemical binding]; other site 521006003405 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 521006003406 active site 521006003407 metal binding site [ion binding]; metal-binding site 521006003408 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 521006003409 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 521006003410 putative active site [active] 521006003411 Ap4A binding site [chemical binding]; other site 521006003412 nudix motif; other site 521006003413 putative metal binding site [ion binding]; other site 521006003414 seryl-tRNA synthetase; Provisional; Region: PRK05431 521006003415 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 521006003416 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 521006003417 dimer interface [polypeptide binding]; other site 521006003418 active site 521006003419 motif 1; other site 521006003420 motif 2; other site 521006003421 motif 3; other site 521006003422 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 521006003423 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 521006003424 putative ligand binding site [chemical binding]; other site 521006003425 putative NAD binding site [chemical binding]; other site 521006003426 catalytic site [active] 521006003427 peptide chain release factor 1; Validated; Region: prfA; PRK00591 521006003428 This domain is found in peptide chain release factors; Region: PCRF; smart00937 521006003429 RF-1 domain; Region: RF-1; pfam00472 521006003430 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 521006003431 active site 521006003432 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 521006003433 active site 521006003434 homodimer interface [polypeptide binding]; other site 521006003435 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 521006003436 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 521006003437 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 521006003438 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 521006003439 active site 521006003440 substrate binding site [chemical binding]; other site 521006003441 metal binding site [ion binding]; metal-binding site 521006003442 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 521006003443 dihydropteroate synthase; Region: DHPS; TIGR01496 521006003444 substrate binding pocket [chemical binding]; other site 521006003445 dimer interface [polypeptide binding]; other site 521006003446 inhibitor binding site; inhibition site 521006003447 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 521006003448 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 521006003449 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 521006003450 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 521006003451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4899 521006003452 Predicted membrane protein [Function unknown]; Region: COG4648 521006003453 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 521006003454 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 521006003455 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 521006003456 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 521006003457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 521006003458 NAD(P) binding site [chemical binding]; other site 521006003459 active site 521006003460 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 521006003461 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 521006003462 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 521006003463 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 521006003464 putative metal binding site; other site 521006003465 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521006003466 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 521006003467 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 521006003468 Na2 binding site [ion binding]; other site 521006003469 putative substrate binding site 1 [chemical binding]; other site 521006003470 Na binding site 1 [ion binding]; other site 521006003471 putative substrate binding site 2 [chemical binding]; other site 521006003472 ApbE family; Region: ApbE; pfam02424 521006003473 ApbE family; Region: ApbE; pfam02424 521006003474 thymidylate synthase; Reviewed; Region: thyA; PRK01827 521006003475 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 521006003476 dimerization interface [polypeptide binding]; other site 521006003477 active site 521006003478 glutamate dehydrogenase; Provisional; Region: PRK09414 521006003479 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 521006003480 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 521006003481 NAD(P) binding site [chemical binding]; other site 521006003482 Transcriptional regulators [Transcription]; Region: FadR; COG2186 521006003483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521006003484 DNA-binding site [nucleotide binding]; DNA binding site 521006003485 FCD domain; Region: FCD; pfam07729 521006003486 L-lactate permease; Region: Lactate_perm; cl00701 521006003487 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 521006003488 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 521006003489 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 521006003490 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 521006003491 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 521006003492 HlyD family secretion protein; Region: HlyD_3; pfam13437 521006003493 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 521006003494 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 521006003495 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 521006003496 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 521006003497 AbgT putative transporter family; Region: ABG_transport; pfam03806 521006003498 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 521006003499 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 521006003500 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 521006003501 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 521006003502 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 521006003503 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 521006003504 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 521006003505 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 521006003506 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 521006003507 Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]; Region: CcoQ; COG4736 521006003508 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 521006003509 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 521006003510 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 521006003511 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 521006003512 Low-spin heme binding site [chemical binding]; other site 521006003513 Putative water exit pathway; other site 521006003514 Binuclear center (active site) [active] 521006003515 Putative proton exit pathway; other site 521006003516 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 521006003517 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 521006003518 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 521006003519 protein binding site [polypeptide binding]; other site 521006003520 TIGR01244 family protein; Region: TIGR01244 521006003521 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 521006003522 TolR protein; Region: tolR; TIGR02801 521006003523 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 521006003524 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 521006003525 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 521006003526 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 521006003527 Peptidase family M50; Region: Peptidase_M50; pfam02163 521006003528 active site 521006003529 putative substrate binding region [chemical binding]; other site 521006003530 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 521006003531 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 521006003532 C-terminal domain interface [polypeptide binding]; other site 521006003533 GSH binding site (G-site) [chemical binding]; other site 521006003534 catalytic residues [active] 521006003535 putative dimer interface [polypeptide binding]; other site 521006003536 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 521006003537 N-terminal domain interface [polypeptide binding]; other site 521006003538 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 521006003539 HD domain; Region: HD_4; pfam13328 521006003540 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 521006003541 synthetase active site [active] 521006003542 NTP binding site [chemical binding]; other site 521006003543 metal binding site [ion binding]; metal-binding site 521006003544 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 521006003545 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 521006003546 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006003547 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006003548 thioester formation/cholesterol transfer; other site 521006003549 protein-splicing catalytic site; other site 521006003550 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006003551 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006003552 thioester formation/cholesterol transfer; other site 521006003553 protein-splicing catalytic site; other site 521006003554 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 521006003555 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006003556 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006003557 thioester formation/cholesterol transfer; other site 521006003558 protein-splicing catalytic site; other site 521006003559 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 521006003560 active site 521006003561 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006003562 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 521006003563 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006003564 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006003565 thioester formation/cholesterol transfer; other site 521006003566 protein-splicing catalytic site; other site 521006003567 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 521006003568 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 521006003569 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 521006003570 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006003571 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006003572 protein-splicing catalytic site; other site 521006003573 thioester formation/cholesterol transfer; other site 521006003574 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006003575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006003576 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 521006003577 putative active site [active] 521006003578 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 521006003579 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521006003580 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 521006003581 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 521006003582 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 521006003583 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 521006003584 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 521006003585 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521006003586 Walker A/P-loop; other site 521006003587 ATP binding site [chemical binding]; other site 521006003588 Q-loop/lid; other site 521006003589 ABC transporter signature motif; other site 521006003590 Walker B; other site 521006003591 D-loop; other site 521006003592 H-loop/switch region; other site 521006003593 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 521006003594 Right handed beta helix region; Region: Beta_helix; pfam13229 521006003595 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 521006003596 nitrous-oxide reductase; Validated; Region: PRK02888 521006003597 FMN-binding domain; Region: FMN_bind; cl01081 521006003598 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 521006003599 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521006003600 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521006003601 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 521006003602 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 521006003603 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 521006003604 tRNA; other site 521006003605 putative tRNA binding site [nucleotide binding]; other site 521006003606 putative NADP binding site [chemical binding]; other site 521006003607 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 521006003608 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 521006003609 lipoyl attachment site [posttranslational modification]; other site 521006003610 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 521006003611 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 521006003612 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 521006003613 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 521006003614 putative DNA binding site [nucleotide binding]; other site 521006003615 putative Zn2+ binding site [ion binding]; other site 521006003616 AsnC family; Region: AsnC_trans_reg; pfam01037 521006003617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3310 521006003618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 521006003619 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 521006003620 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 521006003621 transmembrane helices; other site 521006003622 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006003623 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 521006003624 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 521006003625 E3 interaction surface; other site 521006003626 lipoyl attachment site [posttranslational modification]; other site 521006003627 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 521006003628 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 521006003629 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 521006003630 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 521006003631 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 521006003632 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 521006003633 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 521006003634 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 521006003635 catalytic loop [active] 521006003636 iron binding site [ion binding]; other site 521006003637 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 521006003638 FAD binding pocket [chemical binding]; other site 521006003639 FAD binding motif [chemical binding]; other site 521006003640 phosphate binding motif [ion binding]; other site 521006003641 beta-alpha-beta structure motif; other site 521006003642 NAD binding pocket [chemical binding]; other site 521006003643 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 521006003644 ApbE family; Region: ApbE; pfam02424 521006003645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 521006003646 GrpE; Region: GrpE; pfam01025 521006003647 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 521006003648 dimer interface [polypeptide binding]; other site 521006003649 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 521006003650 serine acetyltransferase; Provisional; Region: cysE; PRK11132 521006003651 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 521006003652 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 521006003653 trimer interface [polypeptide binding]; other site 521006003654 active site 521006003655 substrate binding site [chemical binding]; other site 521006003656 CoA binding site [chemical binding]; other site 521006003657 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 521006003658 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 521006003659 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 521006003660 Predicted transcriptional regulator [Transcription]; Region: COG2932 521006003661 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 521006003662 Catalytic site [active] 521006003663 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 521006003664 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 521006003665 nucleotide binding site [chemical binding]; other site 521006003666 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 521006003667 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 521006003668 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 521006003669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 521006003670 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 521006003671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006003672 Walker A/P-loop; other site 521006003673 ATP binding site [chemical binding]; other site 521006003674 Q-loop/lid; other site 521006003675 ABC transporter signature motif; other site 521006003676 Walker B; other site 521006003677 D-loop; other site 521006003678 H-loop/switch region; other site 521006003679 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 521006003680 Cadmium resistance transporter; Region: Cad; pfam03596 521006003681 NnrS protein; Region: NnrS; cl01258 521006003682 primosome assembly protein PriA; Validated; Region: PRK05580 521006003683 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 521006003684 ATP binding site [chemical binding]; other site 521006003685 putative Mg++ binding site [ion binding]; other site 521006003686 helicase superfamily c-terminal domain; Region: HELICc; smart00490 521006003687 ATP-binding site [chemical binding]; other site 521006003688 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 521006003689 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 521006003690 dimerization domain [polypeptide binding]; other site 521006003691 dimer interface [polypeptide binding]; other site 521006003692 catalytic residues [active] 521006003693 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 521006003694 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 521006003695 Walker A/P-loop; other site 521006003696 ATP binding site [chemical binding]; other site 521006003697 Q-loop/lid; other site 521006003698 ABC transporter signature motif; other site 521006003699 Walker B; other site 521006003700 D-loop; other site 521006003701 H-loop/switch region; other site 521006003702 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 521006003703 FtsX-like permease family; Region: FtsX; pfam02687 521006003704 macrolide transporter subunit MacA; Provisional; Region: PRK11578 521006003705 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 521006003706 HlyD family secretion protein; Region: HlyD_3; pfam13437 521006003707 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 521006003708 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 521006003709 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 521006003710 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 521006003711 Walker A/P-loop; other site 521006003712 ATP binding site [chemical binding]; other site 521006003713 Q-loop/lid; other site 521006003714 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 521006003715 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 521006003716 ABC transporter signature motif; other site 521006003717 Walker B; other site 521006003718 D-loop; other site 521006003719 H-loop/switch region; other site 521006003720 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 521006003721 trimer interface [polypeptide binding]; other site 521006003722 YadA-like C-terminal region; Region: YadA; pfam03895 521006003723 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 521006003724 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 521006003725 putative active site [active] 521006003726 putative metal binding site [ion binding]; other site 521006003727 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 521006003728 L-lactate permease; Region: Lactate_perm; cl00701 521006003729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 521006003730 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 521006003731 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 521006003732 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 521006003733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006003734 homodimer interface [polypeptide binding]; other site 521006003735 catalytic residue [active] 521006003736 DDE superfamily endonuclease; Region: DDE_3; pfam13358 521006003737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 521006003738 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 521006003739 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 521006003740 dimer interface [polypeptide binding]; other site 521006003741 putative anticodon binding site; other site 521006003742 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 521006003743 motif 1; other site 521006003744 active site 521006003745 motif 2; other site 521006003746 motif 3; other site 521006003747 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 521006003748 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 521006003749 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 521006003750 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 521006003751 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 521006003752 active site 521006003753 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006003754 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 521006003755 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 521006003756 purine monophosphate binding site [chemical binding]; other site 521006003757 dimer interface [polypeptide binding]; other site 521006003758 putative catalytic residues [active] 521006003759 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 521006003760 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 521006003761 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 521006003762 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 521006003763 putative ion selectivity filter; other site 521006003764 putative pore gating glutamate residue; other site 521006003765 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 521006003766 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 521006003767 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 521006003768 motif II; other site 521006003769 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 521006003770 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 521006003771 ligand binding site [chemical binding]; other site 521006003772 homodimer interface [polypeptide binding]; other site 521006003773 NAD(P) binding site [chemical binding]; other site 521006003774 trimer interface B [polypeptide binding]; other site 521006003775 trimer interface A [polypeptide binding]; other site 521006003776 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 521006003777 MAPEG family; Region: MAPEG; cl09190 521006003778 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 521006003779 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 521006003780 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 521006003781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 521006003782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 521006003783 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 521006003784 putative effector binding pocket; other site 521006003785 dimerization interface [polypeptide binding]; other site 521006003786 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 521006003787 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 521006003788 G4 box; other site 521006003789 G5 box; other site 521006003790 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 521006003791 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 521006003792 active site 521006003793 phosphorylation site [posttranslational modification] 521006003794 intermolecular recognition site; other site 521006003795 dimerization interface [polypeptide binding]; other site 521006003796 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 521006003797 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 521006003798 S-adenosylmethionine binding site [chemical binding]; other site 521006003799 Protein of unknown function (DUF452); Region: DUF452; cl01062 521006003800 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 521006003801 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 521006003802 substrate-cofactor binding pocket; other site 521006003803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006003804 catalytic residue [active] 521006003805 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 521006003806 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 521006003807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 521006003808 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 521006003809 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; cd00625 521006003810 transmembrane helices; other site 521006003811 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 521006003812 agmatinase; Region: agmatinase; TIGR01230 521006003813 oligomer interface [polypeptide binding]; other site 521006003814 putative active site [active] 521006003815 Mn binding site [ion binding]; other site 521006003816 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 521006003817 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 521006003818 dimer interface [polypeptide binding]; other site 521006003819 active site 521006003820 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521006003821 catalytic residues [active] 521006003822 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 521006003823 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 521006003824 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 521006003825 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 521006003826 dimer interface [polypeptide binding]; other site 521006003827 anticodon binding site; other site 521006003828 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 521006003829 homodimer interface [polypeptide binding]; other site 521006003830 motif 1; other site 521006003831 active site 521006003832 motif 2; other site 521006003833 GAD domain; Region: GAD; pfam02938 521006003834 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 521006003835 motif 3; other site 521006003836 Uncharacterized conserved protein [Function unknown]; Region: COG2928 521006003837 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 521006003838 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 521006003839 dimerization interface [polypeptide binding]; other site 521006003840 substrate binding site [chemical binding]; other site 521006003841 active site 521006003842 calcium binding site [ion binding]; other site 521006003843 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 521006003844 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 521006003845 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521006003846 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 521006003847 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 521006003848 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 521006003849 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 521006003850 Fic family protein [Function unknown]; Region: COG3177 521006003851 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 521006003852 Fic/DOC family; Region: Fic; pfam02661 521006003853 glutamate racemase; Provisional; Region: PRK00865 521006003854 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 521006003855 AMIN domain; Region: AMIN; pfam11741 521006003856 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 521006003857 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 521006003858 active site 521006003859 metal binding site [ion binding]; metal-binding site 521006003860 Fic family protein [Function unknown]; Region: COG3177 521006003861 Fic/DOC family; Region: Fic; pfam02661 521006003862 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 521006003863 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 521006003864 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 521006003865 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 521006003866 active site 521006003867 8-oxo-dGMP binding site [chemical binding]; other site 521006003868 nudix motif; other site 521006003869 metal binding site [ion binding]; metal-binding site 521006003870 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 521006003871 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 521006003872 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 521006003873 active site 521006003874 hydrophilic channel; other site 521006003875 dimerization interface [polypeptide binding]; other site 521006003876 catalytic residues [active] 521006003877 active site lid [active] 521006003878 Recombination protein O N terminal; Region: RecO_N; pfam11967 521006003879 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 521006003880 Recombination protein O C terminal; Region: RecO_C; pfam02565 521006003881 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 521006003882 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 521006003883 Prephenate dehydratase; Region: PDT; pfam00800 521006003884 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 521006003885 putative L-Phe binding site [chemical binding]; other site 521006003886 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 521006003887 putative substrate translocation pore; other site 521006003888 EamA-like transporter family; Region: EamA; pfam00892 521006003889 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 521006003890 EamA-like transporter family; Region: EamA; pfam00892 521006003891 Pilin (bacterial filament); Region: Pilin; pfam00114 521006003892 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006003893 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006003894 Predicted amidohydrolase [General function prediction only]; Region: COG0388 521006003895 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 521006003896 putative active site [active] 521006003897 catalytic triad [active] 521006003898 dimer interface [polypeptide binding]; other site 521006003899 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 521006003900 prephenate dehydrogenase; Validated; Region: PRK08507 521006003901 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 521006003902 Predicted transcriptional regulator [Transcription]; Region: COG1959 521006003903 Transcriptional regulator; Region: Rrf2; cl17282 521006003904 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 521006003905 propionate/acetate kinase; Provisional; Region: PRK12379 521006003906 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 521006003907 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 521006003908 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 521006003909 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 521006003910 ligand binding site [chemical binding]; other site 521006003911 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 521006003912 substrate binding site [chemical binding]; other site 521006003913 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 521006003914 substrate binding site [chemical binding]; other site 521006003915 hypothetical protein; Provisional; Region: PRK10621 521006003916 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 521006003917 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 521006003918 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 521006003919 dimer interface [polypeptide binding]; other site 521006003920 active site 521006003921 citrylCoA binding site [chemical binding]; other site 521006003922 oxalacetate/citrate binding site [chemical binding]; other site 521006003923 coenzyme A binding site [chemical binding]; other site 521006003924 catalytic triad [active] 521006003925 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 521006003926 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 521006003927 tetramer interface [polypeptide binding]; other site 521006003928 active site 521006003929 Mg2+/Mn2+ binding site [ion binding]; other site 521006003930 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 521006003931 cell division protein FtsZ; Validated; Region: PRK09330 521006003932 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 521006003933 nucleotide binding site [chemical binding]; other site 521006003934 SulA interaction site; other site 521006003935 cell division protein FtsA; Region: ftsA; TIGR01174 521006003936 Cell division protein FtsA; Region: FtsA; smart00842 521006003937 Cell division protein FtsA; Region: FtsA; pfam14450 521006003938 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 521006003939 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 521006003940 Cell division protein FtsQ; Region: FtsQ; pfam03799 521006003941 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 521006003942 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 521006003943 ATP-grasp domain; Region: ATP-grasp_4; cl17255 521006003944 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 521006003945 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521006003946 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521006003947 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521006003948 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 521006003949 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 521006003950 active site 521006003951 homodimer interface [polypeptide binding]; other site 521006003952 cell division protein FtsW; Region: ftsW; TIGR02614 521006003953 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 521006003954 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521006003955 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521006003956 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 521006003957 Sel1-like repeats; Region: SEL1; smart00671 521006003958 Sel1-like repeats; Region: SEL1; smart00671 521006003959 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 521006003960 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 521006003961 Mg++ binding site [ion binding]; other site 521006003962 putative catalytic motif [active] 521006003963 putative substrate binding site [chemical binding]; other site 521006003964 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 521006003965 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521006003966 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 521006003967 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521006003968 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521006003969 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 521006003970 Sulfatase; Region: Sulfatase; pfam00884 521006003971 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 521006003972 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521006003973 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521006003974 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521006003975 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 521006003976 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 521006003977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 521006003978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 521006003979 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 521006003980 MraW methylase family; Region: Methyltransf_5; cl17771 521006003981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 521006003982 MraZ protein; Region: MraZ; pfam02381 521006003983 MraZ protein; Region: MraZ; pfam02381 521006003984 Uncharacterized conserved protein [Function unknown]; Region: COG1565 521006003985 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 521006003986 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 521006003987 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 521006003988 catalytic residues [active] 521006003989 hinge region; other site 521006003990 alpha helical domain; other site 521006003991 cell division protein FtsN; Region: ftsN; TIGR02223 521006003992 Sporulation related domain; Region: SPOR; pfam05036 521006003993 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 521006003994 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 521006003995 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 521006003996 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 521006003997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 521006003998 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 521006003999 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 521006004000 Na binding site [ion binding]; other site 521006004001 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 521006004002 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 521006004003 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 521006004004 Glutamate binding site [chemical binding]; other site 521006004005 NAD binding site [chemical binding]; other site 521006004006 catalytic residues [active] 521006004007 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006004008 putative outer membrane lipoprotein; Provisional; Region: PRK10510 521006004009 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 521006004010 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 521006004011 ligand binding site [chemical binding]; other site 521006004012 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 521006004013 putative catalytic site [active] 521006004014 putative phosphate binding site [ion binding]; other site 521006004015 active site 521006004016 metal binding site A [ion binding]; metal-binding site 521006004017 DNA binding site [nucleotide binding] 521006004018 putative AP binding site [nucleotide binding]; other site 521006004019 putative metal binding site B [ion binding]; other site 521006004020 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 521006004021 dimerization interface [polypeptide binding]; other site 521006004022 putative DNA binding site [nucleotide binding]; other site 521006004023 putative Zn2+ binding site [ion binding]; other site 521006004024 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 521006004025 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 521006004026 dimerization interface [polypeptide binding]; other site 521006004027 active site 521006004028 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 521006004029 quinolinate synthetase; Provisional; Region: PRK09375 521006004030 L-aspartate oxidase; Provisional; Region: PRK06175 521006004031 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 521006004032 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 521006004033 Transposase domain (DUF772); Region: DUF772; pfam05598 521006004034 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 521006004035 motif II; other site 521006004036 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 521006004037 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 521006004038 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 521006004039 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 521006004040 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 521006004041 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 521006004042 catalytic residues [active] 521006004043 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 521006004044 catalytic residues [active] 521006004045 high affinity sulphate transporter 1; Region: sulP; TIGR00815 521006004046 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 521006004047 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006004048 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006004049 ABC transporter; Region: ABC_tran_2; pfam12848 521006004050 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521006004051 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 521006004052 tetramer interfaces [polypeptide binding]; other site 521006004053 binuclear metal-binding site [ion binding]; other site 521006004054 thiamine-monophosphate kinase; Region: thiL; TIGR01379 521006004055 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 521006004056 ATP binding site [chemical binding]; other site 521006004057 dimerization interface [polypeptide binding]; other site 521006004058 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 521006004059 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 521006004060 ligand binding site [chemical binding]; other site 521006004061 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 521006004062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 521006004063 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 521006004064 substrate binding site [chemical binding]; other site 521006004065 dimerization interface [polypeptide binding]; other site 521006004066 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 521006004067 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 521006004068 ligand binding site [chemical binding]; other site 521006004069 flexible hinge region; other site 521006004070 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 521006004071 putative switch regulator; other site 521006004072 non-specific DNA interactions [nucleotide binding]; other site 521006004073 DNA binding site [nucleotide binding] 521006004074 sequence specific DNA binding site [nucleotide binding]; other site 521006004075 putative cAMP binding site [chemical binding]; other site 521006004076 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 521006004077 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 521006004078 FeS/SAM binding site; other site 521006004079 HemN C-terminal domain; Region: HemN_C; pfam06969 521006004080 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 521006004081 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 521006004082 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 521006004083 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006004084 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006004085 protein-splicing catalytic site; other site 521006004086 thioester formation/cholesterol transfer; other site 521006004087 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006004088 MafB19-like deaminase; Region: MafB19-deam; pfam14437 521006004089 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006004090 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006004091 thioester formation/cholesterol transfer; other site 521006004092 protein-splicing catalytic site; other site 521006004093 Pretoxin HINT domain; Region: PT-HINT; pfam07591 521006004094 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 521006004095 thioester formation/cholesterol transfer; other site 521006004096 protein-splicing catalytic site; other site 521006004097 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 521006004098 active site 521006004099 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 521006004100 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 521006004101 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 521006004102 GIY-YIG motif/motif A; other site 521006004103 putative active site [active] 521006004104 putative metal binding site [ion binding]; other site 521006004105 muropeptide transporter; Reviewed; Region: ampG; PRK11902 521006004106 AmpG-like permease; Region: 2A0125; TIGR00901 521006004107 glutamine synthetase; Provisional; Region: glnA; PRK09469 521006004108 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 521006004109 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 521006004110 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 521006004111 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 521006004112 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 521006004113 shikimate binding site; other site 521006004114 NAD(P) binding site [chemical binding]; other site 521006004115 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 521006004116 Transglycosylase; Region: Transgly; cl17702 521006004117 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 521006004118 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 521006004119 Walker A/P-loop; other site 521006004120 ATP binding site [chemical binding]; other site 521006004121 Q-loop/lid; other site 521006004122 ABC transporter signature motif; other site 521006004123 Walker B; other site 521006004124 D-loop; other site 521006004125 H-loop/switch region; other site 521006004126 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 521006004127 OstA-like protein; Region: OstA; pfam03968 521006004128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 521006004129 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 521006004130 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 521006004131 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 521006004132 active site 521006004133 motif I; other site 521006004134 motif II; other site 521006004135 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 521006004136 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 521006004137 putative active site [active] 521006004138 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 521006004139 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 521006004140 putative active site [active] 521006004141 transaldolase; Provisional; Region: PRK03903 521006004142 catalytic residue [active] 521006004143 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 521006004144 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 521006004145 active site 521006004146 HIGH motif; other site 521006004147 nucleotide binding site [chemical binding]; other site 521006004148 active site 521006004149 KMSKS motif; other site 521006004150 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 521006004151 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 521006004152 FMN binding site [chemical binding]; other site 521006004153 active site 521006004154 catalytic residues [active] 521006004155 substrate binding site [chemical binding]; other site 521006004156 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 521006004157 active site 521006004158 DNA binding site [nucleotide binding] 521006004159 Int/Topo IB signature motif; other site 521006004160 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 521006004161 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 521006004162 Methyltransferase domain; Region: Methyltransf_26; pfam13659 521006004163 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 521006004164 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 521006004165 Predicted transcriptional regulator [Transcription]; Region: COG2932 521006004166 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 521006004167 Catalytic site [active] 521006004168 Helix-turn-helix domain; Region: HTH_39; pfam14090 521006004169 Helix-turn-helix domain; Region: HTH_36; pfam13730 521006004170 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 521006004171 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 521006004172 Walker A motif; other site 521006004173 ATP binding site [chemical binding]; other site 521006004174 Walker B motif; other site 521006004175 arginine finger; other site 521006004176 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 521006004177 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 521006004178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006004179 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006004180 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006004181 Zonular occludens toxin (Zot); Region: Zot; cl17485 521006004182 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 521006004183 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 521006004184 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 521006004185 Replication initiation factor; Region: Rep_trans; pfam02486 521006004186 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 521006004187 additional DNA contacts [nucleotide binding]; other site 521006004188 mismatch recognition site; other site 521006004189 active site 521006004190 zinc binding site [ion binding]; other site 521006004191 DNA intercalation site [nucleotide binding]; other site 521006004192 TIGR02391 family protein; Region: hypoth_ymh 521006004193 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 521006004194 ATP binding site [chemical binding]; other site 521006004195 Mg2+ binding site [ion binding]; other site 521006004196 G-X-G motif; other site 521006004197 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006004198 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 521006004199 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 521006004200 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006004201 DNA binding site [nucleotide binding] 521006004202 substrate interaction site [chemical binding]; other site 521006004203 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 521006004204 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 521006004205 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 521006004206 active site 521006004207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006004208 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 521006004209 Nitrogen regulatory protein P-II; Region: P-II; smart00938 521006004210 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 521006004211 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 521006004212 dimerization interface [polypeptide binding]; other site 521006004213 ATP binding site [chemical binding]; other site 521006004214 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 521006004215 dimerization interface [polypeptide binding]; other site 521006004216 ATP binding site [chemical binding]; other site 521006004217 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 521006004218 putative active site [active] 521006004219 catalytic triad [active] 521006004220 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 521006004221 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 521006004222 putative active site [active] 521006004223 putative FMN binding site [chemical binding]; other site 521006004224 putative substrate binding site [chemical binding]; other site 521006004225 putative catalytic residue [active] 521006004226 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 521006004227 dimerization interface [polypeptide binding]; other site 521006004228 putative DNA binding site [nucleotide binding]; other site 521006004229 putative Zn2+ binding site [ion binding]; other site 521006004230 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 521006004231 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 521006004232 MgtE intracellular N domain; Region: MgtE_N; smart00924 521006004233 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 521006004234 Divalent cation transporter; Region: MgtE; cl00786 521006004235 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 521006004236 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 521006004237 dimerization interface [polypeptide binding]; other site 521006004238 domain crossover interface; other site 521006004239 redox-dependent activation switch; other site 521006004240 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 521006004241 NlpC/P60 family; Region: NLPC_P60; pfam00877 521006004242 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 521006004243 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 521006004244 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 521006004245 heterotetramer interface [polypeptide binding]; other site 521006004246 active site pocket [active] 521006004247 cleavage site 521006004248 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 521006004249 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 521006004250 putative ion selectivity filter; other site 521006004251 putative pore gating glutamate residue; other site 521006004252 putative H+/Cl- coupling transport residue; other site 521006004253 DEAD-like helicases superfamily; Region: DEXDc; smart00487 521006004254 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 521006004255 ATP binding site [chemical binding]; other site 521006004256 putative Mg++ binding site [ion binding]; other site 521006004257 nucleotide binding region [chemical binding]; other site 521006004258 helicase superfamily c-terminal domain; Region: HELICc; smart00490 521006004259 ATP-binding site [chemical binding]; other site 521006004260 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 521006004261 Sulfatase; Region: Sulfatase; pfam00884 521006004262 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 521006004263 Helicase associated domain (HA2); Region: HA2; pfam04408 521006004264 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 521006004265 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 521006004266 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 521006004267 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006004268 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006004269 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006004270 Zonular occludens toxin (Zot); Region: Zot; cl17485 521006004271 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 521006004272 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 521006004273 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 521006004274 Replication initiation factor; Region: Rep_trans; pfam02486 521006004275 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 521006004276 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 521006004277 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 521006004278 homodimer interface [polypeptide binding]; other site 521006004279 substrate-cofactor binding pocket; other site 521006004280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006004281 catalytic residue [active] 521006004282 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 521006004283 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 521006004284 substrate binding pocket [chemical binding]; other site 521006004285 membrane-bound complex binding site; other site 521006004286 hinge residues; other site 521006004287 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 521006004288 Fumarase C-terminus; Region: Fumerase_C; pfam05683 521006004289 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 521006004290 TrkA-N domain; Region: TrkA_N; pfam02254 521006004291 TrkA-C domain; Region: TrkA_C; pfam02080 521006004292 TrkA-N domain; Region: TrkA_N; pfam02254 521006004293 TrkA-C domain; Region: TrkA_C; pfam02080 521006004294 Autotransporter beta-domain; Region: Autotransporter; cl17461 521006004295 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 521006004296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006004297 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 521006004298 dimer interface [polypeptide binding]; other site 521006004299 substrate binding site [chemical binding]; other site 521006004300 ATP binding site [chemical binding]; other site 521006004301 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 521006004302 tellurite resistance protein TehB; Provisional; Region: PRK12335 521006004303 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 521006004304 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 521006004305 RNA/DNA hybrid binding site [nucleotide binding]; other site 521006004306 active site 521006004307 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006004308 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006004309 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006004310 Zonular occludens toxin (Zot); Region: Zot; cl17485 521006004311 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 521006004312 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 521006004313 Zonular occludens toxin (Zot); Region: Zot; cl17485 521006004314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006004315 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006004316 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006004317 TIGR02594 family protein; Region: TIGR02594 521006004318 PemK-like protein; Region: PemK; cl00995 521006004319 Prophage antirepressor [Transcription]; Region: COG3617 521006004320 BRO family, N-terminal domain; Region: Bro-N; smart01040 521006004321 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 521006004322 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 521006004323 putative active site [active] 521006004324 dimerization interface [polypeptide binding]; other site 521006004325 putative tRNAtyr binding site [nucleotide binding]; other site 521006004326 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 521006004327 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 521006004328 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 521006004329 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 521006004330 YciI-like protein; Reviewed; Region: PRK11370 521006004331 intracellular septation protein A; Reviewed; Region: PRK00259 521006004332 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521006004333 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 521006004334 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 521006004335 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 521006004336 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 521006004337 dimer interface [polypeptide binding]; other site 521006004338 active site 521006004339 glutathione binding site [chemical binding]; other site 521006004340 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 521006004341 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 521006004342 TPR motif; other site 521006004343 binding surface 521006004344 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 521006004345 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 521006004346 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 521006004347 homodimer interface [polypeptide binding]; other site 521006004348 substrate-cofactor binding pocket; other site 521006004349 catalytic residue [active] 521006004350 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 521006004351 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 521006004352 NAD binding site [chemical binding]; other site 521006004353 homotetramer interface [polypeptide binding]; other site 521006004354 homodimer interface [polypeptide binding]; other site 521006004355 substrate binding site [chemical binding]; other site 521006004356 active site 521006004357 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 521006004358 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 521006004359 trimer interface [polypeptide binding]; other site 521006004360 active site 521006004361 substrate binding site [chemical binding]; other site 521006004362 CoA binding site [chemical binding]; other site 521006004363 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 521006004364 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 521006004365 active site 521006004366 dimer interface [polypeptide binding]; other site 521006004367 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 521006004368 dimer interface [polypeptide binding]; other site 521006004369 active site 521006004370 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 521006004371 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 521006004372 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 521006004373 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 521006004374 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 521006004375 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 521006004376 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 521006004377 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 521006004378 CoA-binding site [chemical binding]; other site 521006004379 ATP-binding [chemical binding]; other site 521006004380 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 521006004381 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 521006004382 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 521006004383 Walker A motif; other site 521006004384 ATP binding site [chemical binding]; other site 521006004385 Walker B motif; other site 521006004386 Predicted membrane protein [Function unknown]; Region: COG2707 521006004387 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 521006004388 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 521006004389 substrate binding pocket [chemical binding]; other site 521006004390 chain length determination region; other site 521006004391 substrate-Mg2+ binding site; other site 521006004392 catalytic residues [active] 521006004393 aspartate-rich region 1; other site 521006004394 active site lid residues [active] 521006004395 aspartate-rich region 2; other site 521006004396 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 521006004397 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 521006004398 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 521006004399 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 521006004400 hypothetical protein; Provisional; Region: PRK09126 521006004401 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 521006004402 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 521006004403 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 521006004404 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 521006004405 putative substrate translocation pore; other site 521006004406 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 521006004407 HlyD family secretion protein; Region: HlyD_3; pfam13437 521006004408 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 521006004409 hypothetical protein; Provisional; Region: PRK11212 521006004410 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 521006004411 Peptidase family M23; Region: Peptidase_M23; pfam01551 521006004412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 521006004413 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 521006004414 binding surface 521006004415 Tetratricopeptide repeat; Region: TPR_16; pfam13432 521006004416 TPR motif; other site 521006004417 Protein of unknown function (DUF560); Region: DUF560; pfam04575 521006004418 Predicted membrane protein [Function unknown]; Region: COG1981 521006004419 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 521006004420 putative active site [active] 521006004421 putative metal binding residues [ion binding]; other site 521006004422 signature motif; other site 521006004423 putative dimer interface [polypeptide binding]; other site 521006004424 putative phosphate binding site [ion binding]; other site 521006004425 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 521006004426 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 521006004427 folate binding site [chemical binding]; other site 521006004428 NADP+ binding site [chemical binding]; other site 521006004429 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 521006004430 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 521006004431 Outer membrane protein OpcA; Region: OpcA; pfam07239 521006004432 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 521006004433 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 521006004434 signal recognition particle protein; Provisional; Region: PRK10867 521006004435 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 521006004436 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 521006004437 P loop; other site 521006004438 GTP binding site [chemical binding]; other site 521006004439 Signal peptide binding domain; Region: SRP_SPB; pfam02978 521006004440 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 521006004441 dimerization interface [polypeptide binding]; other site 521006004442 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 521006004443 FMN binding site [chemical binding]; other site 521006004444 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 521006004445 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521006004446 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521006004447 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 521006004448 FMN binding site [chemical binding]; other site 521006004449 Predicted membrane protein [Function unknown]; Region: COG2259 521006004450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 521006004451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 521006004452 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 521006004453 putative effector binding pocket; other site 521006004454 dimerization interface [polypeptide binding]; other site 521006004455 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 521006004456 DNA photolyase; Region: DNA_photolyase; pfam00875 521006004457 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 521006004458 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 521006004459 DEAD_2; Region: DEAD_2; pfam06733 521006004460 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 521006004461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 521006004462 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 521006004463 putative metal binding site [ion binding]; other site 521006004464 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 521006004465 adenylosuccinate lyase; Provisional; Region: PRK09285 521006004466 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 521006004467 tetramer interface [polypeptide binding]; other site 521006004468 active site 521006004469 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 521006004470 Exoribonuclease R [Transcription]; Region: VacB; COG0557 521006004471 RNB domain; Region: RNB; pfam00773 521006004472 SurA N-terminal domain; Region: SurA_N; pfam09312 521006004473 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 521006004474 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 521006004475 Organic solvent tolerance protein; Region: OstA_C; pfam04453 521006004476 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 521006004477 Phosphotransferase enzyme family; Region: APH; pfam01636 521006004478 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 521006004479 catalytic residues [active] 521006004480 hinge region; other site 521006004481 alpha helical domain; other site 521006004482 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 521006004483 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 521006004484 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 521006004485 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 521006004486 active site 521006004487 ribulose/triose binding site [chemical binding]; other site 521006004488 phosphate binding site [ion binding]; other site 521006004489 substrate (anthranilate) binding pocket [chemical binding]; other site 521006004490 product (indole) binding pocket [chemical binding]; other site 521006004491 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 521006004492 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 521006004493 ATP binding site [chemical binding]; other site 521006004494 putative Mg++ binding site [ion binding]; other site 521006004495 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 521006004496 nucleotide binding region [chemical binding]; other site 521006004497 ATP-binding site [chemical binding]; other site 521006004498 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 521006004499 Helicase and RNase D C-terminal; Region: HRDC; smart00341 521006004500 Helicase and RNase D C-terminal; Region: HRDC; smart00341 521006004501 Helicase and RNase D C-terminal; Region: HRDC; smart00341 521006004502 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 521006004503 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 521006004504 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 521006004505 Serine hydrolase (FSH1); Region: FSH1; pfam03959 521006004506 comF family protein; Region: comF; TIGR00201 521006004507 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006004508 active site 521006004509 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 521006004510 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 521006004511 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 521006004512 Predicted membrane protein [Function unknown]; Region: COG3212 521006004513 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 521006004514 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 521006004515 RuvA N terminal domain; Region: RuvA_N; pfam01330 521006004516 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 521006004517 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 521006004518 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521006004519 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 521006004520 Walker A/P-loop; other site 521006004521 ATP binding site [chemical binding]; other site 521006004522 Q-loop/lid; other site 521006004523 ABC transporter signature motif; other site 521006004524 Walker B; other site 521006004525 D-loop; other site 521006004526 H-loop/switch region; other site 521006004527 GTPase RsgA; Reviewed; Region: PRK00098 521006004528 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 521006004529 RNA binding site [nucleotide binding]; other site 521006004530 homodimer interface [polypeptide binding]; other site 521006004531 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 521006004532 GTPase/Zn-binding domain interface [polypeptide binding]; other site 521006004533 GTP/Mg2+ binding site [chemical binding]; other site 521006004534 G4 box; other site 521006004535 G5 box; other site 521006004536 G1 box; other site 521006004537 Switch I region; other site 521006004538 G2 box; other site 521006004539 G3 box; other site 521006004540 Switch II region; other site 521006004541 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 521006004542 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 521006004543 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 521006004544 substrate binding pocket [chemical binding]; other site 521006004545 chain length determination region; other site 521006004546 substrate-Mg2+ binding site; other site 521006004547 catalytic residues [active] 521006004548 aspartate-rich region 1; other site 521006004549 active site lid residues [active] 521006004550 aspartate-rich region 2; other site 521006004551 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 521006004552 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 521006004553 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521006004554 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 521006004555 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521006004556 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 521006004557 AAA domain; Region: AAA_21; pfam13304 521006004558 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 521006004559 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 521006004560 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521006004561 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 521006004562 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 521006004563 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 521006004564 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 521006004565 4Fe-4S binding domain; Region: Fer4; cl02805 521006004566 4Fe-4S binding domain; Region: Fer4; pfam00037 521006004567 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 521006004568 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 521006004569 NADH dehydrogenase subunit G; Validated; Region: PRK09129 521006004570 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 521006004571 catalytic loop [active] 521006004572 iron binding site [ion binding]; other site 521006004573 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 521006004574 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 521006004575 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 521006004576 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 521006004577 SLBB domain; Region: SLBB; pfam10531 521006004578 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 521006004579 NADH dehydrogenase subunit E; Validated; Region: PRK07539 521006004580 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 521006004581 putative dimer interface [polypeptide binding]; other site 521006004582 [2Fe-2S] cluster binding site [ion binding]; other site 521006004583 NADH dehydrogenase subunit D; Validated; Region: PRK06075 521006004584 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 521006004585 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 521006004586 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 521006004587 NADH dehydrogenase subunit B; Validated; Region: PRK06411 521006004588 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 521006004589 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 521006004590 S-adenosylmethionine binding site [chemical binding]; other site 521006004591 spermidine synthase; Provisional; Region: PRK03612 521006004592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006004593 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004594 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004595 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004596 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 521006004597 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 521006004598 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004599 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004600 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004601 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004602 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004603 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006004604 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 521006004605 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 521006004606 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 521006004607 P loop; other site 521006004608 GTP binding site [chemical binding]; other site 521006004609 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 521006004610 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 521006004611 catalytic residues [active] 521006004612 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 521006004613 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 521006004614 Competence-damaged protein; Region: CinA; pfam02464 521006004615 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 521006004616 Conserved TM helix; Region: TM_helix; pfam05552 521006004617 Mechanosensitive ion channel; Region: MS_channel; pfam00924 521006004618 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 521006004619 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521006004620 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 521006004621 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 521006004622 motif II; other site 521006004623 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 521006004624 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 521006004625 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 521006004626 Substrate binding site; other site 521006004627 Mg++ binding site; other site 521006004628 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 521006004629 active site 521006004630 substrate binding site [chemical binding]; other site 521006004631 CoA binding site [chemical binding]; other site 521006004632 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 521006004633 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 521006004634 PhnA protein; Region: PhnA; pfam03831 521006004635 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 521006004636 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 521006004637 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 521006004638 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 521006004639 Imelysin; Region: Peptidase_M75; pfam09375 521006004640 Iron permease FTR1 family; Region: FTR1; cl00475 521006004641 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 521006004642 MltA specific insert domain; Region: MltA; pfam03562 521006004643 3D domain; Region: 3D; pfam06725 521006004644 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 521006004645 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 521006004646 glutaminase active site [active] 521006004647 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 521006004648 dimer interface [polypeptide binding]; other site 521006004649 active site 521006004650 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 521006004651 dimer interface [polypeptide binding]; other site 521006004652 active site 521006004653 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 521006004654 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 521006004655 active site 521006004656 HIGH motif; other site 521006004657 KMSKS motif; other site 521006004658 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 521006004659 tRNA binding surface [nucleotide binding]; other site 521006004660 anticodon binding site; other site 521006004661 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 521006004662 dimer interface [polypeptide binding]; other site 521006004663 putative tRNA-binding site [nucleotide binding]; other site 521006004664 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 521006004665 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004666 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004667 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004668 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004669 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004670 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004671 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004672 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004673 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004674 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004675 Pilin (bacterial filament); Region: Pilin; pfam00114 521006004676 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 521006004677 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 521006004678 ThiC-associated domain; Region: ThiC-associated; pfam13667 521006004679 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 521006004680 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 521006004681 nudix motif; other site 521006004682 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 521006004683 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 521006004684 Walker A/P-loop; other site 521006004685 ATP binding site [chemical binding]; other site 521006004686 Q-loop/lid; other site 521006004687 ABC transporter signature motif; other site 521006004688 Walker B; other site 521006004689 D-loop; other site 521006004690 H-loop/switch region; other site 521006004691 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 521006004692 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 521006004693 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 521006004694 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 521006004695 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 521006004696 dimerization domain swap beta strand [polypeptide binding]; other site 521006004697 regulatory protein interface [polypeptide binding]; other site 521006004698 active site 521006004699 regulatory phosphorylation site [posttranslational modification]; other site 521006004700 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 521006004701 active pocket/dimerization site; other site 521006004702 active site 521006004703 phosphorylation site [posttranslational modification] 521006004704 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006004705 active site 521006004706 DNA ligase; Provisional; Region: PRK09125 521006004707 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 521006004708 DNA binding site [nucleotide binding] 521006004709 active site 521006004710 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 521006004711 DNA binding site [nucleotide binding] 521006004712 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 521006004713 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 521006004714 RmuC family; Region: RmuC; pfam02646 521006004715 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 521006004716 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 521006004717 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 521006004718 Qi binding site; other site 521006004719 intrachain domain interface; other site 521006004720 interchain domain interface [polypeptide binding]; other site 521006004721 heme bH binding site [chemical binding]; other site 521006004722 heme bL binding site [chemical binding]; other site 521006004723 Qo binding site; other site 521006004724 interchain domain interface [polypeptide binding]; other site 521006004725 intrachain domain interface; other site 521006004726 Qi binding site; other site 521006004727 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 521006004728 Qo binding site; other site 521006004729 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 521006004730 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 521006004731 [2Fe-2S] cluster binding site [ion binding]; other site 521006004732 Uncharacterized conserved protein [Function unknown]; Region: COG0327 521006004733 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 521006004734 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 521006004735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 521006004736 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 521006004737 putative dimerization interface [polypeptide binding]; other site 521006004738 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 521006004739 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 521006004740 23S rRNA interface [nucleotide binding]; other site 521006004741 L3 interface [polypeptide binding]; other site 521006004742 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 521006004743 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 521006004744 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 521006004745 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 521006004746 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 521006004747 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 521006004748 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 521006004749 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 521006004750 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 521006004751 ATP binding site [chemical binding]; other site 521006004752 substrate interface [chemical binding]; other site 521006004753 hypothetical protein; Provisional; Region: PRK04325 521006004754 Predicted permease [General function prediction only]; Region: COG2056 521006004755 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 521006004756 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 521006004757 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 521006004758 S-adenosylmethionine binding site [chemical binding]; other site 521006004759 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 521006004760 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 521006004761 substrate binding pocket [chemical binding]; other site 521006004762 membrane-bound complex binding site; other site 521006004763 hinge residues; other site 521006004764 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 521006004765 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 521006004766 Walker A/P-loop; other site 521006004767 ATP binding site [chemical binding]; other site 521006004768 Q-loop/lid; other site 521006004769 ABC transporter signature motif; other site 521006004770 Walker B; other site 521006004771 D-loop; other site 521006004772 H-loop/switch region; other site 521006004773 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 521006004774 dimer interface [polypeptide binding]; other site 521006004775 conserved gate region; other site 521006004776 putative PBP binding loops; other site 521006004777 ABC-ATPase subunit interface; other site 521006004778 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 521006004779 dimer interface [polypeptide binding]; other site 521006004780 conserved gate region; other site 521006004781 putative PBP binding loops; other site 521006004782 ABC-ATPase subunit interface; other site 521006004783 protease TldD; Provisional; Region: tldD; PRK10735 521006004784 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 521006004785 Na binding site [ion binding]; other site 521006004786 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 521006004787 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 521006004788 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 521006004789 thiamine phosphate binding site [chemical binding]; other site 521006004790 active site 521006004791 pyrophosphate binding site [ion binding]; other site 521006004792 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 521006004793 thiS-thiF/thiG interaction site; other site 521006004794 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 521006004795 ThiS interaction site; other site 521006004796 putative active site [active] 521006004797 tetramer interface [polypeptide binding]; other site 521006004798 Sporulation related domain; Region: SPOR; pfam05036 521006004799 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 521006004800 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 521006004801 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 521006004802 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 521006004803 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 521006004804 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 521006004805 active site 521006004806 HIGH motif; other site 521006004807 nucleotide binding site [chemical binding]; other site 521006004808 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 521006004809 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 521006004810 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 521006004811 homodimer interface [polypeptide binding]; other site 521006004812 NADP binding site [chemical binding]; other site 521006004813 substrate binding site [chemical binding]; other site 521006004814 RDD family; Region: RDD; pfam06271 521006004815 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 521006004816 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 521006004817 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 521006004818 putative active site [active] 521006004819 putative catalytic site [active] 521006004820 putative DNA binding site [nucleotide binding]; other site 521006004821 putative phosphate binding site [ion binding]; other site 521006004822 metal binding site A [ion binding]; metal-binding site 521006004823 putative AP binding site [nucleotide binding]; other site 521006004824 putative metal binding site B [ion binding]; other site 521006004825 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 521006004826 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 521006004827 active site 521006004828 HIGH motif; other site 521006004829 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 521006004830 KMSKS motif; other site 521006004831 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 521006004832 tRNA binding surface [nucleotide binding]; other site 521006004833 anticodon binding site; other site 521006004834 HaeII restriction endonuclease; Region: RE_HaeII; pfam09554 521006004835 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006004836 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 521006004837 cofactor binding site; other site 521006004838 DNA binding site [nucleotide binding] 521006004839 substrate interaction site [chemical binding]; other site 521006004840 GTPase CgtA; Reviewed; Region: obgE; PRK12299 521006004841 GTP1/OBG; Region: GTP1_OBG; pfam01018 521006004842 Obg GTPase; Region: Obg; cd01898 521006004843 G1 box; other site 521006004844 GTP/Mg2+ binding site [chemical binding]; other site 521006004845 Switch I region; other site 521006004846 G2 box; other site 521006004847 G3 box; other site 521006004848 Switch II region; other site 521006004849 G4 box; other site 521006004850 G5 box; other site 521006004851 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 521006004852 Predicted methyltransferases [General function prediction only]; Region: COG0313 521006004853 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 521006004854 putative SAM binding site [chemical binding]; other site 521006004855 putative homodimer interface [polypeptide binding]; other site 521006004856 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 521006004857 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 521006004858 dimer interface [polypeptide binding]; other site 521006004859 active site 521006004860 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 521006004861 BON domain; Region: BON; pfam04972 521006004862 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 521006004863 active site 521006004864 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 521006004865 non-specific DNA binding site [nucleotide binding]; other site 521006004866 salt bridge; other site 521006004867 sequence-specific DNA binding site [nucleotide binding]; other site 521006004868 malate:quinone oxidoreductase; Validated; Region: PRK05257 521006004869 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 521006004870 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 521006004871 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 521006004872 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 521006004873 rRNA interaction site [nucleotide binding]; other site 521006004874 S8 interaction site; other site 521006004875 putative laminin-1 binding site; other site 521006004876 elongation factor Ts; Provisional; Region: tsf; PRK09377 521006004877 UBA/TS-N domain; Region: UBA; pfam00627 521006004878 Elongation factor TS; Region: EF_TS; pfam00889 521006004879 Elongation factor TS; Region: EF_TS; pfam00889 521006004880 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 521006004881 putative nucleotide binding site [chemical binding]; other site 521006004882 uridine monophosphate binding site [chemical binding]; other site 521006004883 homohexameric interface [polypeptide binding]; other site 521006004884 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006004885 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 521006004886 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006004887 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 521006004888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006004889 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 521006004890 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 521006004891 tandem repeat interface [polypeptide binding]; other site 521006004892 oligomer interface [polypeptide binding]; other site 521006004893 active site residues [active] 521006004894 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 521006004895 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 521006004896 putative MPT binding site; other site 521006004897 argininosuccinate synthase; Validated; Region: PRK05370 521006004898 argininosuccinate synthase; Provisional; Region: PRK13820 521006004899 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 521006004900 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 521006004901 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 521006004902 serine/threonine transporter SstT; Provisional; Region: PRK13628 521006004903 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 521006004904 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 521006004905 Surface antigen; Region: Bac_surface_Ag; pfam01103 521006004906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 521006004907 Family of unknown function (DUF490); Region: DUF490; pfam04357 521006004908 Family of unknown function (DUF490); Region: DUF490; pfam04357 521006004909 Family of unknown function (DUF490); Region: DUF490; pfam04357 521006004910 POT family; Region: PTR2; cl17359 521006004911 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 521006004912 peptide chain release factor 2; Validated; Region: prfB; PRK00578 521006004913 This domain is found in peptide chain release factors; Region: PCRF; smart00937 521006004914 RF-1 domain; Region: RF-1; pfam00472 521006004915 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 521006004916 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 521006004917 active site 521006004918 nucleophile elbow; other site 521006004919 Predicted membrane protein [Function unknown]; Region: COG2259 521006004920 Protein of unknown function (DUF692); Region: DUF692; pfam05114 521006004921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 521006004922 RNA polymerase sigma factor; Provisional; Region: PRK12532 521006004923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 521006004924 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 521006004925 DNA binding residues [nucleotide binding] 521006004926 Putative zinc-finger; Region: zf-HC2; pfam13490 521006004927 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 521006004928 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 521006004929 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 521006004930 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 521006004931 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 521006004932 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 521006004933 Uncharacterized conserved protein [Function unknown]; Region: COG1739 521006004934 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 521006004935 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 521006004936 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 521006004937 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 521006004938 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 521006004939 Ligand binding site [chemical binding]; other site 521006004940 Electron transfer flavoprotein domain; Region: ETF; pfam01012 521006004941 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 521006004942 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 521006004943 putative active site [active] 521006004944 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 521006004945 Isochorismatase family; Region: Isochorismatase; pfam00857 521006004946 catalytic triad [active] 521006004947 metal binding site [ion binding]; metal-binding site 521006004948 conserved cis-peptide bond; other site 521006004949 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 521006004950 homodimer interaction site [polypeptide binding]; other site 521006004951 cofactor binding site; other site 521006004952 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 521006004953 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 521006004954 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 521006004955 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 521006004956 MutS domain I; Region: MutS_I; pfam01624 521006004957 MutS domain II; Region: MutS_II; pfam05188 521006004958 MutS domain III; Region: MutS_III; pfam05192 521006004959 MutS domain V; Region: MutS_V; pfam00488 521006004960 Walker A/P-loop; other site 521006004961 ATP binding site [chemical binding]; other site 521006004962 Q-loop/lid; other site 521006004963 ABC transporter signature motif; other site 521006004964 Walker B; other site 521006004965 D-loop; other site 521006004966 H-loop/switch region; other site 521006004967 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 521006004968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521006004969 Coenzyme A binding pocket [chemical binding]; other site 521006004970 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 521006004971 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 521006004972 active site 521006004973 HIGH motif; other site 521006004974 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 521006004975 active site 521006004976 KMSKS motif; other site 521006004977 Uncharacterized conserved protein [Function unknown]; Region: COG1434 521006004978 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 521006004979 putative active site [active] 521006004980 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 521006004981 ArsC family; Region: ArsC; pfam03960 521006004982 catalytic residues [active] 521006004983 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 521006004984 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 521006004985 catalytic residues [active] 521006004986 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 521006004987 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 521006004988 Walker A/P-loop; other site 521006004989 ATP binding site [chemical binding]; other site 521006004990 Q-loop/lid; other site 521006004991 ABC transporter signature motif; other site 521006004992 Walker B; other site 521006004993 D-loop; other site 521006004994 H-loop/switch region; other site 521006004995 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 521006004996 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 521006004997 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 521006004998 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 521006004999 Phosphoglycerate kinase; Region: PGK; pfam00162 521006005000 substrate binding site [chemical binding]; other site 521006005001 hinge regions; other site 521006005002 ADP binding site [chemical binding]; other site 521006005003 catalytic site [active] 521006005004 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 521006005005 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 521006005006 hinge; other site 521006005007 active site 521006005008 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 521006005009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 521006005010 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 521006005011 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 521006005012 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 521006005013 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 521006005014 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 521006005015 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 521006005016 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 521006005017 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 521006005018 catalytic site [active] 521006005019 metal binding site [ion binding]; metal-binding site 521006005020 TIGR01666 family membrane protein; Region: YCCS 521006005021 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 521006005022 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 521006005023 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 521006005024 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 521006005025 Walker A motif; other site 521006005026 ATP binding site [chemical binding]; other site 521006005027 Walker B motif; other site 521006005028 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 521006005029 SPOC domain; Region: SPOC; pfam07744 521006005030 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 521006005031 Walker A motif; other site 521006005032 ATP binding site [chemical binding]; other site 521006005033 Walker B motif; other site 521006005034 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 521006005035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521006005036 catalytic residue [active] 521006005037 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 521006005038 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 521006005039 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 521006005040 Transposase domain (DUF772); Region: DUF772; pfam05598 521006005041 chaperone protein DnaJ; Provisional; Region: PRK10767 521006005042 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 521006005043 HSP70 interaction site [polypeptide binding]; other site 521006005044 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 521006005045 substrate binding site [polypeptide binding]; other site 521006005046 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 521006005047 Zn binding sites [ion binding]; other site 521006005048 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 521006005049 dimer interface [polypeptide binding]; other site 521006005050 Predicted membrane protein [Function unknown]; Region: COG1297 521006005051 putative oligopeptide transporter, OPT family; Region: TIGR00733 521006005052 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 521006005053 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 521006005054 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 521006005055 substrate binding site; other site 521006005056 tetramer interface; other site 521006005057 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 521006005058 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 521006005059 NAD binding site [chemical binding]; other site 521006005060 substrate binding site [chemical binding]; other site 521006005061 homodimer interface [polypeptide binding]; other site 521006005062 active site 521006005063 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 521006005064 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 521006005065 NAD binding site [chemical binding]; other site 521006005066 homodimer interface [polypeptide binding]; other site 521006005067 active site 521006005068 substrate binding site [chemical binding]; other site 521006005069 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 521006005070 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 521006005071 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 521006005072 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 521006005073 RNA binding site [nucleotide binding]; other site 521006005074 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006005075 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 521006005076 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 521006005077 HNH endonuclease; Region: HNH_2; pfam13391 521006005078 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 521006005079 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 521006005080 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 521006005081 cyanate hydratase; Validated; Region: PRK02866 521006005082 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 521006005083 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 521006005084 pyruvate kinase; Provisional; Region: PRK05826 521006005085 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 521006005086 domain interfaces; other site 521006005087 active site 521006005088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006005089 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 521006005090 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 521006005091 HlyD family secretion protein; Region: HlyD_3; pfam13437 521006005092 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 521006005093 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 521006005094 putative active site [active] 521006005095 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521006005096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521006005097 Walker A/P-loop; other site 521006005098 ATP binding site [chemical binding]; other site 521006005099 Q-loop/lid; other site 521006005100 ABC transporter signature motif; other site 521006005101 Walker B; other site 521006005102 D-loop; other site 521006005103 H-loop/switch region; other site 521006005104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006005105 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 521006005106 putative active site [active] 521006005107 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 521006005108 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 521006005109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521006005110 Coenzyme A binding pocket [chemical binding]; other site 521006005111 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 521006005112 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 521006005113 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 521006005114 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 521006005115 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 521006005116 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 521006005117 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521006005118 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 521006005119 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 521006005120 active site 521006005121 catalytic residues [active] 521006005122 metal binding site [ion binding]; metal-binding site 521006005123 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 521006005124 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 521006005125 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 521006005126 putative active site [active] 521006005127 substrate binding site [chemical binding]; other site 521006005128 putative cosubstrate binding site; other site 521006005129 catalytic site [active] 521006005130 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 521006005131 substrate binding site [chemical binding]; other site 521006005132 16S rRNA methyltransferase B; Provisional; Region: PRK10901 521006005133 NusB family; Region: NusB; pfam01029 521006005134 putative RNA binding site [nucleotide binding]; other site 521006005135 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 521006005136 S-adenosylmethionine binding site [chemical binding]; other site 521006005137 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 521006005138 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 521006005139 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 521006005140 dimerization interface [polypeptide binding]; other site 521006005141 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 521006005142 dimer interface [polypeptide binding]; other site 521006005143 phosphorylation site [posttranslational modification] 521006005144 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 521006005145 ATP binding site [chemical binding]; other site 521006005146 Mg2+ binding site [ion binding]; other site 521006005147 G-X-G motif; other site 521006005148 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 521006005149 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 521006005150 active site 521006005151 phosphorylation site [posttranslational modification] 521006005152 intermolecular recognition site; other site 521006005153 dimerization interface [polypeptide binding]; other site 521006005154 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 521006005155 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 521006005156 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 521006005157 DNA protecting protein DprA; Region: dprA; TIGR00732 521006005158 Protein of unknown function (DUF494); Region: DUF494; cl01103 521006005159 DNA topoisomerase I; Validated; Region: PRK06599 521006005160 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 521006005161 active site 521006005162 interdomain interaction site; other site 521006005163 putative metal-binding site [ion binding]; other site 521006005164 nucleotide binding site [chemical binding]; other site 521006005165 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 521006005166 domain I; other site 521006005167 DNA binding groove [nucleotide binding] 521006005168 phosphate binding site [ion binding]; other site 521006005169 domain II; other site 521006005170 domain III; other site 521006005171 nucleotide binding site [chemical binding]; other site 521006005172 catalytic site [active] 521006005173 domain IV; other site 521006005174 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 521006005175 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 521006005176 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 521006005177 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 521006005178 ThiC family; Region: ThiC; cl08031 521006005179 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 521006005180 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 521006005181 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 521006005182 S-adenosylmethionine binding site [chemical binding]; other site 521006005183 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 521006005184 elongation factor Tu; Reviewed; Region: PRK00049 521006005185 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 521006005186 G1 box; other site 521006005187 GEF interaction site [polypeptide binding]; other site 521006005188 GTP/Mg2+ binding site [chemical binding]; other site 521006005189 Switch I region; other site 521006005190 G2 box; other site 521006005191 G3 box; other site 521006005192 Switch II region; other site 521006005193 G4 box; other site 521006005194 G5 box; other site 521006005195 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 521006005196 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 521006005197 Antibiotic Binding Site [chemical binding]; other site 521006005198 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 521006005199 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 521006005200 23S rRNA interface [nucleotide binding]; other site 521006005201 L7/L12 interface [polypeptide binding]; other site 521006005202 putative thiostrepton binding site; other site 521006005203 L25 interface [polypeptide binding]; other site 521006005204 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 521006005205 mRNA/rRNA interface [nucleotide binding]; other site 521006005206 50S ribosomal protein L10; Reviewed; Region: rplJ; PRK00099 521006005207 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 521006005208 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 521006005209 core dimer interface [polypeptide binding]; other site 521006005210 peripheral dimer interface [polypeptide binding]; other site 521006005211 L10 interface [polypeptide binding]; other site 521006005212 L11 interface [polypeptide binding]; other site 521006005213 putative EF-Tu interaction site [polypeptide binding]; other site 521006005214 putative EF-G interaction site [polypeptide binding]; other site 521006005215 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 521006005216 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 521006005217 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 521006005218 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 521006005219 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 521006005220 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 521006005221 RPB3 interaction site [polypeptide binding]; other site 521006005222 RPB1 interaction site [polypeptide binding]; other site 521006005223 RPB11 interaction site [polypeptide binding]; other site 521006005224 RPB10 interaction site [polypeptide binding]; other site 521006005225 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 521006005226 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 521006005227 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 521006005228 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 521006005229 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 521006005230 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 521006005231 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 521006005232 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 521006005233 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 521006005234 DNA binding site [nucleotide binding] 521006005235 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 521006005236 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 521006005237 Protein of unknown function (DUF560); Region: DUF560; pfam04575 521006005238 Protein of unknown function (DUF560); Region: DUF560; pfam04575 521006005239 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 521006005240 S17 interaction site [polypeptide binding]; other site 521006005241 16S rRNA interaction site [nucleotide binding]; other site 521006005242 streptomycin interaction site [chemical binding]; other site 521006005243 23S rRNA interaction site [nucleotide binding]; other site 521006005244 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 521006005245 30S ribosomal protein S7; Validated; Region: PRK05302 521006005246 elongation factor G; Reviewed; Region: PRK00007 521006005247 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 521006005248 G1 box; other site 521006005249 putative GEF interaction site [polypeptide binding]; other site 521006005250 GTP/Mg2+ binding site [chemical binding]; other site 521006005251 Switch I region; other site 521006005252 G2 box; other site 521006005253 G3 box; other site 521006005254 Switch II region; other site 521006005255 G4 box; other site 521006005256 G5 box; other site 521006005257 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 521006005258 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 521006005259 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 521006005260 elongation factor Tu; Reviewed; Region: PRK00049 521006005261 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 521006005262 G1 box; other site 521006005263 GEF interaction site [polypeptide binding]; other site 521006005264 GTP/Mg2+ binding site [chemical binding]; other site 521006005265 Switch I region; other site 521006005266 G2 box; other site 521006005267 G3 box; other site 521006005268 Switch II region; other site 521006005269 G4 box; other site 521006005270 G5 box; other site 521006005271 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 521006005272 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 521006005273 Antibiotic Binding Site [chemical binding]; other site 521006005274 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 521006005275 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 521006005276 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 521006005277 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 521006005278 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 521006005279 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 521006005280 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 521006005281 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 521006005282 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 521006005283 putative translocon binding site; other site 521006005284 protein-rRNA interface [nucleotide binding]; other site 521006005285 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 521006005286 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 521006005287 G-X-X-G motif; other site 521006005288 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 521006005289 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 521006005290 23S rRNA interface [nucleotide binding]; other site 521006005291 5S rRNA interface [nucleotide binding]; other site 521006005292 putative antibiotic binding site [chemical binding]; other site 521006005293 L25 interface [polypeptide binding]; other site 521006005294 L27 interface [polypeptide binding]; other site 521006005295 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 521006005296 23S rRNA interface [nucleotide binding]; other site 521006005297 putative translocon interaction site; other site 521006005298 signal recognition particle (SRP54) interaction site; other site 521006005299 L23 interface [polypeptide binding]; other site 521006005300 trigger factor interaction site; other site 521006005301 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 521006005302 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 521006005303 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 521006005304 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 521006005305 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 521006005306 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 521006005307 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 521006005308 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 521006005309 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 521006005310 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 521006005311 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 521006005312 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 521006005313 5S rRNA interface [nucleotide binding]; other site 521006005314 23S rRNA interface [nucleotide binding]; other site 521006005315 L5 interface [polypeptide binding]; other site 521006005316 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 521006005317 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 521006005318 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 521006005319 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 521006005320 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 521006005321 SecY translocase; Region: SecY; pfam00344 521006005322 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 521006005323 30S ribosomal protein S13; Region: bact_S13; TIGR03631 521006005324 30S ribosomal protein S11; Validated; Region: PRK05309 521006005325 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 521006005326 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 521006005327 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 521006005328 RNA binding surface [nucleotide binding]; other site 521006005329 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 521006005330 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 521006005331 alphaNTD homodimer interface [polypeptide binding]; other site 521006005332 alphaNTD - beta interaction site [polypeptide binding]; other site 521006005333 alphaNTD - beta' interaction site [polypeptide binding]; other site 521006005334 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 521006005335 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 521006005336 septum formation inhibitor; Reviewed; Region: minC; PRK04516 521006005337 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 521006005338 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 521006005339 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 521006005340 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 521006005341 Switch I; other site 521006005342 Switch II; other site 521006005343 cell division topological specificity factor MinE; Provisional; Region: PRK13989 521006005344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 521006005345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 521006005346 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 521006005347 dimerization interface [polypeptide binding]; other site 521006005348 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 521006005349 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 521006005350 eyelet of channel; other site 521006005351 trimer interface [polypeptide binding]; other site 521006005352 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 521006005353 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 521006005354 dimerization interface 3.5A [polypeptide binding]; other site 521006005355 active site 521006005356 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 521006005357 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 521006005358 HIGH motif; other site 521006005359 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 521006005360 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 521006005361 active site 521006005362 KMSKS motif; other site 521006005363 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 521006005364 tRNA binding surface [nucleotide binding]; other site 521006005365 anticodon binding site; other site 521006005366 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 521006005367 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 521006005368 hydroxyglutarate oxidase; Provisional; Region: PRK11728 521006005369 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 521006005370 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 521006005371 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 521006005372 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 521006005373 active site 521006005374 Abi-like protein; Region: Abi_2; pfam07751 521006005375 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 521006005376 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 521006005377 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 521006005378 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 521006005379 trimer interface [polypeptide binding]; other site 521006005380 active site 521006005381 UDP-GlcNAc binding site [chemical binding]; other site 521006005382 lipid binding site [chemical binding]; lipid-binding site 521006005383 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 521006005384 periplasmic chaperone; Provisional; Region: PRK10780 521006005385 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 521006005386 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521006005387 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521006005388 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521006005389 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521006005390 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521006005391 Surface antigen; Region: Bac_surface_Ag; pfam01103 521006005392 zinc metallopeptidase RseP; Provisional; Region: PRK10779 521006005393 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 521006005394 active site 521006005395 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 521006005396 protein binding site [polypeptide binding]; other site 521006005397 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 521006005398 protein binding site [polypeptide binding]; other site 521006005399 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 521006005400 putative substrate binding region [chemical binding]; other site 521006005401 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 521006005402 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 521006005403 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 521006005404 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 521006005405 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 521006005406 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 521006005407 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 521006005408 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 521006005409 catalytic residue [active] 521006005410 putative FPP diphosphate binding site; other site 521006005411 putative FPP binding hydrophobic cleft; other site 521006005412 dimer interface [polypeptide binding]; other site 521006005413 putative IPP diphosphate binding site; other site 521006005414 ribosome recycling factor; Reviewed; Region: frr; PRK00083 521006005415 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 521006005416 hinge region; other site 521006005417 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 521006005418 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 521006005419 cofactor binding site; other site 521006005420 DNA binding site [nucleotide binding] 521006005421 substrate interaction site [chemical binding]; other site 521006005422 NgoPII restriction endonuclease; Region: RE_NgoPII; pfam09521 521006005423 Predicted membrane protein [Function unknown]; Region: COG1289 521006005424 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 521006005425 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 521006005426 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 521006005427 S-adenosylmethionine binding site [chemical binding]; other site 521006005428 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 521006005429 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 521006005430 P-loop; other site 521006005431 Magnesium ion binding site [ion binding]; other site 521006005432 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 521006005433 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 521006005434 Magnesium ion binding site [ion binding]; other site 521006005435 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 521006005436 RNA/DNA hybrid binding site [nucleotide binding]; other site 521006005437 active site 521006005438 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 521006005439 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 521006005440 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 521006005441 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 521006005442 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 521006005443 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 521006005444 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 521006005445 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 521006005446 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 521006005447 homodimer interface [polypeptide binding]; other site 521006005448 oligonucleotide binding site [chemical binding]; other site 521006005449 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 521006005450 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 521006005451 RNA binding surface [nucleotide binding]; other site 521006005452 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 521006005453 active site 521006005454 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 521006005455 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 521006005456 dihydrodipicolinate reductase; Provisional; Region: PRK00048 521006005457 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 521006005458 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 521006005459 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 521006005460 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 521006005461 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 521006005462 metal binding site 2 [ion binding]; metal-binding site 521006005463 putative DNA binding helix; other site 521006005464 metal binding site 1 [ion binding]; metal-binding site 521006005465 dimer interface [polypeptide binding]; other site 521006005466 structural Zn2+ binding site [ion binding]; other site 521006005467 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 521006005468 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 521006005469 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 521006005470 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 521006005471 ferredoxin; Provisional; Region: PRK08764 521006005472 Putative Fe-S cluster; Region: FeS; cl17515 521006005473 4Fe-4S binding domain; Region: Fer4; pfam00037 521006005474 4Fe-4S binding domain; Region: Fer4; pfam00037 521006005475 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 521006005476 putative cation:proton antiport protein; Provisional; Region: PRK10669 521006005477 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 521006005478 TrkA-N domain; Region: TrkA_N; pfam02254 521006005479 TrkA-C domain; Region: TrkA_C; pfam02080 521006005480 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 521006005481 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 521006005482 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 521006005483 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 521006005484 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 521006005485 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 521006005486 Mg2+ binding site [ion binding]; other site 521006005487 G-X-G motif; other site 521006005488 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 521006005489 anchoring element; other site 521006005490 dimer interface [polypeptide binding]; other site 521006005491 ATP binding site [chemical binding]; other site 521006005492 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 521006005493 active site 521006005494 putative metal-binding site [ion binding]; other site 521006005495 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 521006005496 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 521006005497 Mechanosensitive ion channel; Region: MS_channel; pfam00924 521006005498 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 521006005499 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 521006005500 active site 521006005501 Zn binding site [ion binding]; other site 521006005502 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 521006005503 Domain of unknown function DUF; Region: DUF204; pfam02659 521006005504 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 521006005505 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 521006005506 tetramer interface [polypeptide binding]; other site 521006005507 heme binding pocket [chemical binding]; other site 521006005508 NADPH binding site [chemical binding]; other site 521006005509 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 521006005510 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521006005511 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 521006005512 putative ADP-binding pocket [chemical binding]; other site 521006005513 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 521006005514 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521006005515 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 521006005516 putative substrate translocation pore; other site 521006005517 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 521006005518 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 521006005519 dimer interface [polypeptide binding]; other site 521006005520 active site 521006005521 acyl carrier protein; Provisional; Region: acpP; PRK00982 521006005522 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 521006005523 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 521006005524 quinone interaction residues [chemical binding]; other site 521006005525 active site 521006005526 catalytic residues [active] 521006005527 FMN binding site [chemical binding]; other site 521006005528 substrate binding site [chemical binding]; other site 521006005529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 521006005530 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 521006005531 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 521006005532 metal binding triad; other site 521006005533 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 521006005534 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 521006005535 metal binding triad; other site 521006005536 DNA helicase II; Region: uvrD; TIGR01075 521006005537 Part of AAA domain; Region: AAA_19; pfam13245 521006005538 Family description; Region: UvrD_C_2; pfam13538 521006005539 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 521006005540 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 521006005541 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 521006005542 putative acyl-acceptor binding pocket; other site 521006005543 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 521006005544 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 521006005545 active site 521006005546 motif I; other site 521006005547 motif II; other site 521006005548 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 521006005549 Sulfatase; Region: Sulfatase; cl17466 521006005550 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521006005551 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 521006005552 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 521006005553 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 521006005554 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 521006005555 aromatic amino acid transport protein; Region: araaP; TIGR00837 521006005556 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 521006005557 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 521006005558 S-adenosylmethionine binding site [chemical binding]; other site 521006005559 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 521006005560 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 521006005561 putative active site [active] 521006005562 putative substrate binding site [chemical binding]; other site 521006005563 ATP binding site [chemical binding]; other site 521006005564 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 521006005565 ATP-binding site [chemical binding]; other site 521006005566 Gluconate-6-phosphate binding site [chemical binding]; other site 521006005567 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 521006005568 fructuronate transporter; Provisional; Region: PRK10034; cl15264 521006005569 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 521006005570 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 521006005571 dimer interface [polypeptide binding]; other site 521006005572 conserved gate region; other site 521006005573 ABC-ATPase subunit interface; other site 521006005574 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 521006005575 dimer interface [polypeptide binding]; other site 521006005576 ABC-ATPase subunit interface; other site 521006005577 putative PBP binding loops; other site 521006005578 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 521006005579 active site clefts [active] 521006005580 zinc binding site [ion binding]; other site 521006005581 dimer interface [polypeptide binding]; other site 521006005582 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 521006005583 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 521006005584 active site 521006005585 (T/H)XGH motif; other site 521006005586 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 521006005587 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 521006005588 oxidative damage protection protein; Provisional; Region: PRK05408 521006005589 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 521006005590 YccA-like proteins; Region: YccA_like; cd10433 521006005591 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 521006005592 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 521006005593 active site 521006005594 (T/H)XGH motif; other site 521006005595 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 521006005596 trimer interface [polypeptide binding]; other site 521006005597 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 521006005598 trimer interface [polypeptide binding]; other site 521006005599 Haemagglutinin; Region: HIM; pfam05662 521006005600 YadA-like C-terminal region; Region: YadA; pfam03895 521006005601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 521006005602 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 521006005603 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 521006005604 Walker A/P-loop; other site 521006005605 ATP binding site [chemical binding]; other site 521006005606 Q-loop/lid; other site 521006005607 ABC transporter signature motif; other site 521006005608 Walker B; other site 521006005609 D-loop; other site 521006005610 H-loop/switch region; other site 521006005611 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 521006005612 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 521006005613 ABC-ATPase subunit interface; other site 521006005614 dimer interface [polypeptide binding]; other site 521006005615 putative PBP binding regions; other site 521006005616 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 521006005617 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 521006005618 ABC-ATPase subunit interface; other site 521006005619 dimer interface [polypeptide binding]; other site 521006005620 putative PBP binding regions; other site 521006005621 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 521006005622 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 521006005623 putative ligand binding residues [chemical binding]; other site 521006005624 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 521006005625 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 521006005626 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 521006005627 oligomerisation interface [polypeptide binding]; other site 521006005628 mobile loop; other site 521006005629 roof hairpin; other site 521006005630 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 521006005631 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 521006005632 ring oligomerisation interface [polypeptide binding]; other site 521006005633 ATP/Mg binding site [chemical binding]; other site 521006005634 stacking interactions; other site 521006005635 hinge regions; other site 521006005636 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 521006005637 Na2 binding site [ion binding]; other site 521006005638 putative substrate binding site 1 [chemical binding]; other site 521006005639 Na binding site 1 [ion binding]; other site 521006005640 putative substrate binding site 2 [chemical binding]; other site 521006005641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 521006005642 diaminopimelate decarboxylase; Region: lysA; TIGR01048 521006005643 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 521006005644 active site 521006005645 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521006005646 substrate binding site [chemical binding]; other site 521006005647 catalytic residues [active] 521006005648 dimer interface [polypeptide binding]; other site 521006005649 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 521006005650 putative iron binding site [ion binding]; other site 521006005651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 521006005652 S-ribosylhomocysteinase; Provisional; Region: PRK02260 521006005653 DNA polymerase I; Provisional; Region: PRK05755 521006005654 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 521006005655 active site 521006005656 putative 5' ssDNA interaction site; other site 521006005657 metal binding site 3; metal-binding site 521006005658 metal binding site 1 [ion binding]; metal-binding site 521006005659 metal binding site 2 [ion binding]; metal-binding site 521006005660 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 521006005661 putative DNA binding site [nucleotide binding]; other site 521006005662 putative metal binding site [ion binding]; other site 521006005663 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 521006005664 active site 521006005665 catalytic site [active] 521006005666 substrate binding site [chemical binding]; other site 521006005667 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 521006005668 active site 521006005669 DNA binding site [nucleotide binding] 521006005670 catalytic site [active] 521006005671 Fic/DOC family; Region: Fic; pfam02661 521006005672 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 521006005673 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 521006005674 Autotransporter beta-domain; Region: Autotransporter; pfam03797 521006005675 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 521006005676 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 521006005677 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 521006005678 trmE is a tRNA modification GTPase; Region: trmE; cd04164 521006005679 G1 box; other site 521006005680 GTP/Mg2+ binding site [chemical binding]; other site 521006005681 Switch I region; other site 521006005682 G2 box; other site 521006005683 Switch II region; other site 521006005684 G3 box; other site 521006005685 G4 box; other site 521006005686 G5 box; other site 521006005687 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 521006005688 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 521006005689 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 521006005690 N-terminal plug; other site 521006005691 ligand-binding site [chemical binding]; other site 521006005692 Protein of unknown function (DUF560); Region: DUF560; pfam04575 521006005693 aminodeoxychorismate synthase; Provisional; Region: PRK07508 521006005694 chorismate binding enzyme; Region: Chorismate_bind; cl10555 521006005695 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 521006005696 homodimer interface [polypeptide binding]; other site 521006005697 substrate-cofactor binding pocket; other site 521006005698 Aminotransferase class IV; Region: Aminotran_4; pfam01063 521006005699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521006005700 catalytic residue [active] 521006005701 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 521006005702 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 521006005703 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 521006005704 NAD binding site [chemical binding]; other site 521006005705 catalytic residues [active] 521006005706 substrate binding site [chemical binding]; other site 521006005707 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 521006005708 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 521006005709 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 521006005710 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 521006005711 Walker A/P-loop; other site 521006005712 ATP binding site [chemical binding]; other site 521006005713 Q-loop/lid; other site 521006005714 ABC transporter signature motif; other site 521006005715 Walker B; other site 521006005716 D-loop; other site 521006005717 H-loop/switch region; other site 521006005718 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 521006005719 Permease; Region: Permease; pfam02405 521006005720 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 521006005721 mce related protein; Region: MCE; pfam02470 521006005722 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 521006005723 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 521006005724 anti sigma factor interaction site; other site 521006005725 regulatory phosphorylation site [posttranslational modification]; other site 521006005726 VacJ like lipoprotein; Region: VacJ; cl01073 521006005727 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 521006005728 active site 521006005729 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 521006005730 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 521006005731 catalytic residues [active] 521006005732 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 521006005733 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 521006005734 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 521006005735 Cadmium resistance transporter; Region: Cad; pfam03596 521006005736 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 521006005737 stringent starvation protein A; Provisional; Region: sspA; PRK09481 521006005738 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 521006005739 C-terminal domain interface [polypeptide binding]; other site 521006005740 putative GSH binding site (G-site) [chemical binding]; other site 521006005741 dimer interface [polypeptide binding]; other site 521006005742 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 521006005743 dimer interface [polypeptide binding]; other site 521006005744 N-terminal domain interface [polypeptide binding]; other site 521006005745 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 521006005746 Uncharacterized conserved protein [Function unknown]; Region: COG1610 521006005747 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 521006005748 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 521006005749 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 521006005750 N-acetyl-D-glucosamine binding site [chemical binding]; other site 521006005751 catalytic residue [active] 521006005752 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 521006005753 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521006005754 Walker A/P-loop; other site 521006005755 ATP binding site [chemical binding]; other site 521006005756 Q-loop/lid; other site 521006005757 ABC transporter signature motif; other site 521006005758 Walker B; other site 521006005759 D-loop; other site 521006005760 H-loop/switch region; other site 521006005761 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 521006005762 dimer interface [polypeptide binding]; other site 521006005763 conserved gate region; other site 521006005764 ABC-ATPase subunit interface; other site 521006005765 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 521006005766 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 521006005767 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 521006005768 Flavoprotein; Region: Flavoprotein; pfam02441 521006005769 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 521006005770 ParB-like nuclease domain; Region: ParBc; pfam02195 521006005771 KorB domain; Region: KorB; pfam08535 521006005772 F0F1-type ATP synthase, subunit I [Energy production and conversion]; Region: AtpI; COG3312 521006005773 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 521006005774 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 521006005775 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 521006005776 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 521006005777 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 521006005778 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 521006005779 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 521006005780 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 521006005781 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 521006005782 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 521006005783 beta subunit interaction interface [polypeptide binding]; other site 521006005784 Walker A motif; other site 521006005785 ATP binding site [chemical binding]; other site 521006005786 Walker B motif; other site 521006005787 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 521006005788 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 521006005789 core domain interface [polypeptide binding]; other site 521006005790 delta subunit interface [polypeptide binding]; other site 521006005791 epsilon subunit interface [polypeptide binding]; other site 521006005792 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 521006005793 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 521006005794 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 521006005795 alpha subunit interaction interface [polypeptide binding]; other site 521006005796 Walker A motif; other site 521006005797 ATP binding site [chemical binding]; other site 521006005798 Walker B motif; other site 521006005799 inhibitor binding site; inhibition site 521006005800 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 521006005801 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 521006005802 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 521006005803 gamma subunit interface [polypeptide binding]; other site 521006005804 epsilon subunit interface [polypeptide binding]; other site 521006005805 LBP interface [polypeptide binding]; other site 521006005806 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 521006005807 dimer interface [polypeptide binding]; other site 521006005808 motif 1; other site 521006005809 active site 521006005810 motif 2; other site 521006005811 motif 3; other site 521006005812 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 521006005813 DALR anticodon binding domain; Region: DALR_1; pfam05746 521006005814 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 521006005815 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 521006005816 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 521006005817 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 521006005818 Ligand binding site; other site 521006005819 metal-binding site 521006005820 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 521006005821 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 521006005822 RNA methyltransferase, RsmE family; Region: TIGR00046 521006005823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 521006005824 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 521006005825 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 521006005826 active site 521006005827 hypothetical protein; Provisional; Region: PRK01752 521006005828 SEC-C motif; Region: SEC-C; pfam02810 521006005829 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 521006005830 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 521006005831 NAD(P) binding site [chemical binding]; other site 521006005832 homotetramer interface [polypeptide binding]; other site 521006005833 homodimer interface [polypeptide binding]; other site 521006005834 active site 521006005835 GMP synthase; Reviewed; Region: guaA; PRK00074 521006005836 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 521006005837 AMP/PPi binding site [chemical binding]; other site 521006005838 candidate oxyanion hole; other site 521006005839 catalytic triad [active] 521006005840 potential glutamine specificity residues [chemical binding]; other site 521006005841 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 521006005842 ATP Binding subdomain [chemical binding]; other site 521006005843 Ligand Binding sites [chemical binding]; other site 521006005844 Dimerization subdomain; other site 521006005845 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 521006005846 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521006005847 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 521006005848 Walker A/P-loop; other site 521006005849 ATP binding site [chemical binding]; other site 521006005850 Q-loop/lid; other site 521006005851 ABC transporter signature motif; other site 521006005852 Walker B; other site 521006005853 D-loop; other site 521006005854 H-loop/switch region; other site 521006005855 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 521006005856 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 521006005857 Predicted membrane protein [Function unknown]; Region: COG3326 521006005858 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 521006005859 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 521006005860 dimer interface [polypeptide binding]; other site 521006005861 active site 521006005862 CoA binding pocket [chemical binding]; other site 521006005863 putative phosphate acyltransferase; Provisional; Region: PRK05331 521006005864 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 521006005865 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521006005866 active site 521006005867 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 521006005868 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 521006005869 Maf-like protein; Region: Maf; pfam02545 521006005870 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 521006005871 active site 521006005872 dimer interface [polypeptide binding]; other site 521006005873 Predicted methyltransferases [General function prediction only]; Region: COG0313 521006005874 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 521006005875 putative SAM binding site [chemical binding]; other site 521006005876 homodimer interface [polypeptide binding]; other site 521006005877 membrane protein insertase; Provisional; Region: PRK01318 521006005878 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 521006005879 hypothetical protein; Provisional; Region: PRK14373 521006005880 ribonuclease P; Reviewed; Region: rnpA; PRK04390 521006005881 Ribosomal protein L34; Region: Ribosomal_L34; cl00370