-- dump date 20140619_000848 -- class Genbank::misc_feature -- table misc_feature_note -- id note 360095000001 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 360095000002 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 360095000003 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 360095000004 putative catalytic site [active] 360095000005 putative metal binding site [ion binding]; other site 360095000006 putative phosphate binding site [ion binding]; other site 360095000007 DNA polymerase I; Provisional; Region: PRK05755 360095000008 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 360095000009 active site 360095000010 metal binding site 1 [ion binding]; metal-binding site 360095000011 putative 5' ssDNA interaction site; other site 360095000012 metal binding site 3; metal-binding site 360095000013 metal binding site 2 [ion binding]; metal-binding site 360095000014 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 360095000015 putative DNA binding site [nucleotide binding]; other site 360095000016 putative metal binding site [ion binding]; other site 360095000017 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 360095000018 active site 360095000019 catalytic site [active] 360095000020 substrate binding site [chemical binding]; other site 360095000021 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 360095000022 active site 360095000023 DNA binding site [nucleotide binding] 360095000024 catalytic site [active] 360095000025 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 360095000026 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 360095000027 active site 360095000028 catalytic site [active] 360095000029 substrate binding site [chemical binding]; other site 360095000030 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 360095000031 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 360095000032 CoA-binding site [chemical binding]; other site 360095000033 ATP-binding [chemical binding]; other site 360095000034 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360095000035 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360095000036 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360095000037 shikimate binding site; other site 360095000038 NAD(P) binding site [chemical binding]; other site 360095000039 Maf-like protein; Region: Maf; pfam02545 360095000040 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 360095000041 active site 360095000042 dimer interface [polypeptide binding]; other site 360095000043 PEP synthetase regulatory protein; Provisional; Region: PRK05339 360095000044 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360095000045 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 360095000046 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 360095000047 RNA binding site [nucleotide binding]; other site 360095000048 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 360095000049 multimer interface [polypeptide binding]; other site 360095000050 Walker A motif; other site 360095000051 ATP binding site [chemical binding]; other site 360095000052 Walker B motif; other site 360095000053 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 360095000054 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360095000055 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360095000056 G1 box; other site 360095000057 GTP/Mg2+ binding site [chemical binding]; other site 360095000058 Switch I region; other site 360095000059 G2 box; other site 360095000060 Switch II region; other site 360095000061 G3 box; other site 360095000062 G4 box; other site 360095000063 G5 box; other site 360095000064 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360095000065 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360095000066 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 360095000067 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360095000068 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 360095000069 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 360095000070 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360095000071 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 360095000072 P-loop; other site 360095000073 Magnesium ion binding site [ion binding]; other site 360095000074 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 360095000075 Magnesium ion binding site [ion binding]; other site 360095000076 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 360095000077 ParB-like nuclease domain; Region: ParBc; pfam02195 360095000078 intracellular septation protein A; Reviewed; Region: PRK00259 360095000079 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360095000080 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 360095000081 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 360095000082 P loop; other site 360095000083 GTP binding site [chemical binding]; other site 360095000084 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 360095000085 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360095000086 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 360095000087 FeS/SAM binding site; other site 360095000088 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360095000089 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360095000090 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360095000091 Protease inhibitor Inh; Region: Inh; pfam02974 360095000092 Predicted ATPase [General function prediction only]; Region: COG1485 360095000093 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 360095000094 malate dehydrogenase; Reviewed; Region: PRK06223 360095000095 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 360095000096 NAD(P) binding site [chemical binding]; other site 360095000097 dimer interface [polypeptide binding]; other site 360095000098 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360095000099 substrate binding site [chemical binding]; other site 360095000100 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 360095000101 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 360095000102 CoA-ligase; Region: Ligase_CoA; pfam00549 360095000103 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 360095000104 CoA binding domain; Region: CoA_binding; smart00881 360095000105 CoA-ligase; Region: Ligase_CoA; pfam00549 360095000106 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 360095000107 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 360095000108 TPP-binding site [chemical binding]; other site 360095000109 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 360095000110 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 360095000111 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 360095000112 E3 interaction surface; other site 360095000113 lipoyl attachment site [posttranslational modification]; other site 360095000114 e3 binding domain; Region: E3_binding; pfam02817 360095000115 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 360095000116 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 360095000117 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360095000118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360095000119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360095000120 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 360095000121 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 360095000122 NAD(P) binding pocket [chemical binding]; other site 360095000123 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 360095000124 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 360095000125 dimer interface [polypeptide binding]; other site 360095000126 active site 360095000127 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360095000128 catalytic residues [active] 360095000129 substrate binding site [chemical binding]; other site 360095000130 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 360095000131 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360095000132 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 360095000133 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 360095000134 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 360095000135 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 360095000136 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 360095000137 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360095000138 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 360095000139 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 360095000140 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 360095000141 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 360095000142 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360095000143 active site 360095000144 dimer interface [polypeptide binding]; other site 360095000145 metal binding site [ion binding]; metal-binding site 360095000146 shikimate kinase; Provisional; Region: PRK13946 360095000147 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 360095000148 ADP binding site [chemical binding]; other site 360095000149 magnesium binding site [ion binding]; other site 360095000150 putative shikimate binding site; other site 360095000151 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 360095000152 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 360095000153 active site 360095000154 DNA binding site [nucleotide binding] 360095000155 Int/Topo IB signature motif; other site 360095000156 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 360095000157 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360095000158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 360095000159 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 360095000160 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 360095000161 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360095000162 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360095000163 putative acyl-acceptor binding pocket; other site 360095000164 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 360095000165 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 360095000166 zinc binding site [ion binding]; other site 360095000167 putative ligand binding site [chemical binding]; other site 360095000168 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360095000169 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 360095000170 TM-ABC transporter signature motif; other site 360095000171 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 360095000172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095000173 Walker A/P-loop; other site 360095000174 ATP binding site [chemical binding]; other site 360095000175 Q-loop/lid; other site 360095000176 ABC transporter signature motif; other site 360095000177 Walker B; other site 360095000178 D-loop; other site 360095000179 H-loop/switch region; other site 360095000180 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 360095000181 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 360095000182 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 360095000183 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 360095000184 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 360095000185 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360095000186 catalytic residues [active] 360095000187 argininosuccinate lyase; Provisional; Region: PRK00855 360095000188 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360095000189 active sites [active] 360095000190 tetramer interface [polypeptide binding]; other site 360095000191 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 360095000192 diaminopimelate decarboxylase; Region: lysA; TIGR01048 360095000193 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360095000194 active site 360095000195 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360095000196 substrate binding site [chemical binding]; other site 360095000197 catalytic residues [active] 360095000198 dimer interface [polypeptide binding]; other site 360095000199 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 360095000200 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360095000201 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 360095000202 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360095000203 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 360095000204 active site 360095000205 phosphorylation site [posttranslational modification] 360095000206 intermolecular recognition site; other site 360095000207 dimerization interface [polypeptide binding]; other site 360095000208 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 360095000209 DNA binding site [nucleotide binding] 360095000210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 360095000211 EVE domain; Region: EVE; cl00728 360095000212 UGMP family protein; Validated; Region: PRK09604 360095000213 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360095000214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 360095000215 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 360095000216 HemY protein N-terminus; Region: HemY_N; pfam07219 360095000217 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 360095000218 TPR motif; other site 360095000219 binding surface 360095000220 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 360095000221 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 360095000222 catalytic triad [active] 360095000223 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 360095000224 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_cladeB; cd00884 360095000225 active site clefts [active] 360095000226 zinc binding site [ion binding]; other site 360095000227 dimer interface [polypeptide binding]; other site 360095000228 signal recognition particle protein; Provisional; Region: PRK10867 360095000229 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 360095000230 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 360095000231 P loop; other site 360095000232 GTP binding site [chemical binding]; other site 360095000233 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360095000234 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 360095000235 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 360095000236 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 360095000237 heat shock protein HtpX; Provisional; Region: PRK01345 360095000238 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 360095000239 putative RNA binding site [nucleotide binding]; other site 360095000240 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 360095000241 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 360095000242 S-adenosylmethionine binding site [chemical binding]; other site 360095000243 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 360095000244 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360095000245 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 360095000246 purine monophosphate binding site [chemical binding]; other site 360095000247 dimer interface [polypeptide binding]; other site 360095000248 putative catalytic residues [active] 360095000249 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 360095000250 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 360095000251 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 360095000252 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 360095000253 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 360095000254 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 360095000255 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 360095000256 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 360095000257 metal ion-dependent adhesion site (MIDAS); other site 360095000258 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 360095000259 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 360095000260 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 360095000261 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 360095000262 HSP70 interaction site [polypeptide binding]; other site 360095000263 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 360095000264 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 360095000265 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 360095000266 active site 360095000267 DNA binding site [nucleotide binding] 360095000268 Int/Topo IB signature motif; other site 360095000269 SapC; Region: SapC; pfam07277 360095000270 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 360095000271 RimM N-terminal domain; Region: RimM; pfam01782 360095000272 PRC-barrel domain; Region: PRC; pfam05239 360095000273 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 360095000274 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 360095000275 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 360095000276 Iron-sulfur protein interface; other site 360095000277 proximal quinone binding site [chemical binding]; other site 360095000278 SdhD (CybS) interface [polypeptide binding]; other site 360095000279 proximal heme binding site [chemical binding]; other site 360095000280 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 360095000281 putative SdhC subunit interface [polypeptide binding]; other site 360095000282 putative proximal heme binding site [chemical binding]; other site 360095000283 putative Iron-sulfur protein interface [polypeptide binding]; other site 360095000284 putative proximal quinone binding site; other site 360095000285 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 360095000286 L-aspartate oxidase; Provisional; Region: PRK06175 360095000287 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360095000288 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 360095000289 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360095000290 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 360095000291 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360095000292 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 360095000293 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 360095000294 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360095000295 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 360095000296 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 360095000297 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 360095000298 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 360095000299 putative catalytic site [active] 360095000300 putative phosphate binding site [ion binding]; other site 360095000301 active site 360095000302 metal binding site A [ion binding]; metal-binding site 360095000303 DNA binding site [nucleotide binding] 360095000304 putative AP binding site [nucleotide binding]; other site 360095000305 putative metal binding site B [ion binding]; other site 360095000306 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360095000307 HlyD family secretion protein; Region: HlyD_3; pfam13437 360095000308 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360095000309 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360095000310 Walker A/P-loop; other site 360095000311 ATP binding site [chemical binding]; other site 360095000312 Q-loop/lid; other site 360095000313 ABC transporter signature motif; other site 360095000314 Walker B; other site 360095000315 D-loop; other site 360095000316 H-loop/switch region; other site 360095000317 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360095000318 FtsX-like permease family; Region: FtsX; pfam02687 360095000319 Uncharacterized conserved protein [Function unknown]; Region: COG1434 360095000320 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 360095000321 putative active site [active] 360095000322 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 360095000323 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 360095000324 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 360095000325 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360095000326 Walker A/P-loop; other site 360095000327 ATP binding site [chemical binding]; other site 360095000328 Q-loop/lid; other site 360095000329 ABC transporter signature motif; other site 360095000330 Walker B; other site 360095000331 D-loop; other site 360095000332 H-loop/switch region; other site 360095000333 acetyl-CoA synthetase; Provisional; Region: PRK00174 360095000334 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 360095000335 active site 360095000336 CoA binding site [chemical binding]; other site 360095000337 acyl-activating enzyme (AAE) consensus motif; other site 360095000338 AMP binding site [chemical binding]; other site 360095000339 acetate binding site [chemical binding]; other site 360095000340 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360095000341 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360095000342 catalytic residue [active] 360095000343 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360095000344 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360095000345 HIGH motif; other site 360095000346 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360095000347 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360095000348 active site 360095000349 KMSKS motif; other site 360095000350 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 360095000351 tRNA binding surface [nucleotide binding]; other site 360095000352 Lipopolysaccharide-assembly; Region: LptE; cl01125 360095000353 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 360095000354 active site 360095000355 intersubunit interactions; other site 360095000356 catalytic residue [active] 360095000357 primosome assembly protein PriA; Validated; Region: PRK05580 360095000358 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 360095000359 ATP binding site [chemical binding]; other site 360095000360 putative Mg++ binding site [ion binding]; other site 360095000361 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360095000362 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 360095000363 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360095000364 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360095000365 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360095000366 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 360095000367 beta subunit interaction interface [polypeptide binding]; other site 360095000368 Walker A motif; other site 360095000369 ATP binding site [chemical binding]; other site 360095000370 Walker B motif; other site 360095000371 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360095000372 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 360095000373 core domain interface [polypeptide binding]; other site 360095000374 delta subunit interface [polypeptide binding]; other site 360095000375 epsilon subunit interface [polypeptide binding]; other site 360095000376 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360095000377 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360095000378 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 360095000379 alpha subunit interaction interface [polypeptide binding]; other site 360095000380 Walker A motif; other site 360095000381 ATP binding site [chemical binding]; other site 360095000382 Walker B motif; other site 360095000383 inhibitor binding site; inhibition site 360095000384 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360095000385 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 360095000386 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 360095000387 gamma subunit interface [polypeptide binding]; other site 360095000388 epsilon subunit interface [polypeptide binding]; other site 360095000389 LBP interface [polypeptide binding]; other site 360095000390 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 360095000391 putative substrate translocation pore; other site 360095000392 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 360095000393 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 360095000394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360095000395 HlyD family secretion protein; Region: HlyD_3; pfam13437 360095000396 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360095000397 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360095000398 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360095000399 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360095000400 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360095000401 substrate binding pocket [chemical binding]; other site 360095000402 chain length determination region; other site 360095000403 substrate-Mg2+ binding site; other site 360095000404 catalytic residues [active] 360095000405 aspartate-rich region 1; other site 360095000406 active site lid residues [active] 360095000407 aspartate-rich region 2; other site 360095000408 Transglycosylase; Region: Transgly; pfam00912 360095000409 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 360095000410 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 360095000411 Ferredoxin [Energy production and conversion]; Region: COG1146 360095000412 4Fe-4S binding domain; Region: Fer4; pfam00037 360095000413 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 360095000414 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 360095000415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360095000416 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 360095000417 DNA binding residues [nucleotide binding] 360095000418 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 360095000419 Peptidase family M48; Region: Peptidase_M48; pfam01435 360095000420 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 360095000421 Thiamine pyrophosphokinase; Region: TPK; cd07995 360095000422 active site 360095000423 dimerization interface [polypeptide binding]; other site 360095000424 thiamine binding site [chemical binding]; other site 360095000425 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360095000426 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360095000427 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360095000428 hypothetical protein; Provisional; Region: PRK13694 360095000429 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 360095000430 Cell division protein ZapA; Region: ZapA; pfam05164 360095000431 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 360095000432 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 360095000433 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 360095000434 TPP-binding site [chemical binding]; other site 360095000435 dimer interface [polypeptide binding]; other site 360095000436 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 360095000437 PYR/PP interface [polypeptide binding]; other site 360095000438 dimer interface [polypeptide binding]; other site 360095000439 TPP binding site [chemical binding]; other site 360095000440 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360095000441 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 360095000442 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 360095000443 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360095000444 Phosphoglycerate kinase; Region: PGK; pfam00162 360095000445 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 360095000446 substrate binding site [chemical binding]; other site 360095000447 hinge regions; other site 360095000448 ADP binding site [chemical binding]; other site 360095000449 catalytic site [active] 360095000450 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 360095000451 active site 360095000452 intersubunit interface [polypeptide binding]; other site 360095000453 catalytic residue [active] 360095000454 translocation protein TolB; Provisional; Region: tolB; PRK05137 360095000455 TolB amino-terminal domain; Region: TolB_N; pfam04052 360095000456 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360095000457 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360095000458 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360095000459 TolR protein; Region: tolR; TIGR02801 360095000460 TolQ protein; Region: tolQ; TIGR02796 360095000461 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 360095000462 active site 360095000463 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360095000464 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 360095000465 Walker A motif; other site 360095000466 ATP binding site [chemical binding]; other site 360095000467 Walker B motif; other site 360095000468 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360095000469 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 360095000470 RuvA N terminal domain; Region: RuvA_N; pfam01330 360095000471 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 360095000472 active site 360095000473 putative DNA-binding cleft [nucleotide binding]; other site 360095000474 dimer interface [polypeptide binding]; other site 360095000475 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 360095000476 OpgC protein; Region: OpgC_C; pfam10129 360095000477 Acyltransferase family; Region: Acyl_transf_3; pfam01757 360095000478 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 360095000479 active site 360095000480 thiamine phosphate binding site [chemical binding]; other site 360095000481 pyrophosphate binding site [ion binding]; other site 360095000482 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360095000483 Sel1-like repeats; Region: SEL1; smart00671 360095000484 elongation factor P; Validated; Region: PRK00529 360095000485 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360095000486 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 360095000487 RNA binding site [nucleotide binding]; other site 360095000488 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 360095000489 RNA binding site [nucleotide binding]; other site 360095000490 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360095000491 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 360095000492 active site 360095000493 dimerization interface [polypeptide binding]; other site 360095000494 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 360095000495 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360095000496 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 360095000497 Walker A/P-loop; other site 360095000498 ATP binding site [chemical binding]; other site 360095000499 Q-loop/lid; other site 360095000500 ABC transporter signature motif; other site 360095000501 Walker B; other site 360095000502 D-loop; other site 360095000503 H-loop/switch region; other site 360095000504 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 360095000505 hypothetical protein; Validated; Region: PRK00110 360095000506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 360095000507 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 360095000508 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360095000509 ligand binding site [chemical binding]; other site 360095000510 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 360095000511 Ligand Binding Site [chemical binding]; other site 360095000512 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 360095000513 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360095000514 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360095000515 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 360095000516 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 360095000517 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 360095000518 Walker A motif; other site 360095000519 ATP binding site [chemical binding]; other site 360095000520 Walker B motif; other site 360095000521 arginine finger; other site 360095000522 Peptidase family M41; Region: Peptidase_M41; pfam01434 360095000523 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 360095000524 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 360095000525 active site 360095000526 substrate binding site [chemical binding]; other site 360095000527 metal binding site [ion binding]; metal-binding site 360095000528 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360095000529 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360095000530 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360095000531 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360095000532 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360095000533 trimer interface [polypeptide binding]; other site 360095000534 active site 360095000535 Uncharacterized conserved protein [Function unknown]; Region: COG1633 360095000536 CCC1-related protein family; Region: CCC1_like_1; cd02437 360095000537 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 360095000538 Predicted membrane protein [Function unknown]; Region: COG1238 360095000539 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 360095000540 active site 360095000541 metal binding site [ion binding]; metal-binding site 360095000542 interdomain interaction site; other site 360095000543 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 360095000544 Walker A motif; other site 360095000545 ATP binding site [chemical binding]; other site 360095000546 Walker B motif; other site 360095000547 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 360095000548 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 360095000549 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360095000550 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 360095000551 hinge; other site 360095000552 active site 360095000553 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 360095000554 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360095000555 putative active site [active] 360095000556 metal binding site [ion binding]; metal-binding site 360095000557 homodimer binding site [polypeptide binding]; other site 360095000558 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 360095000559 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 360095000560 TPR repeat; Region: TPR_11; pfam13414 360095000561 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 360095000562 TPR motif; other site 360095000563 TPR repeat; Region: TPR_11; pfam13414 360095000564 binding surface 360095000565 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 360095000566 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 360095000567 ATP-grasp domain; Region: ATP-grasp; pfam02222 360095000568 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 360095000569 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 360095000570 rRNA binding site [nucleotide binding]; other site 360095000571 predicted 30S ribosome binding site; other site 360095000572 Maf-like protein; Region: Maf; pfam02545 360095000573 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 360095000574 active site 360095000575 dimer interface [polypeptide binding]; other site 360095000576 zinc-binding protein; Provisional; Region: PRK01343 360095000577 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360095000578 Clp amino terminal domain; Region: Clp_N; pfam02861 360095000579 Clp amino terminal domain; Region: Clp_N; pfam02861 360095000580 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 360095000581 Walker A motif; other site 360095000582 ATP binding site [chemical binding]; other site 360095000583 Walker B motif; other site 360095000584 arginine finger; other site 360095000585 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 360095000586 Walker A motif; other site 360095000587 ATP binding site [chemical binding]; other site 360095000588 Walker B motif; other site 360095000589 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360095000590 Phage terminase large subunit; Region: Terminase_3; cl12054 360095000591 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 360095000592 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 360095000593 Phage Tail Collar Domain; Region: Collar; pfam07484 360095000594 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 360095000595 catalytic residues [active] 360095000596 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 360095000597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 360095000598 HWE histidine kinase; Region: HWE_HK; smart00911 360095000599 two-component response regulator; Provisional; Region: PRK09191 360095000600 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 360095000601 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 360095000602 active site 360095000603 phosphorylation site [posttranslational modification] 360095000604 intermolecular recognition site; other site 360095000605 dimerization interface [polypeptide binding]; other site 360095000606 Aluminium activated malate transporter; Region: ALMT; pfam11744 360095000607 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 360095000608 Histidine kinase; Region: HisKA_2; pfam07568 360095000609 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 360095000610 ATP binding site [chemical binding]; other site 360095000611 Mg2+ binding site [ion binding]; other site 360095000612 G-X-G motif; other site 360095000613 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360095000614 Peptidase family M23; Region: Peptidase_M23; pfam01551 360095000615 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 360095000616 putative DNA binding helix; other site 360095000617 S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic...; Region: S15_NS1_EPRS_RNA-bind; cl00349 360095000618 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 360095000619 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 360095000620 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; cd01494 360095000621 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360095000622 catalytic residue [active] 360095000623 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 360095000624 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 360095000625 catalytic residues [active] 360095000626 catalytic nucleophile [active] 360095000627 Presynaptic Site I dimer interface [polypeptide binding]; other site 360095000628 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 360095000629 Synaptic Flat tetramer interface [polypeptide binding]; other site 360095000630 Synaptic Site I dimer interface [polypeptide binding]; other site 360095000631 DNA binding site [nucleotide binding] 360095000632 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 360095000633 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 360095000634 putative active site [active] 360095000635 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 360095000636 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 360095000637 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360095000638 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 360095000639 P-loop; other site 360095000640 Magnesium ion binding site [ion binding]; other site 360095000641 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360095000642 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 360095000643 GDP-binding site [chemical binding]; other site 360095000644 ACT binding site; other site 360095000645 IMP binding site; other site 360095000646 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 360095000647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360095000648 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 360095000649 DNA binding residues [nucleotide binding] 360095000650 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 360095000651 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 360095000652 RNA binding surface [nucleotide binding]; other site 360095000653 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360095000654 active site 360095000655 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 360095000656 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360095000657 NAD binding site [chemical binding]; other site 360095000658 catalytic residues [active] 360095000659 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 360095000660 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360095000661 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 360095000662 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 360095000663 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 360095000664 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 360095000665 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 360095000666 quinone interaction residues [chemical binding]; other site 360095000667 active site 360095000668 catalytic residues [active] 360095000669 FMN binding site [chemical binding]; other site 360095000670 substrate binding site [chemical binding]; other site 360095000671 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 360095000672 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360095000673 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360095000674 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 360095000675 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 360095000676 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 360095000677 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360095000678 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360095000679 homodimer interface [polypeptide binding]; other site 360095000680 NADP binding site [chemical binding]; other site 360095000681 substrate binding site [chemical binding]; other site 360095000682 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 360095000683 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 360095000684 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 360095000685 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 360095000686 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 360095000687 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360095000688 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360095000689 HlyD family secretion protein; Region: HlyD_3; pfam13437 360095000690 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360095000691 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 360095000692 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 360095000693 active site 360095000694 dimer interface [polypeptide binding]; other site 360095000695 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 360095000696 dimer interface [polypeptide binding]; other site 360095000697 active site 360095000698 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 360095000699 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 360095000700 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 360095000701 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 360095000702 trimer interface [polypeptide binding]; other site 360095000703 Haemagglutinin; Region: HIM; pfam05662 360095000704 YadA-like C-terminal region; Region: YadA; pfam03895 360095000705 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 360095000706 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 360095000707 YadA-like C-terminal region; Region: YadA; pfam03895 360095000708 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 360095000709 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 360095000710 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 360095000711 S-adenosylmethionine binding site [chemical binding]; other site 360095000712 GTPase CgtA; Reviewed; Region: obgE; PRK12299 360095000713 GTP1/OBG; Region: GTP1_OBG; pfam01018 360095000714 Obg GTPase; Region: Obg; cd01898 360095000715 G1 box; other site 360095000716 GTP/Mg2+ binding site [chemical binding]; other site 360095000717 Switch I region; other site 360095000718 G2 box; other site 360095000719 G3 box; other site 360095000720 Switch II region; other site 360095000721 G4 box; other site 360095000722 G5 box; other site 360095000723 gamma-glutamyl kinase; Provisional; Region: PRK05429 360095000724 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 360095000725 nucleotide binding site [chemical binding]; other site 360095000726 homotetrameric interface [polypeptide binding]; other site 360095000727 putative phosphate binding site [ion binding]; other site 360095000728 putative allosteric binding site; other site 360095000729 PUA domain; Region: PUA; pfam01472 360095000730 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 360095000731 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 360095000732 putative catalytic cysteine [active] 360095000733 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 360095000734 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 360095000735 active site 360095000736 (T/H)XGH motif; other site 360095000737 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 360095000738 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 360095000739 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 360095000740 Peptidase family M23; Region: Peptidase_M23; pfam01551 360095000741 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 360095000742 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360095000743 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 360095000744 protein binding site [polypeptide binding]; other site 360095000745 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360095000746 Catalytic dyad [active] 360095000747 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 360095000748 putative active site [active] 360095000749 Ap4A binding site [chemical binding]; other site 360095000750 nudix motif; other site 360095000751 putative metal binding site [ion binding]; other site 360095000752 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 360095000753 YGGT family; Region: YGGT; pfam02325 360095000754 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 360095000755 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 360095000756 dimer interface [polypeptide binding]; other site 360095000757 substrate binding site [chemical binding]; other site 360095000758 metal binding sites [ion binding]; metal-binding site 360095000759 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360095000760 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360095000761 G1 box; other site 360095000762 putative GEF interaction site [polypeptide binding]; other site 360095000763 GTP/Mg2+ binding site [chemical binding]; other site 360095000764 Switch I region; other site 360095000765 G2 box; other site 360095000766 G3 box; other site 360095000767 Switch II region; other site 360095000768 G4 box; other site 360095000769 G5 box; other site 360095000770 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 360095000771 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 360095000772 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 360095000773 MgtE intracellular N domain; Region: MgtE_N; pfam03448 360095000774 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 360095000775 Divalent cation transporter; Region: MgtE; pfam01769 360095000776 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 360095000777 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 360095000778 active site 360095000779 Zn binding site [ion binding]; other site 360095000780 Transglycosylase SLT domain; Region: SLT_2; pfam13406 360095000781 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 360095000782 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360095000783 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 360095000784 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360095000785 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 360095000786 active site 360095000787 tetramer interface; other site 360095000788 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 360095000789 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 360095000790 putative active site [active] 360095000791 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 360095000792 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 360095000793 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 360095000794 active site 360095000795 phosphorylation site [posttranslational modification] 360095000796 intermolecular recognition site; other site 360095000797 dimerization interface [polypeptide binding]; other site 360095000798 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 360095000799 Walker A motif; other site 360095000800 ATP binding site [chemical binding]; other site 360095000801 Walker B motif; other site 360095000802 arginine finger; other site 360095000803 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 360095000804 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360095000805 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 360095000806 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 360095000807 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 360095000808 active site 360095000809 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 360095000810 Ligand Binding Site [chemical binding]; other site 360095000811 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 360095000812 Ligand Binding Site [chemical binding]; other site 360095000813 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 360095000814 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 360095000815 S-adenosylmethionine binding site [chemical binding]; other site 360095000816 GMP synthase; Reviewed; Region: guaA; PRK00074 360095000817 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360095000818 AMP/PPi binding site [chemical binding]; other site 360095000819 candidate oxyanion hole; other site 360095000820 catalytic triad [active] 360095000821 potential glutamine specificity residues [chemical binding]; other site 360095000822 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 360095000823 ATP Binding subdomain [chemical binding]; other site 360095000824 Ligand Binding sites [chemical binding]; other site 360095000825 Dimerization subdomain; other site 360095000826 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 360095000827 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 360095000828 active site 360095000829 catalytic site [active] 360095000830 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 360095000831 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 360095000832 Walker A/P-loop; other site 360095000833 ATP binding site [chemical binding]; other site 360095000834 Q-loop/lid; other site 360095000835 ABC transporter signature motif; other site 360095000836 Walker B; other site 360095000837 D-loop; other site 360095000838 H-loop/switch region; other site 360095000839 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 360095000840 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 360095000841 dimer interface [polypeptide binding]; other site 360095000842 conserved gate region; other site 360095000843 putative PBP binding loops; other site 360095000844 ABC-ATPase subunit interface; other site 360095000845 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 360095000846 dimer interface [polypeptide binding]; other site 360095000847 conserved gate region; other site 360095000848 putative PBP binding loops; other site 360095000849 ABC-ATPase subunit interface; other site 360095000850 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360095000851 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 360095000852 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360095000853 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360095000854 intersubunit interface [polypeptide binding]; other site 360095000855 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360095000856 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; cl00462 360095000857 ABC-ATPase subunit interface; other site 360095000858 dimer interface [polypeptide binding]; other site 360095000859 putative PBP binding regions; other site 360095000860 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360095000861 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360095000862 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 360095000863 catalytic residues [active] 360095000864 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 360095000865 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 360095000866 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 360095000867 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360095000868 active site 360095000869 dimer interface [polypeptide binding]; other site 360095000870 catalytic residues [active] 360095000871 effector binding site; other site 360095000872 R2 peptide binding site; other site 360095000873 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 360095000874 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360095000875 dimer interface [polypeptide binding]; other site 360095000876 putative radical transfer pathway; other site 360095000877 diiron center [ion binding]; other site 360095000878 tyrosyl radical; other site 360095000879 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 360095000880 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 360095000881 S-adenosylmethionine binding site [chemical binding]; other site 360095000882 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360095000883 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360095000884 RF-1 domain; Region: RF-1; pfam00472 360095000885 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360095000886 metal binding site 2 [ion binding]; metal-binding site 360095000887 putative DNA binding helix; other site 360095000888 metal binding site 1 [ion binding]; metal-binding site 360095000889 dimer interface [polypeptide binding]; other site 360095000890 structural Zn2+ binding site [ion binding]; other site 360095000891 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360095000892 DEAD/DEAH box helicase; Region: DEAD; pfam00270 360095000893 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 360095000894 SEC-C motif; Region: SEC-C; pfam02810 360095000895 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 360095000896 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 360095000897 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 360095000898 heterotetramer interface [polypeptide binding]; other site 360095000899 active site pocket [active] 360095000900 cleavage site 360095000901 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 360095000902 active site 360095000903 8-oxo-dGMP binding site [chemical binding]; other site 360095000904 nudix motif; other site 360095000905 metal binding site [ion binding]; metal-binding site 360095000906 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 360095000907 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360095000908 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360095000909 Methyltransferase domain; Region: Methyltransf_11; pfam08241 360095000910 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 360095000911 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 360095000912 GSH binding site [chemical binding]; other site 360095000913 catalytic residues [active] 360095000914 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 360095000915 Methyltransferase domain; Region: Methyltransf_11; pfam08241 360095000916 aspartate kinase; Reviewed; Region: PRK06635 360095000917 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 360095000918 putative nucleotide binding site [chemical binding]; other site 360095000919 putative catalytic residues [active] 360095000920 putative Mg ion binding site [ion binding]; other site 360095000921 putative aspartate binding site [chemical binding]; other site 360095000922 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 360095000923 putative allosteric regulatory site; other site 360095000924 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 360095000925 putative allosteric regulatory residue; other site 360095000926 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 360095000927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 360095000928 GTP-binding protein Der; Reviewed; Region: PRK00093 360095000929 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360095000930 G1 box; other site 360095000931 GTP/Mg2+ binding site [chemical binding]; other site 360095000932 Switch I region; other site 360095000933 G2 box; other site 360095000934 Switch II region; other site 360095000935 G3 box; other site 360095000936 G4 box; other site 360095000937 G5 box; other site 360095000938 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360095000939 G1 box; other site 360095000940 GTP/Mg2+ binding site [chemical binding]; other site 360095000941 Switch I region; other site 360095000942 G2 box; other site 360095000943 G3 box; other site 360095000944 Switch II region; other site 360095000945 G4 box; other site 360095000946 G5 box; other site 360095000947 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 360095000948 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 360095000949 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 360095000950 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 360095000951 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 360095000952 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 360095000953 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 360095000954 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360095000955 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 360095000956 dimer interface [polypeptide binding]; other site 360095000957 motif 1; other site 360095000958 active site 360095000959 motif 2; other site 360095000960 motif 3; other site 360095000961 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 360095000962 binding surface 360095000963 TPR motif; other site 360095000964 TPR repeat; Region: TPR_11; pfam13414 360095000965 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 360095000966 binding surface 360095000967 TPR motif; other site 360095000968 TPR repeat; Region: TPR_11; pfam13414 360095000969 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360095000970 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360095000971 substrate binding pocket [chemical binding]; other site 360095000972 chain length determination region; other site 360095000973 substrate-Mg2+ binding site; other site 360095000974 catalytic residues [active] 360095000975 aspartate-rich region 1; other site 360095000976 active site lid residues [active] 360095000977 aspartate-rich region 2; other site 360095000978 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 360095000979 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 360095000980 S-adenosylmethionine binding site [chemical binding]; other site 360095000981 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 360095000982 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 360095000983 tandem repeat interface [polypeptide binding]; other site 360095000984 oligomer interface [polypeptide binding]; other site 360095000985 active site residues [active] 360095000986 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 360095000987 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 360095000988 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360095000989 RNA/DNA hybrid binding site [nucleotide binding]; other site 360095000990 active site 360095000991 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 360095000992 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 360095000993 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360095000994 FAD binding domain; Region: FAD_binding_4; pfam01565 360095000995 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360095000996 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360095000997 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 360095000998 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360095000999 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 360095001000 UbiA prenyltransferase family; Region: UbiA; pfam01040 360095001001 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 360095001002 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 360095001003 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 360095001004 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 360095001005 chaperone protein DnaJ; Provisional; Region: PRK14299 360095001006 HSP70 interaction site [polypeptide binding]; other site 360095001007 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360095001008 substrate binding site [polypeptide binding]; other site 360095001009 dimer interface [polypeptide binding]; other site 360095001010 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 360095001011 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360095001012 NAD binding site [chemical binding]; other site 360095001013 homotetramer interface [polypeptide binding]; other site 360095001014 homodimer interface [polypeptide binding]; other site 360095001015 substrate binding site [chemical binding]; other site 360095001016 active site 360095001017 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 360095001018 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 360095001019 Tetramer interface [polypeptide binding]; other site 360095001020 active site 360095001021 FMN-binding site [chemical binding]; other site 360095001022 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 360095001023 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 360095001024 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; cl00522 360095001025 dimerization interface [polypeptide binding]; other site 360095001026 active site 360095001027 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 360095001028 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 360095001029 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 360095001030 TPP-binding site; other site 360095001031 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 360095001032 PYR/PP interface [polypeptide binding]; other site 360095001033 dimer interface [polypeptide binding]; other site 360095001034 TPP binding site [chemical binding]; other site 360095001035 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360095001036 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 360095001037 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 360095001038 RNA binding surface [nucleotide binding]; other site 360095001039 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 360095001040 S-adenosylmethionine binding site [chemical binding]; other site 360095001041 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 360095001042 Methyltransferase domain; Region: Methyltransf_26; pfam13659 360095001043 protease TldD; Provisional; Region: tldD; PRK10735 360095001044 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 360095001045 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 360095001046 UbiA prenyltransferase family; Region: UbiA; pfam01040 360095001047 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 360095001048 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 360095001049 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 360095001050 RNA/DNA hybrid binding site [nucleotide binding]; other site 360095001051 active site 360095001052 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 360095001053 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 360095001054 PAS fold; Region: PAS_3; pfam08447 360095001055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360095001056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360095001057 metal binding site [ion binding]; metal-binding site 360095001058 active site 360095001059 I-site; other site 360095001060 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 360095001061 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360095001062 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360095001063 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360095001064 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 360095001065 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 360095001066 motif II; other site 360095001067 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 360095001068 DNA methylase; Region: N6_N4_Mtase; pfam01555 360095001069 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 360095001070 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360095001071 minor groove reading motif; other site 360095001072 helix-hairpin-helix signature motif; other site 360095001073 substrate binding pocket [chemical binding]; other site 360095001074 active site 360095001075 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 360095001076 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 360095001077 DNA binding and oxoG recognition site [nucleotide binding] 360095001078 Protein of unknown function (DUF721); Region: DUF721; cl02324 360095001079 Thioredoxin; Region: Thioredoxin_4; pfam13462 360095001080 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360095001081 pyruvate phosphate dikinase; Provisional; Region: PRK09279 360095001082 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 360095001083 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 360095001084 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 360095001085 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 360095001086 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360095001087 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360095001088 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 360095001089 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360095001090 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 360095001091 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 360095001092 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 360095001093 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 360095001094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360095001095 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 360095001096 active site 360095001097 phosphorylation site [posttranslational modification] 360095001098 intermolecular recognition site; other site 360095001099 dimerization interface [polypeptide binding]; other site 360095001100 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 360095001101 DNA binding site [nucleotide binding] 360095001102 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360095001103 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 360095001104 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 360095001105 ATP binding site [chemical binding]; other site 360095001106 Mg2+ binding site [ion binding]; other site 360095001107 G-X-G motif; other site 360095001108 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 360095001109 binding surface 360095001110 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360095001111 TPR motif; other site 360095001112 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360095001113 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 360095001114 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 360095001115 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 360095001116 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360095001117 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360095001118 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 360095001119 protein binding site [polypeptide binding]; other site 360095001120 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 360095001121 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360095001122 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 360095001123 active site 360095001124 phosphorylation site [posttranslational modification] 360095001125 intermolecular recognition site; other site 360095001126 dimerization interface [polypeptide binding]; other site 360095001127 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 360095001128 DNA binding site [nucleotide binding] 360095001129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360095001130 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 360095001131 dimerization interface [polypeptide binding]; other site 360095001132 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 360095001133 dimer interface [polypeptide binding]; other site 360095001134 phosphorylation site [posttranslational modification] 360095001135 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 360095001136 ATP binding site [chemical binding]; other site 360095001137 Mg2+ binding site [ion binding]; other site 360095001138 G-X-G motif; other site 360095001139 PAS fold; Region: PAS_3; pfam08447 360095001140 PAS fold; Region: PAS_7; pfam12860 360095001141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360095001142 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 360095001143 dimer interface [polypeptide binding]; other site 360095001144 phosphorylation site [posttranslational modification] 360095001145 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 360095001146 ATP binding site [chemical binding]; other site 360095001147 Mg2+ binding site [ion binding]; other site 360095001148 G-X-G motif; other site 360095001149 aminopeptidase N; Provisional; Region: pepN; PRK14015 360095001150 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 360095001151 active site 360095001152 Zn binding site [ion binding]; other site 360095001153 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 360095001154 Fe-S cluster binding site [ion binding]; other site 360095001155 active site 360095001156 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 360095001157 substrate binding site [chemical binding]; other site 360095001158 dimer interface [polypeptide binding]; other site 360095001159 ATP binding site [chemical binding]; other site 360095001160 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 360095001161 thiamine phosphate binding site [chemical binding]; other site 360095001162 active site 360095001163 pyrophosphate binding site [ion binding]; other site 360095001164 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 360095001165 ThiS interaction site; other site 360095001166 putative active site [active] 360095001167 tetramer interface [polypeptide binding]; other site 360095001168 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360095001169 thiS-thiF/thiG interaction site; other site 360095001170 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 360095001171 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 360095001172 ThiC-associated domain; Region: ThiC-associated; pfam13667 360095001173 ThiC family; Region: ThiC; pfam01964 360095001174 Porin subfamily; Region: Porin_2; pfam02530 360095001175 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095001176 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 360095001177 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 360095001178 amidase catalytic site [active] 360095001179 Zn binding residues [ion binding]; other site 360095001180 substrate binding site [chemical binding]; other site 360095001181 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 360095001182 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 360095001183 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360095001184 Walker A/P-loop; other site 360095001185 ATP binding site [chemical binding]; other site 360095001186 Q-loop/lid; other site 360095001187 ABC transporter signature motif; other site 360095001188 Walker B; other site 360095001189 D-loop; other site 360095001190 H-loop/switch region; other site 360095001191 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360095001192 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 360095001193 ABC-ATPase subunit interface; other site 360095001194 dimer interface [polypeptide binding]; other site 360095001195 putative PBP binding regions; other site 360095001196 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360095001197 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360095001198 intersubunit interface [polypeptide binding]; other site 360095001199 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 360095001200 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 360095001201 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 360095001202 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 360095001203 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 360095001204 N-terminal plug; other site 360095001205 ligand-binding site [chemical binding]; other site 360095001206 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360095001207 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 360095001208 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360095001209 catalytic residue [active] 360095001210 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 360095001211 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360095001212 dimer interface [polypeptide binding]; other site 360095001213 active site 360095001214 catalytic residue [active] 360095001215 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 360095001216 SmpB-tmRNA interface; other site 360095001217 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 360095001218 Fe-S cluster binding site [ion binding]; other site 360095001219 DNA binding site [nucleotide binding] 360095001220 active site 360095001221 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 360095001222 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360095001223 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360095001224 Zn2+ binding site [ion binding]; other site 360095001225 Mg2+ binding site [ion binding]; other site 360095001226 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360095001227 synthetase active site [active] 360095001228 NTP binding site [chemical binding]; other site 360095001229 metal binding site [ion binding]; metal-binding site 360095001230 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 360095001231 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 360095001232 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360095001233 active site 360095001234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 360095001235 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 360095001236 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 360095001237 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 360095001238 Catalytic site [active] 360095001239 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 360095001240 ribonuclease III; Reviewed; Region: PRK12371 360095001241 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 360095001242 dimerization interface [polypeptide binding]; other site 360095001243 active site 360095001244 metal binding site [ion binding]; metal-binding site 360095001245 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 360095001246 dsRNA binding site [nucleotide binding]; other site 360095001247 GTPase Era; Reviewed; Region: era; PRK00089 360095001248 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360095001249 G1 box; other site 360095001250 GTP/Mg2+ binding site [chemical binding]; other site 360095001251 Switch I region; other site 360095001252 G2 box; other site 360095001253 Switch II region; other site 360095001254 G3 box; other site 360095001255 G4 box; other site 360095001256 G5 box; other site 360095001257 KH domain; Region: KH_2; pfam07650 360095001258 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 360095001259 Recombination protein O N terminal; Region: RecO_N; pfam11967 360095001260 Recombination protein O C terminal; Region: RecO_C; pfam02565 360095001261 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360095001262 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360095001263 active site 360095001264 ATP-binding site [chemical binding]; other site 360095001265 pantoate-binding site; other site 360095001266 HXXH motif; other site 360095001267 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 360095001268 active site 360095001269 oligomerization interface [polypeptide binding]; other site 360095001270 metal binding site [ion binding]; metal-binding site 360095001271 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 360095001272 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 360095001273 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 360095001274 dihydroorotase; Validated; Region: PRK09060 360095001275 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 360095001276 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 360095001277 active site 360095001278 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360095001279 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360095001280 active site 360095001281 HIGH motif; other site 360095001282 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360095001283 KMSKS motif; other site 360095001284 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360095001285 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360095001286 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 360095001287 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 360095001288 Walker A/P-loop; other site 360095001289 ATP binding site [chemical binding]; other site 360095001290 Q-loop/lid; other site 360095001291 ABC transporter signature motif; other site 360095001292 Walker B; other site 360095001293 D-loop; other site 360095001294 H-loop/switch region; other site 360095001295 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 360095001296 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 360095001297 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 360095001298 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 360095001299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360095001300 NAD(P) binding site [chemical binding]; other site 360095001301 active site 360095001302 amidophosphoribosyltransferase; Provisional; Region: PRK09123 360095001303 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 360095001304 active site 360095001305 tetramer interface [polypeptide binding]; other site 360095001306 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360095001307 active site 360095001308 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 360095001309 Colicin V production protein; Region: Colicin_V; pfam02674 360095001310 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 360095001311 Colicin V production protein; Region: Colicin_V; pfam02674 360095001312 DNA repair protein RadA; Provisional; Region: PRK11823 360095001313 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 360095001314 Walker A motif/ATP binding site; other site 360095001315 ATP binding site [chemical binding]; other site 360095001316 Walker B motif; other site 360095001317 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360095001318 replicative DNA helicase; Provisional; Region: PRK09165 360095001319 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 360095001320 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 360095001321 Walker A motif; other site 360095001322 ATP binding site [chemical binding]; other site 360095001323 Walker B motif; other site 360095001324 DNA binding loops [nucleotide binding] 360095001325 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360095001326 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360095001327 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360095001328 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 360095001329 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 360095001330 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 360095001331 active site 360095001332 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 360095001333 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360095001334 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 360095001335 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 360095001336 NAD(P) binding site [chemical binding]; other site 360095001337 homotetramer interface [polypeptide binding]; other site 360095001338 homodimer interface [polypeptide binding]; other site 360095001339 active site 360095001340 acyl carrier protein; Provisional; Region: acpP; PRK00982 360095001341 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 360095001342 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 360095001343 dimer interface [polypeptide binding]; other site 360095001344 active site 360095001345 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 360095001346 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 360095001347 dimerization interface [polypeptide binding]; other site 360095001348 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360095001349 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 360095001350 catalytic site [active] 360095001351 G-X2-G-X-G-K; other site 360095001352 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 360095001353 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 360095001354 S-adenosylmethionine binding site [chemical binding]; other site 360095001355 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 360095001356 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 360095001357 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 360095001358 SurA N-terminal domain; Region: SurA_N; pfam09312 360095001359 OstA-like protein; Region: OstA; cl00844 360095001360 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360095001361 OstA-like protein; Region: OstA; cl00844 360095001362 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360095001363 Predicted permeases [General function prediction only]; Region: COG0795 360095001364 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360095001365 Predicted permeases [General function prediction only]; Region: COG0795 360095001366 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360095001367 DNA polymerase III subunit chi; Validated; Region: PRK05728 360095001368 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 360095001369 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360095001370 Autotransporter beta-domain; Region: Autotransporter; smart00869 360095001371 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 360095001372 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360095001373 Autotransporter beta-domain; Region: Autotransporter; smart00869 360095001374 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 360095001375 active site 360095001376 multimer interface [polypeptide binding]; other site 360095001377 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360095001378 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360095001379 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360095001380 GIY-YIG motif/motif A; other site 360095001381 active site 360095001382 catalytic site [active] 360095001383 putative DNA binding site [nucleotide binding]; other site 360095001384 metal binding site [ion binding]; metal-binding site 360095001385 UvrB/uvrC motif; Region: UVR; pfam02151 360095001386 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360095001387 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 360095001388 seryl-tRNA synthetase; Provisional; Region: PRK05431 360095001389 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360095001390 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 360095001391 dimer interface [polypeptide binding]; other site 360095001392 active site 360095001393 motif 1; other site 360095001394 motif 2; other site 360095001395 motif 3; other site 360095001396 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 360095001397 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 360095001398 S-adenosylmethionine binding site [chemical binding]; other site 360095001399 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360095001400 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360095001401 Peptidase family M23; Region: Peptidase_M23; pfam01551 360095001402 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 360095001403 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 360095001404 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 360095001405 substrate binding pocket [chemical binding]; other site 360095001406 substrate-Mg2+ binding site; other site 360095001407 aspartate-rich region 2; other site 360095001408 SurA N-terminal domain; Region: SurA_N_3; cl07813 360095001409 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360095001410 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 360095001411 triosephosphate isomerase; Provisional; Region: PRK14565 360095001412 substrate binding site [chemical binding]; other site 360095001413 dimer interface [polypeptide binding]; other site 360095001414 catalytic triad [active] 360095001415 CTP synthetase; Validated; Region: pyrG; PRK05380 360095001416 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 360095001417 Catalytic site [active] 360095001418 active site 360095001419 UTP binding site [chemical binding]; other site 360095001420 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360095001421 active site 360095001422 putative oxyanion hole; other site 360095001423 catalytic triad [active] 360095001424 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 360095001425 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 360095001426 enolase; Provisional; Region: eno; PRK00077 360095001427 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 360095001428 dimer interface [polypeptide binding]; other site 360095001429 metal binding site [ion binding]; metal-binding site 360095001430 substrate binding pocket [chemical binding]; other site 360095001431 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 360095001432 Septum formation initiator; Region: DivIC; pfam04977 360095001433 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 360095001434 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 360095001435 tetramer interface [polypeptide binding]; other site 360095001436 TPP-binding site [chemical binding]; other site 360095001437 heterodimer interface [polypeptide binding]; other site 360095001438 phosphorylation loop region [posttranslational modification] 360095001439 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 360095001440 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 360095001441 E3 interaction surface; other site 360095001442 lipoyl attachment site [posttranslational modification]; other site 360095001443 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 360095001444 alpha subunit interface [polypeptide binding]; other site 360095001445 TPP binding site [chemical binding]; other site 360095001446 heterodimer interface [polypeptide binding]; other site 360095001447 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360095001448 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 360095001449 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 360095001450 E3 interaction surface; other site 360095001451 lipoyl attachment site [posttranslational modification]; other site 360095001452 e3 binding domain; Region: E3_binding; pfam02817 360095001453 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 360095001454 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 360095001455 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360095001456 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360095001457 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360095001458 lipoyl synthase; Provisional; Region: PRK05481 360095001459 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 360095001460 FeS/SAM binding site; other site 360095001461 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 360095001462 putative coenzyme Q binding site [chemical binding]; other site 360095001463 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 360095001464 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360095001465 substrate binding site; other site 360095001466 dimer interface; other site 360095001467 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 360095001468 homotrimer interaction site [polypeptide binding]; other site 360095001469 zinc binding site [ion binding]; other site 360095001470 CDP-binding sites; other site 360095001471 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 360095001472 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 360095001473 dimerization interface [polypeptide binding]; other site 360095001474 Src homology 2 (SH2) domain; Region: SH2; cl15255 360095001475 phosphotyrosine binding pocket [polypeptide binding]; other site 360095001476 hydrophobic binding pocket [polypeptide binding]; other site 360095001477 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 360095001478 dimer interface [polypeptide binding]; other site 360095001479 phosphorylation site [posttranslational modification] 360095001480 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 360095001481 ATP binding site [chemical binding]; other site 360095001482 Mg2+ binding site [ion binding]; other site 360095001483 G-X-G motif; other site 360095001484 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 360095001485 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 360095001486 active site 360095001487 phosphorylation site [posttranslational modification] 360095001488 intermolecular recognition site; other site 360095001489 dimerization interface [polypeptide binding]; other site 360095001490 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 360095001491 Walker A motif; other site 360095001492 ATP binding site [chemical binding]; other site 360095001493 Walker B motif; other site 360095001494 arginine finger; other site 360095001495 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 360095001496 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 360095001497 TrkA-N domain; Region: TrkA_N; pfam02254 360095001498 TrkA-C domain; Region: TrkA_C; pfam02080 360095001499 TrkA-N domain; Region: TrkA_N; pfam02254 360095001500 TrkA-C domain; Region: TrkA_C; pfam02080 360095001501 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 360095001502 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360095001503 oligomer interface [polypeptide binding]; other site 360095001504 active site residues [active] 360095001505 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360095001506 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 360095001507 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 360095001508 Walker A motif; other site 360095001509 ATP binding site [chemical binding]; other site 360095001510 Walker B motif; other site 360095001511 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360095001512 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360095001513 Found in ATP-dependent protease La (LON); Region: LON; smart00464 360095001514 Found in ATP-dependent protease La (LON); Region: LON; smart00464 360095001515 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 360095001516 Walker A motif; other site 360095001517 ATP binding site [chemical binding]; other site 360095001518 Walker B motif; other site 360095001519 arginine finger; other site 360095001520 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360095001521 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 360095001522 IHF dimer interface [polypeptide binding]; other site 360095001523 IHF - DNA interface [nucleotide binding]; other site 360095001524 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 360095001525 Glucose inhibited division protein A; Region: GIDA; pfam01134 360095001526 trigger factor; Provisional; Region: tig; PRK01490 360095001527 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360095001528 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 360095001529 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 360095001530 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 360095001531 GatB domain; Region: GatB_Yqey; smart00845 360095001532 NADH dehydrogenase; Validated; Region: PRK08183 360095001533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 360095001534 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 360095001535 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 360095001536 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 360095001537 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360095001538 elongation factor Tu; Reviewed; Region: PRK00049 360095001539 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360095001540 G1 box; other site 360095001541 GEF interaction site [polypeptide binding]; other site 360095001542 GTP/Mg2+ binding site [chemical binding]; other site 360095001543 Switch I region; other site 360095001544 G2 box; other site 360095001545 G3 box; other site 360095001546 Switch II region; other site 360095001547 G4 box; other site 360095001548 G5 box; other site 360095001549 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 360095001550 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 360095001551 Antibiotic Binding Site [chemical binding]; other site 360095001552 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 360095001553 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360095001554 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360095001555 putative homodimer interface [polypeptide binding]; other site 360095001556 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 360095001557 heterodimer interface [polypeptide binding]; other site 360095001558 homodimer interface [polypeptide binding]; other site 360095001559 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360095001560 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 360095001561 23S rRNA interface [nucleotide binding]; other site 360095001562 L7/L12 interface [polypeptide binding]; other site 360095001563 putative thiostrepton binding site; other site 360095001564 L25 interface [polypeptide binding]; other site 360095001565 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 360095001566 mRNA/rRNA interface [nucleotide binding]; other site 360095001567 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 360095001568 23S rRNA interface [nucleotide binding]; other site 360095001569 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360095001570 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 360095001571 L11 interface [polypeptide binding]; other site 360095001572 putative EF-Tu interaction site [polypeptide binding]; other site 360095001573 putative EF-G interaction site [polypeptide binding]; other site 360095001574 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 360095001575 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 360095001576 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360095001577 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 360095001578 RPB11 interaction site [polypeptide binding]; other site 360095001579 RPB12 interaction site [polypeptide binding]; other site 360095001580 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 360095001581 RPB1 interaction site [polypeptide binding]; other site 360095001582 RPB11 interaction site [polypeptide binding]; other site 360095001583 RPB10 interaction site [polypeptide binding]; other site 360095001584 RPB3 interaction site [polypeptide binding]; other site 360095001585 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 360095001586 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 360095001587 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 360095001588 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 360095001589 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 360095001590 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 360095001591 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360095001592 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 360095001593 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360095001594 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 360095001595 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 360095001596 DNA binding site [nucleotide binding] 360095001597 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 360095001598 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 360095001599 putative FMN binding site [chemical binding]; other site 360095001600 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 360095001601 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 360095001602 Sporulation related domain; Region: SPOR; pfam05036 360095001603 Uncharacterized conserved protein [Function unknown]; Region: COG2127 360095001604 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 360095001605 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 360095001606 Walker A motif; other site 360095001607 ATP binding site [chemical binding]; other site 360095001608 Walker B motif; other site 360095001609 arginine finger; other site 360095001610 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 360095001611 Walker A motif; other site 360095001612 ATP binding site [chemical binding]; other site 360095001613 Walker B motif; other site 360095001614 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360095001615 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 360095001616 HIT family signature motif; other site 360095001617 catalytic residue [active] 360095001618 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_1; cd02199 360095001619 homotrimer interaction site [polypeptide binding]; other site 360095001620 putative active site [active] 360095001621 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 360095001622 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 360095001623 rRNA interaction site [nucleotide binding]; other site 360095001624 S8 interaction site; other site 360095001625 putative laminin-1 binding site; other site 360095001626 elongation factor Ts; Provisional; Region: tsf; PRK09377 360095001627 UBA/TS-N domain; Region: UBA; pfam00627 360095001628 Elongation factor TS; Region: EF_TS; pfam00889 360095001629 Elongation factor TS; Region: EF_TS; pfam00889 360095001630 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 360095001631 putative nucleotide binding site [chemical binding]; other site 360095001632 uridine monophosphate binding site [chemical binding]; other site 360095001633 homohexameric interface [polypeptide binding]; other site 360095001634 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360095001635 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 360095001636 hinge region; other site 360095001637 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360095001638 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 360095001639 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360095001640 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 360095001641 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360095001642 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360095001643 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360095001644 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360095001645 Surface antigen; Region: Bac_surface_Ag; pfam01103 360095001646 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 360095001647 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360095001648 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 360095001649 trimer interface [polypeptide binding]; other site 360095001650 active site 360095001651 UDP-GlcNAc binding site [chemical binding]; other site 360095001652 lipid binding site [chemical binding]; lipid-binding site 360095001653 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 360095001654 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 360095001655 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 360095001656 active site 360095001657 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 360095001658 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 360095001659 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360095001660 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360095001661 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360095001662 Walker A/P-loop; other site 360095001663 ATP binding site [chemical binding]; other site 360095001664 Q-loop/lid; other site 360095001665 ABC transporter signature motif; other site 360095001666 Walker B; other site 360095001667 D-loop; other site 360095001668 H-loop/switch region; other site 360095001669 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360095001670 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 360095001671 dimer interface [polypeptide binding]; other site 360095001672 conserved gate region; other site 360095001673 putative PBP binding loops; other site 360095001674 ABC-ATPase subunit interface; other site 360095001675 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 360095001676 dimer interface [polypeptide binding]; other site 360095001677 conserved gate region; other site 360095001678 putative PBP binding loops; other site 360095001679 ABC-ATPase subunit interface; other site 360095001680 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 360095001681 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360095001682 substrate binding pocket [chemical binding]; other site 360095001683 membrane-bound complex binding site; other site 360095001684 hinge residues; other site 360095001685 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 360095001686 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 360095001687 dimer interface [polypeptide binding]; other site 360095001688 active site 360095001689 citrylCoA binding site [chemical binding]; other site 360095001690 NADH binding [chemical binding]; other site 360095001691 cationic pore residues; other site 360095001692 oxalacetate/citrate binding site [chemical binding]; other site 360095001693 coenzyme A binding site [chemical binding]; other site 360095001694 catalytic triad [active] 360095001695 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360095001696 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360095001697 active site 360095001698 HIGH motif; other site 360095001699 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360095001700 active site 360095001701 KMSKS motif; other site 360095001702 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 360095001703 Competence protein; Region: Competence; pfam03772 360095001704 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 360095001705 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360095001706 active site 360095001707 dimer interface [polypeptide binding]; other site 360095001708 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 360095001709 glutathione reductase; Validated; Region: PRK06116 360095001710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360095001711 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360095001712 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 360095001713 NAD synthetase; Provisional; Region: PRK13981 360095001714 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 360095001715 multimer interface [polypeptide binding]; other site 360095001716 active site 360095001717 catalytic triad [active] 360095001718 protein interface 1 [polypeptide binding]; other site 360095001719 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 360095001720 homodimer interface [polypeptide binding]; other site 360095001721 NAD binding pocket [chemical binding]; other site 360095001722 ATP binding pocket [chemical binding]; other site 360095001723 Mg binding site [ion binding]; other site 360095001724 active-site loop [active] 360095001725 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 360095001726 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360095001727 active site 360095001728 HIGH motif; other site 360095001729 nucleotide binding site [chemical binding]; other site 360095001730 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360095001731 active site 360095001732 KMSKS motif; other site 360095001733 helicase 45; Provisional; Region: PTZ00424 360095001734 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 360095001735 ATP binding site [chemical binding]; other site 360095001736 Mg++ binding site [ion binding]; other site 360095001737 motif III; other site 360095001738 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 360095001739 nucleotide binding region [chemical binding]; other site 360095001740 ATP-binding site [chemical binding]; other site 360095001741 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 360095001742 ATP-NAD kinase; Region: NAD_kinase; pfam01513 360095001743 Response regulator receiver domain; Region: Response_reg; pfam00072 360095001744 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 360095001745 active site 360095001746 phosphorylation site [posttranslational modification] 360095001747 intermolecular recognition site; other site 360095001748 dimerization interface [polypeptide binding]; other site 360095001749 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 360095001750 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 360095001751 putative dimer interface [polypeptide binding]; other site 360095001752 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 360095001753 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 360095001754 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 360095001755 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360095001756 putative acyl-acceptor binding pocket; other site 360095001757 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 360095001758 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 360095001759 NAD(P) binding site [chemical binding]; other site 360095001760 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 360095001761 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 360095001762 dimer interface [polypeptide binding]; other site 360095001763 active site 360095001764 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 360095001765 acyl carrier protein; Provisional; Region: PRK06508 360095001766 malic enzyme; Reviewed; Region: PRK12862 360095001767 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360095001768 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360095001769 putative NAD(P) binding site [chemical binding]; other site 360095001770 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 360095001771 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360095001772 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360095001773 bacterial Hfq-like; Region: Hfq; cd01716 360095001774 hexamer interface [polypeptide binding]; other site 360095001775 Sm1 motif; other site 360095001776 RNA binding site [nucleotide binding]; other site 360095001777 Sm2 motif; other site 360095001778 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 360095001779 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 360095001780 HflX GTPase family; Region: HflX; cd01878 360095001781 G1 box; other site 360095001782 GTP/Mg2+ binding site [chemical binding]; other site 360095001783 Switch I region; other site 360095001784 G2 box; other site 360095001785 G3 box; other site 360095001786 Switch II region; other site 360095001787 G4 box; other site 360095001788 G5 box; other site 360095001789 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 360095001790 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 360095001791 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 360095001792 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360095001793 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 360095001794 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 360095001795 dimer interface [polypeptide binding]; other site 360095001796 active site 360095001797 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360095001798 folate binding site [chemical binding]; other site 360095001799 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 360095001800 ATP cone domain; Region: ATP-cone; pfam03477 360095001801 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 360095001802 catalytic motif [active] 360095001803 Zn binding site [ion binding]; other site 360095001804 RibD C-terminal domain; Region: RibD_C; cl17279 360095001805 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360095001806 Lumazine binding domain; Region: Lum_binding; pfam00677 360095001807 Lumazine binding domain; Region: Lum_binding; pfam00677 360095001808 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 360095001809 homopentamer interface [polypeptide binding]; other site 360095001810 active site 360095001811 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 360095001812 putative RNA binding site [nucleotide binding]; other site 360095001813 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 360095001814 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 360095001815 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 360095001816 putative phosphate acyltransferase; Provisional; Region: PRK05331 360095001817 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360095001818 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 360095001819 dimer interface [polypeptide binding]; other site 360095001820 active site 360095001821 CoA binding pocket [chemical binding]; other site 360095001822 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 360095001823 IHF dimer interface [polypeptide binding]; other site 360095001824 IHF - DNA interface [nucleotide binding]; other site 360095001825 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 360095001826 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360095001827 DNA binding residues [nucleotide binding] 360095001828 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 360095001829 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 360095001830 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 360095001831 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 360095001832 active site 360095001833 dimer interface [polypeptide binding]; other site 360095001834 motif 1; other site 360095001835 motif 2; other site 360095001836 motif 3; other site 360095001837 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 360095001838 anticodon binding site; other site 360095001839 hypothetical protein; Validated; Region: PRK00041 360095001840 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 360095001841 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360095001842 trimerization site [polypeptide binding]; other site 360095001843 active site 360095001844 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 360095001845 GTP cyclohydrolase I; Provisional; Region: PLN03044 360095001846 active site 360095001847 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 360095001848 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095001849 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 360095001850 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 360095001851 S-adenosylmethionine binding site [chemical binding]; other site 360095001852 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 360095001853 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 360095001854 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360095001855 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360095001856 HIGH motif; other site 360095001857 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360095001858 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360095001859 active site 360095001860 KMSKS motif; other site 360095001861 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360095001862 tRNA binding surface [nucleotide binding]; other site 360095001863 anticodon binding site; other site 360095001864 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360095001865 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360095001866 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360095001867 Walker A/P-loop; other site 360095001868 ATP binding site [chemical binding]; other site 360095001869 Q-loop/lid; other site 360095001870 ABC transporter signature motif; other site 360095001871 Walker B; other site 360095001872 D-loop; other site 360095001873 H-loop/switch region; other site 360095001874 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 360095001875 dimer interface [polypeptide binding]; other site 360095001876 conserved gate region; other site 360095001877 putative PBP binding loops; other site 360095001878 ABC-ATPase subunit interface; other site 360095001879 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360095001880 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 360095001881 dimer interface [polypeptide binding]; other site 360095001882 conserved gate region; other site 360095001883 putative PBP binding loops; other site 360095001884 ABC-ATPase subunit interface; other site 360095001885 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 360095001886 dimer interface [polypeptide binding]; other site 360095001887 conserved gate region; other site 360095001888 ABC-ATPase subunit interface; other site 360095001889 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 360095001890 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 360095001891 substrate binding pocket [chemical binding]; other site 360095001892 membrane-bound complex binding site; other site 360095001893 hinge residues; other site 360095001894 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 360095001895 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 360095001896 substrate binding pocket [chemical binding]; other site 360095001897 membrane-bound complex binding site; other site 360095001898 hinge residues; other site 360095001899 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 360095001900 putative catalytic site [active] 360095001901 putative phosphate binding site [ion binding]; other site 360095001902 active site 360095001903 metal binding site A [ion binding]; metal-binding site 360095001904 DNA binding site [nucleotide binding] 360095001905 putative AP binding site [nucleotide binding]; other site 360095001906 putative metal binding site B [ion binding]; other site 360095001907 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 360095001908 S17 interaction site [polypeptide binding]; other site 360095001909 S8 interaction site; other site 360095001910 16S rRNA interaction site [nucleotide binding]; other site 360095001911 streptomycin interaction site [chemical binding]; other site 360095001912 23S rRNA interaction site [nucleotide binding]; other site 360095001913 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360095001914 30S ribosomal protein S7; Validated; Region: PRK05302 360095001915 elongation factor G; Reviewed; Region: PRK00007 360095001916 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360095001917 G1 box; other site 360095001918 putative GEF interaction site [polypeptide binding]; other site 360095001919 GTP/Mg2+ binding site [chemical binding]; other site 360095001920 Switch I region; other site 360095001921 G2 box; other site 360095001922 G3 box; other site 360095001923 Switch II region; other site 360095001924 G4 box; other site 360095001925 G5 box; other site 360095001926 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 360095001927 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 360095001928 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 360095001929 elongation factor Tu; Reviewed; Region: PRK00049 360095001930 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360095001931 G1 box; other site 360095001932 GEF interaction site [polypeptide binding]; other site 360095001933 GTP/Mg2+ binding site [chemical binding]; other site 360095001934 Switch I region; other site 360095001935 G2 box; other site 360095001936 G3 box; other site 360095001937 Switch II region; other site 360095001938 G4 box; other site 360095001939 G5 box; other site 360095001940 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 360095001941 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 360095001942 Antibiotic Binding Site [chemical binding]; other site 360095001943 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360095001944 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360095001945 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360095001946 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360095001947 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360095001948 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360095001949 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360095001950 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 360095001951 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 360095001952 putative translocon binding site; other site 360095001953 protein-rRNA interface [nucleotide binding]; other site 360095001954 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360095001955 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 360095001956 G-X-X-G motif; other site 360095001957 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360095001958 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 360095001959 23S rRNA interface [nucleotide binding]; other site 360095001960 5S rRNA interface [nucleotide binding]; other site 360095001961 putative antibiotic binding site [chemical binding]; other site 360095001962 L25 interface [polypeptide binding]; other site 360095001963 L27 interface [polypeptide binding]; other site 360095001964 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 360095001965 23S rRNA interface [nucleotide binding]; other site 360095001966 putative translocon interaction site; other site 360095001967 signal recognition particle (SRP54) interaction site; other site 360095001968 L23 interface [polypeptide binding]; other site 360095001969 trigger factor interaction site; other site 360095001970 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360095001971 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360095001972 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360095001973 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360095001974 RNA binding site [nucleotide binding]; other site 360095001975 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360095001976 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360095001977 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360095001978 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 360095001979 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095001980 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 360095001981 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 360095001982 S-adenosylmethionine binding site [chemical binding]; other site 360095001983 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 360095001984 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 360095001985 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360095001986 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360095001987 HIGH motif; other site 360095001988 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360095001989 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360095001990 active site 360095001991 KMSKS motif; other site 360095001992 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360095001993 tRNA binding surface [nucleotide binding]; other site 360095001994 anticodon binding site; other site 360095001995 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360095001996 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360095001997 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360095001998 Walker A/P-loop; other site 360095001999 ATP binding site [chemical binding]; other site 360095002000 Q-loop/lid; other site 360095002001 ABC transporter signature motif; other site 360095002002 Walker B; other site 360095002003 D-loop; other site 360095002004 H-loop/switch region; other site 360095002005 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 360095002006 dimer interface [polypeptide binding]; other site 360095002007 conserved gate region; other site 360095002008 putative PBP binding loops; other site 360095002009 ABC-ATPase subunit interface; other site 360095002010 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360095002011 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 360095002012 dimer interface [polypeptide binding]; other site 360095002013 conserved gate region; other site 360095002014 putative PBP binding loops; other site 360095002015 ABC-ATPase subunit interface; other site 360095002016 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 360095002017 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 360095002018 substrate binding pocket [chemical binding]; other site 360095002019 membrane-bound complex binding site; other site 360095002020 hinge residues; other site 360095002021 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 360095002022 putative catalytic site [active] 360095002023 putative phosphate binding site [ion binding]; other site 360095002024 active site 360095002025 metal binding site A [ion binding]; metal-binding site 360095002026 DNA binding site [nucleotide binding] 360095002027 putative AP binding site [nucleotide binding]; other site 360095002028 putative metal binding site B [ion binding]; other site 360095002029 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 360095002030 S17 interaction site [polypeptide binding]; other site 360095002031 S8 interaction site; other site 360095002032 16S rRNA interaction site [nucleotide binding]; other site 360095002033 streptomycin interaction site [chemical binding]; other site 360095002034 23S rRNA interaction site [nucleotide binding]; other site 360095002035 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360095002036 30S ribosomal protein S7; Validated; Region: PRK05302 360095002037 elongation factor G; Reviewed; Region: PRK00007 360095002038 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360095002039 G1 box; other site 360095002040 putative GEF interaction site [polypeptide binding]; other site 360095002041 GTP/Mg2+ binding site [chemical binding]; other site 360095002042 Switch I region; other site 360095002043 G2 box; other site 360095002044 G3 box; other site 360095002045 Switch II region; other site 360095002046 G4 box; other site 360095002047 G5 box; other site 360095002048 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 360095002049 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 360095002050 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 360095002051 elongation factor Tu; Reviewed; Region: PRK00049 360095002052 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360095002053 G1 box; other site 360095002054 GEF interaction site [polypeptide binding]; other site 360095002055 GTP/Mg2+ binding site [chemical binding]; other site 360095002056 Switch I region; other site 360095002057 G2 box; other site 360095002058 G3 box; other site 360095002059 Switch II region; other site 360095002060 G4 box; other site 360095002061 G5 box; other site 360095002062 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 360095002063 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 360095002064 Antibiotic Binding Site [chemical binding]; other site 360095002065 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360095002066 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360095002067 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360095002068 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360095002069 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360095002070 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360095002071 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360095002072 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 360095002073 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 360095002074 putative translocon binding site; other site 360095002075 protein-rRNA interface [nucleotide binding]; other site 360095002076 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360095002077 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 360095002078 G-X-X-G motif; other site 360095002079 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360095002080 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 360095002081 23S rRNA interface [nucleotide binding]; other site 360095002082 5S rRNA interface [nucleotide binding]; other site 360095002083 putative antibiotic binding site [chemical binding]; other site 360095002084 L25 interface [polypeptide binding]; other site 360095002085 L27 interface [polypeptide binding]; other site 360095002086 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 360095002087 23S rRNA interface [nucleotide binding]; other site 360095002088 putative translocon interaction site; other site 360095002089 signal recognition particle (SRP54) interaction site; other site 360095002090 L23 interface [polypeptide binding]; other site 360095002091 trigger factor interaction site; other site 360095002092 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360095002093 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360095002094 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360095002095 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360095002096 RNA binding site [nucleotide binding]; other site 360095002097 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360095002098 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360095002099 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360095002100 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 360095002101 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 360095002102 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360095002103 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360095002104 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360095002105 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 360095002106 23S rRNA interface [nucleotide binding]; other site 360095002107 L21e interface [polypeptide binding]; other site 360095002108 5S rRNA interface [nucleotide binding]; other site 360095002109 L27 interface [polypeptide binding]; other site 360095002110 L5 interface [polypeptide binding]; other site 360095002111 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 360095002112 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360095002113 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360095002114 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 360095002115 23S rRNA binding site [nucleotide binding]; other site 360095002116 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 360095002117 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 360095002118 SecY translocase; Region: SecY; pfam00344 360095002119 adenylate kinase; Reviewed; Region: adk; PRK00279 360095002120 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 360095002121 AMP-binding site [chemical binding]; other site 360095002122 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360095002123 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 360095002124 30S ribosomal protein S13; Region: bact_S13; TIGR03631 360095002125 30S ribosomal protein S11; Validated; Region: PRK05309 360095002126 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360095002127 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360095002128 alphaNTD - beta interaction site [polypeptide binding]; other site 360095002129 alphaNTD homodimer interface [polypeptide binding]; other site 360095002130 alphaNTD - beta' interaction site [polypeptide binding]; other site 360095002131 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 360095002132 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 360095002133 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360095002134 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360095002135 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 360095002136 protein binding site [polypeptide binding]; other site 360095002137 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 360095002138 protein binding site [polypeptide binding]; other site 360095002139 recombination factor protein RarA; Reviewed; Region: PRK13342 360095002140 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 360095002141 Walker A motif; other site 360095002142 ATP binding site [chemical binding]; other site 360095002143 Walker B motif; other site 360095002144 arginine finger; other site 360095002145 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 360095002146 recombinase A; Provisional; Region: recA; PRK09354 360095002147 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 360095002148 hexamer interface [polypeptide binding]; other site 360095002149 Walker A motif; other site 360095002150 ATP binding site [chemical binding]; other site 360095002151 Walker B motif; other site 360095002152 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360095002153 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 360095002154 motif 1; other site 360095002155 active site 360095002156 motif 2; other site 360095002157 motif 3; other site 360095002158 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 360095002159 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 360095002160 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360095002161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095002162 Walker A/P-loop; other site 360095002163 ATP binding site [chemical binding]; other site 360095002164 Q-loop/lid; other site 360095002165 ABC transporter signature motif; other site 360095002166 Walker B; other site 360095002167 D-loop; other site 360095002168 H-loop/switch region; other site 360095002169 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360095002170 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360095002171 active site 360095002172 ATP12 chaperone protein; Region: ATP12; cl02228 360095002173 glutamine synthetase; Provisional; Region: glnA; PRK09469 360095002174 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360095002175 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360095002176 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360095002177 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360095002178 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360095002179 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360095002180 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360095002181 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 360095002182 dimer interface [polypeptide binding]; other site 360095002183 ssDNA binding site [nucleotide binding]; other site 360095002184 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360095002185 DNA gyrase subunit A; Validated; Region: PRK05560 360095002186 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 360095002187 CAP-like domain; other site 360095002188 active site 360095002189 primary dimer interface [polypeptide binding]; other site 360095002190 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360095002191 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360095002192 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360095002193 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360095002194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360095002195 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360095002196 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360095002197 active site 360095002198 (T/H)XGH motif; other site 360095002199 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 360095002200 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 360095002201 active site 360095002202 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 360095002203 active site 360095002204 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 360095002205 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360095002206 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 360095002207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360095002208 putative substrate translocation pore; other site 360095002209 isocitrate dehydrogenase; Validated; Region: PRK08299 360095002210 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 360095002211 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 360095002212 putative active site [active] 360095002213 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 360095002214 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 360095002215 homodimer interface [polypeptide binding]; other site 360095002216 substrate-cofactor binding pocket; other site 360095002217 catalytic residue [active] 360095002218 Sporulation related domain; Region: SPOR; pfam05036 360095002219 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 360095002220 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 360095002221 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360095002222 active site 360095002223 HIGH motif; other site 360095002224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360095002225 KMSK motif region; other site 360095002226 tRNA binding surface [nucleotide binding]; other site 360095002227 DALR anticodon binding domain; Region: DALR_1; smart00836 360095002228 anticodon binding site; other site 360095002229 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 360095002230 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360095002231 Zn2+ binding site [ion binding]; other site 360095002232 Mg2+ binding site [ion binding]; other site 360095002233 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 360095002234 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 360095002235 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 360095002236 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 360095002237 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 360095002238 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360095002239 Substrate binding site; other site 360095002240 Mg++ binding site; other site 360095002241 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 360095002242 active site 360095002243 substrate binding site [chemical binding]; other site 360095002244 CoA binding site [chemical binding]; other site 360095002245 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360095002246 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 360095002247 glutaminase active site [active] 360095002248 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 360095002249 dimer interface [polypeptide binding]; other site 360095002250 active site 360095002251 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 360095002252 dimer interface [polypeptide binding]; other site 360095002253 active site 360095002254 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 360095002255 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 360095002256 generic binding surface II; other site 360095002257 ssDNA binding site; other site 360095002258 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 360095002259 ATP binding site [chemical binding]; other site 360095002260 putative Mg++ binding site [ion binding]; other site 360095002261 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 360095002262 nucleotide binding region [chemical binding]; other site 360095002263 ATP-binding site [chemical binding]; other site 360095002264 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 360095002265 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 360095002266 dimer interface [polypeptide binding]; other site 360095002267 active site 360095002268 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360095002269 catalytic residues [active] 360095002270 substrate binding site [chemical binding]; other site 360095002271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360095002272 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 360095002273 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095002274 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 360095002275 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360095002276 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360095002277 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360095002278 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 360095002279 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 360095002280 carboxyltransferase (CT) interaction site; other site 360095002281 biotinylation site [posttranslational modification]; other site 360095002282 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 360095002283 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360095002284 catalytic residues [active] 360095002285 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 360095002286 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360095002287 active site 360095002288 substrate binding site [chemical binding]; other site 360095002289 cosubstrate binding site; other site 360095002290 catalytic site [active] 360095002291 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360095002292 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 360095002293 dimerization interface [polypeptide binding]; other site 360095002294 putative ATP binding site [chemical binding]; other site 360095002295 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360095002296 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360095002297 hypothetical protein; Validated; Region: PRK09087 360095002298 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 360095002299 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 360095002300 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095002301 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 360095002302 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360095002303 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 360095002304 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 360095002305 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 360095002306 NADH dehydrogenase subunit D; Validated; Region: PRK06075 360095002307 NADH dehydrogenase subunit E; Validated; Region: PRK07539 360095002308 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 360095002309 putative dimer interface [polypeptide binding]; other site 360095002310 [2Fe-2S] cluster binding site [ion binding]; other site 360095002311 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 360095002312 SLBB domain; Region: SLBB; pfam10531 360095002313 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 360095002314 NADH dehydrogenase subunit G; Validated; Region: PRK09130 360095002315 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 360095002316 catalytic loop [active] 360095002317 iron binding site [ion binding]; other site 360095002318 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360095002319 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 360095002320 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 360095002321 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 360095002322 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 360095002323 4Fe-4S binding domain; Region: Fer4; cl02805 360095002324 4Fe-4S binding domain; Region: Fer4; pfam00037 360095002325 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 360095002326 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 360095002327 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 360095002328 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360095002329 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360095002330 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360095002331 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 360095002332 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 360095002333 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360095002334 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 360095002335 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360095002336 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 360095002337 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 360095002338 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 360095002339 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 360095002340 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360095002341 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 360095002342 prolyl-tRNA synthetase; Provisional; Region: PRK12325 360095002343 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 360095002344 dimer interface [polypeptide binding]; other site 360095002345 motif 1; other site 360095002346 active site 360095002347 motif 2; other site 360095002348 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 360095002349 active site 360095002350 motif 3; other site 360095002351 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 360095002352 anticodon binding site; other site 360095002353 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 360095002354 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360095002355 FtsX-like permease family; Region: FtsX; pfam02687 360095002356 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360095002357 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360095002358 Walker A/P-loop; other site 360095002359 ATP binding site [chemical binding]; other site 360095002360 Q-loop/lid; other site 360095002361 ABC transporter signature motif; other site 360095002362 Walker B; other site 360095002363 D-loop; other site 360095002364 H-loop/switch region; other site 360095002365 Uncharacterized conserved protein [Function unknown]; Region: COG2938 360095002366 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 360095002367 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 360095002368 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 360095002369 ATP binding site [chemical binding]; other site 360095002370 putative Mg++ binding site [ion binding]; other site 360095002371 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 360095002372 nucleotide binding region [chemical binding]; other site 360095002373 ATP-binding site [chemical binding]; other site 360095002374 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 360095002375 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 360095002376 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 360095002377 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 360095002378 active site 360095002379 metal binding site [ion binding]; metal-binding site 360095002380 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 360095002381 Transglycosylase; Region: Transgly; pfam00912 360095002382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360095002383 peptide chain release factor 2; Provisional; Region: PRK07342 360095002384 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360095002385 RF-1 domain; Region: RF-1; pfam00472 360095002386 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360095002387 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 360095002388 catalytic triad [active] 360095002389 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360095002390 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360095002391 active site 360095002392 HIGH motif; other site 360095002393 dimer interface [polypeptide binding]; other site 360095002394 KMSKS motif; other site 360095002395 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 360095002396 RNA binding surface [nucleotide binding]; other site 360095002397 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 360095002398 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360095002399 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 360095002400 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 360095002401 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360095002402 catalytic residue [active] 360095002403 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 360095002404 putative ABC transporter; Region: ycf24; CHL00085 360095002405 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 360095002406 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 360095002407 Walker A/P-loop; other site 360095002408 ATP binding site [chemical binding]; other site 360095002409 Q-loop/lid; other site 360095002410 ABC transporter signature motif; other site 360095002411 Walker B; other site 360095002412 D-loop; other site 360095002413 H-loop/switch region; other site 360095002414 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 360095002415 FeS assembly protein SufD; Region: sufD; TIGR01981 360095002416 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360095002417 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 360095002418 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360095002419 catalytic residue [active] 360095002420 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 360095002421 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 360095002422 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 360095002423 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 360095002424 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 360095002425 putative hydrolase; Provisional; Region: PRK02113 360095002426 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 360095002427 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360095002428 active site 360095002429 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 360095002430 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360095002431 active site 360095002432 HIGH motif; other site 360095002433 KMSKS motif; other site 360095002434 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 360095002435 tRNA binding surface [nucleotide binding]; other site 360095002436 anticodon binding site; other site 360095002437 DNA polymerase III subunit delta'; Validated; Region: PRK09112 360095002438 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 360095002439 Walker A motif; other site 360095002440 ATP binding site [chemical binding]; other site 360095002441 Walker B motif; other site 360095002442 arginine finger; other site 360095002443 thymidylate kinase; Validated; Region: tmk; PRK00698 360095002444 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 360095002445 TMP-binding site; other site 360095002446 ATP-binding site [chemical binding]; other site 360095002447 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 360095002448 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 360095002449 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 360095002450 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 360095002451 Ligand Binding Site [chemical binding]; other site 360095002452 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360095002453 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360095002454 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 360095002455 RNA binding surface [nucleotide binding]; other site 360095002456 glutamate racemase; Provisional; Region: PRK00865 360095002457 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 360095002458 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 360095002459 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 360095002460 active site 360095002461 hypothetical protein; Reviewed; Region: PRK00024 360095002462 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 360095002463 MPN+ (JAMM) motif; other site 360095002464 Zinc-binding site [ion binding]; other site 360095002465 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 360095002466 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 360095002467 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 360095002468 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 360095002469 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 360095002470 DNA-binding site [nucleotide binding]; DNA binding site 360095002471 RNA-binding motif; other site 360095002472 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 360095002473 DNA-binding site [nucleotide binding]; DNA binding site 360095002474 RNA-binding motif; other site 360095002475 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360095002476 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 360095002477 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 360095002478 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 360095002479 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360095002480 active site 360095002481 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 360095002482 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360095002483 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360095002484 dihydroorotase; Validated; Region: PRK09059 360095002485 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 360095002486 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 360095002487 active site 360095002488 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 360095002489 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 360095002490 DNA protecting protein DprA; Region: dprA; TIGR00732 360095002491 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 360095002492 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 360095002493 active site 360095002494 interdomain interaction site; other site 360095002495 putative metal-binding site [ion binding]; other site 360095002496 nucleotide binding site [chemical binding]; other site 360095002497 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 360095002498 domain I; other site 360095002499 DNA binding groove [nucleotide binding] 360095002500 phosphate binding site [ion binding]; other site 360095002501 domain II; other site 360095002502 domain III; other site 360095002503 nucleotide binding site [chemical binding]; other site 360095002504 catalytic site [active] 360095002505 domain IV; other site 360095002506 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360095002507 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 360095002508 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 360095002509 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 360095002510 ribonuclease R; Region: RNase_R; TIGR02063 360095002511 RNB domain; Region: RNB; pfam00773 360095002512 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 360095002513 RNA binding site [nucleotide binding]; other site 360095002514 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 360095002515 Staphylococcal nuclease homologues; Region: SNc; smart00318 360095002516 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 360095002517 Catalytic site; other site 360095002518 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 360095002519 putative uracil binding site [chemical binding]; other site 360095002520 putative active site [active] 360095002521 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 360095002522 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 360095002523 putative DNA binding site [nucleotide binding]; other site 360095002524 putative Zn2+ binding site [ion binding]; other site 360095002525 AsnC family; Region: AsnC_trans_reg; pfam01037 360095002526 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 360095002527 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 360095002528 active site pocket [active] 360095002529 putative dimer interface [polypeptide binding]; other site 360095002530 putative cataytic base [active] 360095002531 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 360095002532 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 360095002533 FMN binding site [chemical binding]; other site 360095002534 active site 360095002535 catalytic residues [active] 360095002536 substrate binding site [chemical binding]; other site 360095002537 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 360095002538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 360095002539 putative active site [active] 360095002540 heme pocket [chemical binding]; other site 360095002541 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 360095002542 dimer interface [polypeptide binding]; other site 360095002543 phosphorylation site [posttranslational modification] 360095002544 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 360095002545 ATP binding site [chemical binding]; other site 360095002546 Mg2+ binding site [ion binding]; other site 360095002547 G-X-G motif; other site 360095002548 Response regulator receiver domain; Region: Response_reg; pfam00072 360095002549 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 360095002550 active site 360095002551 phosphorylation site [posttranslational modification] 360095002552 intermolecular recognition site; other site 360095002553 dimerization interface [polypeptide binding]; other site 360095002554 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 360095002555 Flavin Reductases; Region: FlaRed; cl00801 360095002556 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 360095002557 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 360095002558 substrate binding site [chemical binding]; other site 360095002559 hexamer interface [polypeptide binding]; other site 360095002560 metal binding site [ion binding]; metal-binding site 360095002561 adenylosuccinate lyase; Provisional; Region: PRK07492 360095002562 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 360095002563 tetramer interface [polypeptide binding]; other site 360095002564 active site 360095002565 Serine hydrolase; Region: Ser_hydrolase; pfam06821 360095002566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360095002567 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360095002568 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 360095002569 ATP binding site [chemical binding]; other site 360095002570 active site 360095002571 substrate binding site [chemical binding]; other site 360095002572 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 360095002573 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 360095002574 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360095002575 putative active site [active] 360095002576 catalytic triad [active] 360095002577 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 360095002578 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 360095002579 dimerization interface [polypeptide binding]; other site 360095002580 ATP binding site [chemical binding]; other site 360095002581 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 360095002582 dimerization interface [polypeptide binding]; other site 360095002583 ATP binding site [chemical binding]; other site 360095002584 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 360095002585 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 360095002586 putative GSH binding site [chemical binding]; other site 360095002587 catalytic residues [active] 360095002588 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 360095002589 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 360095002590 putative substrate translocation pore; other site 360095002591 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 360095002592 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 360095002593 CAP-like domain; other site 360095002594 active site 360095002595 primary dimer interface [polypeptide binding]; other site 360095002596 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360095002597 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 360095002598 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 360095002599 dimer interface [polypeptide binding]; other site 360095002600 anticodon binding site; other site 360095002601 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 360095002602 homodimer interface [polypeptide binding]; other site 360095002603 motif 1; other site 360095002604 active site 360095002605 motif 2; other site 360095002606 GAD domain; Region: GAD; pfam02938 360095002607 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 360095002608 active site 360095002609 motif 3; other site 360095002610 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 360095002611 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 360095002612 catalytic site [active] 360095002613 putative active site [active] 360095002614 putative substrate binding site [chemical binding]; other site 360095002615 HRDC domain; Region: HRDC; pfam00570 360095002616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 360095002617 salicylate hydroxylase; Provisional; Region: PRK06475 360095002618 salicylate hydroxylase; Provisional; Region: PRK08163 360095002619 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360095002620 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 360095002621 putative active site [active] 360095002622 putative PHP Thumb interface [polypeptide binding]; other site 360095002623 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 360095002624 generic binding surface II; other site 360095002625 generic binding surface I; other site 360095002626 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095002627 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 360095002628 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 360095002629 ATP binding site [chemical binding]; other site 360095002630 Mg++ binding site [ion binding]; other site 360095002631 motif III; other site 360095002632 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 360095002633 nucleotide binding region [chemical binding]; other site 360095002634 ATP-binding site [chemical binding]; other site 360095002635 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 360095002636 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 360095002637 Protein export membrane protein; Region: SecD_SecF; pfam02355 360095002638 Predicted integral membrane protein [Function unknown]; Region: COG0392 360095002639 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360095002640 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360095002641 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 360095002642 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 360095002643 Transporter associated domain; Region: CorC_HlyC; smart01091 360095002644 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095002645 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095002646 Methyltransferase domain; Region: Methyltransf_24; pfam13578 360095002647 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 360095002648 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360095002649 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 360095002650 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 360095002651 Repair protein; Region: Repair_PSII; pfam04536 360095002652 lipoate-protein ligase B; Provisional; Region: PRK14341 360095002653 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 360095002654 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 360095002655 ATP binding site [chemical binding]; other site 360095002656 Mg2+ binding site [ion binding]; other site 360095002657 G-X-G motif; other site 360095002658 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 360095002659 anchoring element; other site 360095002660 dimer interface [polypeptide binding]; other site 360095002661 ATP binding site [chemical binding]; other site 360095002662 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 360095002663 active site 360095002664 metal binding site [ion binding]; metal-binding site 360095002665 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360095002666 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 360095002667 DHH family; Region: DHH; pfam01368 360095002668 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 360095002669 23S rRNA interface [nucleotide binding]; other site 360095002670 L3 interface [polypeptide binding]; other site 360095002671 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 360095002672 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360095002673 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 360095002674 active site 360095002675 phosphorylation site [posttranslational modification] 360095002676 intermolecular recognition site; other site 360095002677 dimerization interface [polypeptide binding]; other site 360095002678 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 360095002679 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 360095002680 amidase catalytic site [active] 360095002681 Zn binding residues [ion binding]; other site 360095002682 substrate binding site [chemical binding]; other site 360095002683 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 360095002684 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 360095002685 DNA binding site [nucleotide binding] 360095002686 active site 360095002687 Int/Topo IB signature motif; other site 360095002688 catalytic residues [active] 360095002689 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 360095002690 trimer interface [polypeptide binding]; other site 360095002691 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 360095002692 YadA-like C-terminal region; Region: YadA; pfam03895 360095002693 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 360095002694 Spore germination protein; Region: Spore_permease; cl17796 360095002695 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360095002696 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 360095002697 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360095002698 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 360095002699 active site 360095002700 hydrophilic channel; other site 360095002701 dimerization interface [polypeptide binding]; other site 360095002702 catalytic residues [active] 360095002703 active site lid [active] 360095002704 AAA domain; Region: AAA_30; pfam13604 360095002705 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 360095002706 Family description; Region: UvrD_C_2; pfam13538 360095002707 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360095002708 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360095002709 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 360095002710 protein binding site [polypeptide binding]; other site 360095002711 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 360095002712 protein binding site [polypeptide binding]; other site 360095002713 HflC protein; Region: hflC; TIGR01932 360095002714 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 360095002715 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 360095002716 HflK protein; Region: hflK; TIGR01933 360095002717 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 360095002718 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 360095002719 folate binding site [chemical binding]; other site 360095002720 NADP+ binding site [chemical binding]; other site 360095002721 thymidylate synthase; Reviewed; Region: thyA; PRK01827 360095002722 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 360095002723 dimerization interface [polypeptide binding]; other site 360095002724 active site 360095002725 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 360095002726 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 360095002727 putative substrate translocation pore; other site 360095002728 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 360095002729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 360095002730 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 360095002731 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 360095002732 Part of AAA domain; Region: AAA_19; pfam13245 360095002733 Family description; Region: UvrD_C_2; pfam13538 360095002734 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 360095002735 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 360095002736 trimer interface [polypeptide binding]; other site 360095002737 active site 360095002738 substrate binding site [chemical binding]; other site 360095002739 CoA binding site [chemical binding]; other site 360095002740 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 360095002741 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 360095002742 Cu(I) binding site [ion binding]; other site 360095002743 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 360095002744 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 360095002745 S-adenosylmethionine binding site [chemical binding]; other site 360095002746 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360095002747 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 360095002748 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 360095002749 active site 360095002750 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360095002751 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 360095002752 nucleotide binding pocket [chemical binding]; other site 360095002753 K-X-D-G motif; other site 360095002754 catalytic site [active] 360095002755 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360095002756 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 360095002757 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 360095002758 Dimer interface [polypeptide binding]; other site 360095002759 BRCT sequence motif; other site 360095002760 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 360095002761 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360095002762 Walker A/P-loop; other site 360095002763 ATP binding site [chemical binding]; other site 360095002764 Q-loop/lid; other site 360095002765 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360095002766 ABC transporter signature motif; other site 360095002767 Walker B; other site 360095002768 D-loop; other site 360095002769 H-loop/switch region; other site 360095002770 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 360095002771 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 360095002772 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360095002773 cell division protein FtsZ; Validated; Region: PRK09330 360095002774 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 360095002775 nucleotide binding site [chemical binding]; other site 360095002776 SulA interaction site; other site 360095002777 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 360095002778 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 360095002779 Cell division protein FtsA; Region: FtsA; smart00842 360095002780 Cell division protein FtsA; Region: FtsA; pfam14450 360095002781 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 360095002782 Cell division protein FtsQ; Region: FtsQ; pfam03799 360095002783 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 360095002784 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 360095002785 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360095002786 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 360095002787 FAD binding domain; Region: FAD_binding_4; pfam01565 360095002788 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360095002789 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 360095002790 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360095002791 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360095002792 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360095002793 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 360095002794 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 360095002795 active site 360095002796 homodimer interface [polypeptide binding]; other site 360095002797 cell division protein FtsW; Region: ftsW; TIGR02614 360095002798 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 360095002799 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 360095002800 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360095002801 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360095002802 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 360095002803 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 360095002804 Mg++ binding site [ion binding]; other site 360095002805 putative catalytic motif [active] 360095002806 putative substrate binding site [chemical binding]; other site 360095002807 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 360095002808 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360095002809 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360095002810 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360095002811 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 360095002812 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360095002813 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360095002814 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360095002815 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360095002816 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360095002817 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360095002818 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 360095002819 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 360095002820 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 360095002821 S-adenosylmethionine binding site [chemical binding]; other site 360095002822 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 360095002823 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 360095002824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095002825 Walker A/P-loop; other site 360095002826 ATP binding site [chemical binding]; other site 360095002827 Q-loop/lid; other site 360095002828 ABC transporter signature motif; other site 360095002829 Walker B; other site 360095002830 D-loop; other site 360095002831 H-loop/switch region; other site 360095002832 ABC transporter; Region: ABC_tran_2; pfam12848 360095002833 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360095002834 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 360095002835 Isochorismatase family; Region: Isochorismatase; pfam00857 360095002836 catalytic triad [active] 360095002837 metal binding site [ion binding]; metal-binding site 360095002838 conserved cis-peptide bond; other site 360095002839 hypothetical protein; Provisional; Region: PRK14013 360095002840 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360095002841 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 360095002842 non-specific DNA binding site [nucleotide binding]; other site 360095002843 salt bridge; other site 360095002844 sequence-specific DNA binding site [nucleotide binding]; other site 360095002845 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 360095002846 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 360095002847 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360095002848 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 360095002849 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 360095002850 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 360095002851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360095002852 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360095002853 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 360095002854 DNA binding residues [nucleotide binding] 360095002855 DNA primase; Validated; Region: dnaG; PRK05667 360095002856 CHC2 zinc finger; Region: zf-CHC2; cl17510 360095002857 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360095002858 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 360095002859 active site 360095002860 metal binding site [ion binding]; metal-binding site 360095002861 interdomain interaction site; other site 360095002862 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 360095002863 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360095002864 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360095002865 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 360095002866 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 360095002867 PhoU domain; Region: PhoU; pfam01895 360095002868 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 360095002869 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 360095002870 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 360095002871 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 360095002872 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 360095002873 catalytic site [active] 360095002874 subunit interface [polypeptide binding]; other site 360095002875 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360095002876 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 360095002877 putative substrate translocation pore; other site 360095002878 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360095002879 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360095002880 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360095002881 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360095002882 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360095002883 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360095002884 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 360095002885 IMP binding site; other site 360095002886 dimer interface [polypeptide binding]; other site 360095002887 partial ornithine binding site; other site 360095002888 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 360095002889 DNA-binding site [nucleotide binding]; DNA binding site 360095002890 RNA-binding motif; other site 360095002891 aspartate aminotransferase; Provisional; Region: PRK05764 360095002892 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 360095002893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360095002894 homodimer interface [polypeptide binding]; other site 360095002895 catalytic residue [active] 360095002896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360095002897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360095002898 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 360095002899 putative effector binding pocket; other site 360095002900 dimerization interface [polypeptide binding]; other site 360095002901 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 360095002902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360095002903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360095002904 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 360095002905 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 360095002906 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 360095002907 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360095002908 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360095002909 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360095002910 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360095002911 excinuclease ABC subunit B; Provisional; Region: PRK05298 360095002912 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 360095002913 ATP binding site [chemical binding]; other site 360095002914 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 360095002915 nucleotide binding region [chemical binding]; other site 360095002916 ATP-binding site [chemical binding]; other site 360095002917 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360095002918 UvrB/uvrC motif; Region: UVR; pfam02151 360095002919 BA14K-like protein; Region: BA14K; pfam07886 360095002920 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 360095002921 osmolarity response regulator; Provisional; Region: ompR; PRK09468 360095002922 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 360095002923 active site 360095002924 phosphorylation site [posttranslational modification] 360095002925 intermolecular recognition site; other site 360095002926 dimerization interface [polypeptide binding]; other site 360095002927 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 360095002928 DNA binding site [nucleotide binding] 360095002929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360095002930 HAMP domain; Region: HAMP; pfam00672 360095002931 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 360095002932 dimer interface [polypeptide binding]; other site 360095002933 phosphorylation site [posttranslational modification] 360095002934 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 360095002935 ATP binding site [chemical binding]; other site 360095002936 Mg2+ binding site [ion binding]; other site 360095002937 G-X-G motif; other site 360095002938 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 360095002939 Membrane fusogenic activity; Region: BMFP; pfam04380 360095002940 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 360095002941 Uncharacterized conserved protein [Function unknown]; Region: COG1565 360095002942 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360095002943 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 360095002944 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360095002945 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360095002946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360095002947 active site 360095002948 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360095002949 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360095002950 5S rRNA interface [nucleotide binding]; other site 360095002951 CTC domain interface [polypeptide binding]; other site 360095002952 L16 interface [polypeptide binding]; other site 360095002953 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 360095002954 putative active site [active] 360095002955 catalytic residue [active] 360095002956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 360095002957 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 360095002958 GTP-binding protein YchF; Reviewed; Region: PRK09601 360095002959 YchF GTPase; Region: YchF; cd01900 360095002960 G1 box; other site 360095002961 GTP/Mg2+ binding site [chemical binding]; other site 360095002962 Switch I region; other site 360095002963 G2 box; other site 360095002964 Switch II region; other site 360095002965 G3 box; other site 360095002966 G4 box; other site 360095002967 G5 box; other site 360095002968 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 360095002969 PRC-barrel domain; Region: PRC; pfam05239 360095002970 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 360095002971 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 360095002972 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360095002973 active site 360095002974 NTP binding site [chemical binding]; other site 360095002975 metal binding triad [ion binding]; metal-binding site 360095002976 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360095002977 MoxR-like ATPases [General function prediction only]; Region: COG0714 360095002978 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 360095002979 Walker A motif; other site 360095002980 ATP binding site [chemical binding]; other site 360095002981 Walker B motif; other site 360095002982 arginine finger; other site 360095002983 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 360095002984 Protein of unknown function DUF58; Region: DUF58; pfam01882 360095002985 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 360095002986 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 360095002987 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 360095002988 Protein of unknown function (DUF1355); Region: DUF1355; pfam07090 360095002989 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360095002990 Coenzyme A binding pocket [chemical binding]; other site 360095002991 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360095002992 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 360095002993 putative active site [active] 360095002994 putative metal binding site [ion binding]; other site 360095002995 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 360095002996 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360095002997 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 360095002998 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 360095002999 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360095003000 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360095003001 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 360095003002 Ligand Binding Site [chemical binding]; other site 360095003003 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 360095003004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360095003005 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 360095003006 active site 360095003007 phosphorylation site [posttranslational modification] 360095003008 intermolecular recognition site; other site 360095003009 dimerization interface [polypeptide binding]; other site 360095003010 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 360095003011 DNA binding site [nucleotide binding] 360095003012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 360095003013 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 360095003014 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360095003015 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 360095003016 inhibitor-cofactor binding pocket; inhibition site 360095003017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360095003018 catalytic residue [active] 360095003019 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360095003020 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360095003021 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 360095003022 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360095003023 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 360095003024 Walker A/P-loop; other site 360095003025 ATP binding site [chemical binding]; other site 360095003026 Q-loop/lid; other site 360095003027 ABC transporter signature motif; other site 360095003028 Walker B; other site 360095003029 D-loop; other site 360095003030 H-loop/switch region; other site 360095003031 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 360095003032 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360095003033 Walker A/P-loop; other site 360095003034 ATP binding site [chemical binding]; other site 360095003035 Q-loop/lid; other site 360095003036 ABC transporter signature motif; other site 360095003037 Walker B; other site 360095003038 D-loop; other site 360095003039 H-loop/switch region; other site 360095003040 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360095003041 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 360095003042 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 360095003043 dimer interface [polypeptide binding]; other site 360095003044 conserved gate region; other site 360095003045 putative PBP binding loops; other site 360095003046 ABC-ATPase subunit interface; other site 360095003047 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360095003048 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 360095003049 dimer interface [polypeptide binding]; other site 360095003050 conserved gate region; other site 360095003051 putative PBP binding loops; other site 360095003052 ABC-ATPase subunit interface; other site 360095003053 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 360095003054 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360095003055 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 360095003056 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 360095003057 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 360095003058 generic binding surface II; other site 360095003059 generic binding surface I; other site 360095003060 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 360095003061 Ligand binding site [chemical binding]; other site 360095003062 Electron transfer flavoprotein domain; Region: ETF; pfam01012 360095003063 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 360095003064 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 360095003065 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 360095003066 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 360095003067 hydroxyglutarate oxidase; Provisional; Region: PRK11728 360095003068 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 360095003069 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 360095003070 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 360095003071 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360095003072 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360095003073 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 360095003074 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 360095003075 hypothetical protein; Reviewed; Region: PRK12497 360095003076 Predicted methyltransferases [General function prediction only]; Region: COG0313 360095003077 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 360095003078 putative SAM binding site [chemical binding]; other site 360095003079 putative homodimer interface [polypeptide binding]; other site 360095003080 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 360095003081 active site 360095003082 dimer interface [polypeptide binding]; other site 360095003083 Domain of unknown function DUF59; Region: DUF59; pfam01883 360095003084 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360095003085 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 360095003086 Walker A motif; other site 360095003087 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 360095003088 ribonuclease P; Reviewed; Region: rnpA; PRK01313 360095003089 membrane protein insertase; Provisional; Region: PRK01318 360095003090 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 360095003091 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360095003092 G1 box; other site 360095003093 GTP/Mg2+ binding site [chemical binding]; other site 360095003094 Switch I region; other site 360095003095 G2 box; other site 360095003096 G3 box; other site 360095003097 Switch II region; other site 360095003098 G4 box; other site 360095003099 G5 box; other site 360095003100 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 360095003101 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 360095003102 C-terminal domain interface [polypeptide binding]; other site 360095003103 GSH binding site (G-site) [chemical binding]; other site 360095003104 dimer interface [polypeptide binding]; other site 360095003105 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 360095003106 N-terminal domain interface [polypeptide binding]; other site 360095003107 dimer interface [polypeptide binding]; other site 360095003108 substrate binding pocket (H-site) [chemical binding]; other site 360095003109 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360095003110 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360095003111 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360095003112 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 360095003113 catalytic core [active] 360095003114 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003115 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 360095003116 catalytic residues [active] 360095003117 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 360095003118 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 360095003119 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 360095003120 AntA/AntB antirepressor; Region: AntA; pfam08346 360095003121 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 360095003122 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 360095003123 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360095003124 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 360095003125 active site 360095003126 catalytic residues [active] 360095003127 DNA binding site [nucleotide binding] 360095003128 Int/Topo IB signature motif; other site 360095003129 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003130 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003131 S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic...; Region: S15_NS1_EPRS_RNA-bind; cl00349 360095003132 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 360095003133 metal binding site 2 [ion binding]; metal-binding site 360095003134 putative DNA binding helix; other site 360095003135 metal binding site 1 [ion binding]; metal-binding site 360095003136 dimer interface [polypeptide binding]; other site 360095003137 structural Zn2+ binding site [ion binding]; other site 360095003138 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 360095003139 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360095003140 HlyD family secretion protein; Region: HlyD_3; pfam13437 360095003141 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 360095003142 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 360095003143 putative substrate translocation pore; other site 360095003144 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 360095003145 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 360095003146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 360095003147 dimer interface [polypeptide binding]; other site 360095003148 active site 360095003149 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360095003150 catalytic residues [active] 360095003151 substrate binding site [chemical binding]; other site 360095003152 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 360095003153 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 360095003154 active site residue [active] 360095003155 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 360095003156 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 360095003157 FAD binding pocket [chemical binding]; other site 360095003158 FAD binding motif [chemical binding]; other site 360095003159 phosphate binding motif [ion binding]; other site 360095003160 beta-alpha-beta structure motif; other site 360095003161 NAD binding pocket [chemical binding]; other site 360095003162 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 360095003163 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 360095003164 active site 360095003165 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360095003166 dimer interface [polypeptide binding]; other site 360095003167 substrate binding site [chemical binding]; other site 360095003168 catalytic residues [active] 360095003169 glycine dehydrogenase; Provisional; Region: PRK05367 360095003170 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 360095003171 tetramer interface [polypeptide binding]; other site 360095003172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360095003173 catalytic residue [active] 360095003174 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 360095003175 tetramer interface [polypeptide binding]; other site 360095003176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360095003177 catalytic residue [active] 360095003178 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 360095003179 lipoyl attachment site [posttranslational modification]; other site 360095003180 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 360095003181 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 360095003182 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 360095003183 Uncharacterized conserved protein [Function unknown]; Region: COG2835 360095003184 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 360095003185 Trm112p-like protein; Region: Trm112p; cl01066 360095003186 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 360095003187 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360095003188 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360095003189 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360095003190 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360095003191 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 360095003192 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 360095003193 Walker A/P-loop; other site 360095003194 ATP binding site [chemical binding]; other site 360095003195 Q-loop/lid; other site 360095003196 ABC transporter signature motif; other site 360095003197 Walker B; other site 360095003198 D-loop; other site 360095003199 H-loop/switch region; other site 360095003200 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 360095003201 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 360095003202 dimer interface [polypeptide binding]; other site 360095003203 conserved gate region; other site 360095003204 ABC-ATPase subunit interface; other site 360095003205 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 360095003206 putative active site [active] 360095003207 putative catalytic site [active] 360095003208 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 360095003209 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360095003210 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 360095003211 Creatinine amidohydrolase; Region: Creatininase; pfam02633 360095003212 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 360095003213 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360095003214 Autotransporter beta-domain; Region: Autotransporter; smart00869 360095003215 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360095003216 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 360095003217 putative ligand binding residues [chemical binding]; other site 360095003218 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360095003219 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 360095003220 ABC-ATPase subunit interface; other site 360095003221 dimer interface [polypeptide binding]; other site 360095003222 putative PBP binding regions; other site 360095003223 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; cl00462 360095003224 ABC-ATPase subunit interface; other site 360095003225 dimer interface [polypeptide binding]; other site 360095003226 putative PBP binding regions; other site 360095003227 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 360095003228 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360095003229 Walker A/P-loop; other site 360095003230 ATP binding site [chemical binding]; other site 360095003231 Q-loop/lid; other site 360095003232 ABC transporter signature motif; other site 360095003233 Walker B; other site 360095003234 D-loop; other site 360095003235 H-loop/switch region; other site 360095003236 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 360095003237 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360095003238 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK11911 360095003239 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 360095003240 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 360095003241 Flagellar protein FlaF; Region: FlaF; pfam07309 360095003242 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 360095003243 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360095003244 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360095003245 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 360095003246 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360095003247 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 360095003248 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360095003249 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360095003250 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360095003251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360095003252 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 360095003253 active site 360095003254 phosphorylation site [posttranslational modification] 360095003255 dimerization interface [polypeptide binding]; other site 360095003256 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 360095003257 DNA binding site [nucleotide binding] 360095003258 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360095003259 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 360095003260 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360095003261 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360095003262 chemotaxis protein; Reviewed; Region: PRK12798 360095003263 flagellar motor protein MotB; Validated; Region: motB; PRK05996 360095003264 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 360095003265 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360095003266 ligand binding site [chemical binding]; other site 360095003267 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 360095003268 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360095003269 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 360095003270 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360095003271 Autotransporter beta-domain; Region: Autotransporter; smart00869 360095003272 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 360095003273 Autotransporter beta-domain; Region: Autotransporter; smart00869 360095003274 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 360095003275 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 360095003276 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 360095003277 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12788 360095003278 Uncharacterized conserved protein [Function unknown]; Region: COG3334 360095003279 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360095003280 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360095003281 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 360095003282 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 360095003283 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 360095003284 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360095003285 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360095003286 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 360095003287 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 360095003288 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360095003289 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360095003290 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 360095003291 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 360095003292 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 360095003293 Walker A motif; other site 360095003294 ATP binding site [chemical binding]; other site 360095003295 Walker B motif; other site 360095003296 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 360095003297 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360095003298 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 360095003299 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 360095003300 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 360095003301 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360095003302 flagellar motor protein MotA; Validated; Region: PRK09110 360095003303 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 360095003304 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 360095003305 flagellar motor switch protein FliN; Region: fliN; TIGR02480 360095003306 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360095003307 FliG C-terminal domain; Region: FliG_C; pfam01706 360095003308 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360095003309 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360095003310 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 360095003311 Rod binding protein; Region: Rod-binding; pfam10135 360095003312 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK12780 360095003313 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 360095003314 FHIPEP family; Region: FHIPEP; pfam00771 360095003315 Putative phosphatase (DUF442); Region: DUF442; cl17385 360095003316 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360095003317 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 360095003318 active site 360095003319 Riboflavin kinase; Region: Flavokinase; smart00904 360095003320 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 360095003321 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 360095003322 active site 360095003323 motif I; other site 360095003324 motif II; other site 360095003325 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 360095003326 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 360095003327 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 360095003328 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 360095003329 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360095003330 active site 360095003331 HIGH motif; other site 360095003332 dimer interface [polypeptide binding]; other site 360095003333 KMSKS motif; other site 360095003334 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 360095003335 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 360095003336 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 360095003337 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 360095003338 ring oligomerisation interface [polypeptide binding]; other site 360095003339 ATP/Mg binding site [chemical binding]; other site 360095003340 stacking interactions; other site 360095003341 hinge regions; other site 360095003342 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 360095003343 oligomerisation interface [polypeptide binding]; other site 360095003344 mobile loop; other site 360095003345 roof hairpin; other site 360095003346 fumarate hydratase; Reviewed; Region: fumC; PRK00485 360095003347 Class II fumarases; Region: Fumarase_classII; cd01362 360095003348 active site 360095003349 tetramer interface [polypeptide binding]; other site 360095003350 phosphoglucomutase; Region: PLN02307 360095003351 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 360095003352 active site 360095003353 substrate binding site [chemical binding]; other site 360095003354 metal binding site [ion binding]; metal-binding site 360095003355 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 360095003356 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360095003357 catalytic triad [active] 360095003358 dimer interface [polypeptide binding]; other site 360095003359 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360095003360 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 360095003361 dimer interface [polypeptide binding]; other site 360095003362 motif 1; other site 360095003363 motif 2; other site 360095003364 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 360095003365 active site 360095003366 motif 3; other site 360095003367 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 360095003368 anticodon binding site; other site 360095003369 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003370 S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic...; Region: S15_NS1_EPRS_RNA-bind; cl00349 360095003371 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003372 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003373 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 360095003374 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360095003375 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 360095003376 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 360095003377 BioY family; Region: BioY; pfam02632 360095003378 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 360095003379 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360095003380 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 360095003381 Walker A/P-loop; other site 360095003382 ATP binding site [chemical binding]; other site 360095003383 Q-loop/lid; other site 360095003384 ABC transporter signature motif; other site 360095003385 Walker B; other site 360095003386 D-loop; other site 360095003387 H-loop/switch region; other site 360095003388 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 360095003389 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 360095003390 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 360095003391 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360095003392 trimer interface [polypeptide binding]; other site 360095003393 active site 360095003394 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 360095003395 trimer interface [polypeptide binding]; other site 360095003396 active site 360095003397 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 360095003398 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 360095003399 ATP binding site [chemical binding]; other site 360095003400 Mg2+ binding site [ion binding]; other site 360095003401 G-X-G motif; other site 360095003402 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 360095003403 ATP binding site [chemical binding]; other site 360095003404 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 360095003405 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 360095003406 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 360095003407 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 360095003408 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 360095003409 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360095003410 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 360095003411 putative acyl-acceptor binding pocket; other site 360095003412 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 360095003413 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 360095003414 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 360095003415 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 360095003416 S-adenosylmethionine binding site [chemical binding]; other site 360095003417 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360095003418 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 360095003419 RNA binding surface [nucleotide binding]; other site 360095003420 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360095003421 active site 360095003422 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 360095003423 nucleoside/Zn binding site; other site 360095003424 dimer interface [polypeptide binding]; other site 360095003425 catalytic motif [active] 360095003426 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 360095003427 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360095003428 active site 360095003429 HIGH motif; other site 360095003430 nucleotide binding site [chemical binding]; other site 360095003431 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360095003432 active site 360095003433 KMSKS motif; other site 360095003434 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360095003435 tRNA binding surface [nucleotide binding]; other site 360095003436 anticodon binding site; other site 360095003437 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 360095003438 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 360095003439 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 360095003440 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 360095003441 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 360095003442 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 360095003443 catalytic site [active] 360095003444 putative active site [active] 360095003445 putative substrate binding site [chemical binding]; other site 360095003446 hypothetical protein; Validated; Region: PRK09104 360095003447 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 360095003448 metal binding site [ion binding]; metal-binding site 360095003449 putative dimer interface [polypeptide binding]; other site 360095003450 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 360095003451 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 360095003452 DNA binding site [nucleotide binding] 360095003453 catalytic residue [active] 360095003454 H2TH interface [polypeptide binding]; other site 360095003455 putative catalytic residues [active] 360095003456 turnover-facilitating residue; other site 360095003457 intercalation triad [nucleotide binding]; other site 360095003458 8OG recognition residue [nucleotide binding]; other site 360095003459 putative reading head residues; other site 360095003460 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 360095003461 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 360095003462 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 360095003463 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 360095003464 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 360095003465 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 360095003466 PhoU domain; Region: PhoU; pfam01895 360095003467 PhoU domain; Region: PhoU; pfam01895 360095003468 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 360095003469 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 360095003470 Walker A/P-loop; other site 360095003471 ATP binding site [chemical binding]; other site 360095003472 Q-loop/lid; other site 360095003473 ABC transporter signature motif; other site 360095003474 Walker B; other site 360095003475 D-loop; other site 360095003476 H-loop/switch region; other site 360095003477 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 360095003478 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 360095003479 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 360095003480 dimer interface [polypeptide binding]; other site 360095003481 conserved gate region; other site 360095003482 putative PBP binding loops; other site 360095003483 ABC-ATPase subunit interface; other site 360095003484 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 360095003485 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 360095003486 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 360095003487 dimer interface [polypeptide binding]; other site 360095003488 conserved gate region; other site 360095003489 putative PBP binding loops; other site 360095003490 ABC-ATPase subunit interface; other site 360095003491 PBP superfamily domain; Region: PBP_like_2; pfam12849 360095003492 glutathione synthetase; Provisional; Region: PRK05246 360095003493 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 360095003494 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 360095003495 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 360095003496 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 360095003497 ATP binding site [chemical binding]; other site 360095003498 substrate interface [chemical binding]; other site 360095003499 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360095003500 Cytochrome c2 [Energy production and conversion]; Region: COG3474 360095003501 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 360095003502 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360095003503 Ligand binding site; other site 360095003504 oligomer interface; other site 360095003505 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 360095003506 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 360095003507 Walker A motif; other site 360095003508 ATP binding site [chemical binding]; other site 360095003509 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360095003510 Walker B motif; other site 360095003511 arginine finger; other site 360095003512 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 360095003513 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 360095003514 hypothetical protein; Validated; Region: PRK00153 360095003515 recombination protein RecR; Reviewed; Region: recR; PRK00076 360095003516 RecR protein; Region: RecR; pfam02132 360095003517 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 360095003518 putative active site [active] 360095003519 putative metal-binding site [ion binding]; other site 360095003520 tetramer interface [polypeptide binding]; other site 360095003521 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 360095003522 Glycoprotease family; Region: Peptidase_M22; pfam00814 360095003523 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 360095003524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360095003525 Coenzyme A binding pocket [chemical binding]; other site 360095003526 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 360095003527 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360095003528 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 360095003529 FeS/SAM binding site; other site 360095003530 TRAM domain; Region: TRAM; cl01282 360095003531 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 360095003532 PhoH-like protein; Region: PhoH; pfam02562 360095003533 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 360095003534 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 360095003535 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 360095003536 Transporter associated domain; Region: CorC_HlyC; smart01091 360095003537 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 360095003538 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 360095003539 putative active site [active] 360095003540 catalytic triad [active] 360095003541 putative dimer interface [polypeptide binding]; other site 360095003542 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 360095003543 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 360095003544 non-specific DNA binding site [nucleotide binding]; other site 360095003545 salt bridge; other site 360095003546 sequence-specific DNA binding site [nucleotide binding]; other site 360095003547 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360095003548 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360095003549 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360095003550 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360095003551 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 360095003552 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 360095003553 Sm and related proteins; Region: Sm_like; cl00259 360095003554 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 360095003555 putative oligomer interface [polypeptide binding]; other site 360095003556 putative RNA binding site [nucleotide binding]; other site 360095003557 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 360095003558 NusA N-terminal domain; Region: NusA_N; pfam08529 360095003559 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 360095003560 RNA binding site [nucleotide binding]; other site 360095003561 homodimer interface [polypeptide binding]; other site 360095003562 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 360095003563 G-X-X-G motif; other site 360095003564 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 360095003565 G-X-X-G motif; other site 360095003566 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 360095003567 hypothetical protein; Provisional; Region: PRK09190 360095003568 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 360095003569 putative RNA binding cleft [nucleotide binding]; other site 360095003570 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 360095003571 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 360095003572 translation initiation factor IF-2; Validated; Region: infB; PRK05306 360095003573 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360095003574 G1 box; other site 360095003575 putative GEF interaction site [polypeptide binding]; other site 360095003576 GTP/Mg2+ binding site [chemical binding]; other site 360095003577 Switch I region; other site 360095003578 G2 box; other site 360095003579 G3 box; other site 360095003580 Switch II region; other site 360095003581 G4 box; other site 360095003582 G5 box; other site 360095003583 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 360095003584 Translation-initiation factor 2; Region: IF-2; pfam11987 360095003585 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 360095003586 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 360095003587 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 360095003588 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 360095003589 RNA binding site [nucleotide binding]; other site 360095003590 active site 360095003591 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 360095003592 16S/18S rRNA binding site [nucleotide binding]; other site 360095003593 S13e-L30e interaction site [polypeptide binding]; other site 360095003594 25S rRNA binding site [nucleotide binding]; other site 360095003595 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360095003596 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 360095003597 RNase E interface [polypeptide binding]; other site 360095003598 trimer interface [polypeptide binding]; other site 360095003599 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360095003600 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360095003601 RNase E interface [polypeptide binding]; other site 360095003602 trimer interface [polypeptide binding]; other site 360095003603 active site 360095003604 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 360095003605 putative nucleic acid binding region [nucleotide binding]; other site 360095003606 G-X-X-G motif; other site 360095003607 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 360095003608 RNA binding site [nucleotide binding]; other site 360095003609 domain interface; other site 360095003610 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 360095003611 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 360095003612 S-adenosylmethionine binding site [chemical binding]; other site 360095003613 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 360095003614 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 360095003615 Walker A motif; other site 360095003616 ATP binding site [chemical binding]; other site 360095003617 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 360095003618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360095003619 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 360095003620 active site 360095003621 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360095003622 active site 360095003623 homotetramer interface [polypeptide binding]; other site 360095003624 homodimer interface [polypeptide binding]; other site 360095003625 pantothenate kinase; Provisional; Region: PRK05439 360095003626 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 360095003627 ATP-binding site [chemical binding]; other site 360095003628 CoA-binding site [chemical binding]; other site 360095003629 Mg2+-binding site [ion binding]; other site 360095003630 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 360095003631 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 360095003632 interface (dimer of trimers) [polypeptide binding]; other site 360095003633 Substrate-binding/catalytic site; other site 360095003634 Zn-binding sites [ion binding]; other site 360095003635 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 360095003636 NlpC/P60 family; Region: NLPC_P60; cl17555 360095003637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 360095003638 Bacterial SH3 domain; Region: SH3_4; pfam06347 360095003639 Bacterial SH3 domain; Region: SH3_4; pfam06347 360095003640 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360095003641 metal binding site 2 [ion binding]; metal-binding site 360095003642 putative DNA binding helix; other site 360095003643 metal binding site 1 [ion binding]; metal-binding site 360095003644 dimer interface [polypeptide binding]; other site 360095003645 structural Zn2+ binding site [ion binding]; other site 360095003646 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 360095003647 active site 1 [active] 360095003648 dimer interface [polypeptide binding]; other site 360095003649 active site 2 [active] 360095003650 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 360095003651 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 360095003652 dimer interface [polypeptide binding]; other site 360095003653 active site 360095003654 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 360095003655 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360095003656 NAD binding site [chemical binding]; other site 360095003657 homotetramer interface [polypeptide binding]; other site 360095003658 homodimer interface [polypeptide binding]; other site 360095003659 substrate binding site [chemical binding]; other site 360095003660 active site 360095003661 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 360095003662 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 360095003663 Subunit I/III interface [polypeptide binding]; other site 360095003664 Subunit III/IV interface [polypeptide binding]; other site 360095003665 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 360095003666 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 360095003667 D-pathway; other site 360095003668 Putative ubiquinol binding site [chemical binding]; other site 360095003669 Low-spin heme (heme b) binding site [chemical binding]; other site 360095003670 Putative water exit pathway; other site 360095003671 Binuclear center (heme o3/CuB) [ion binding]; other site 360095003672 K-pathway; other site 360095003673 Putative proton exit pathway; other site 360095003674 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 360095003675 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 360095003676 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 360095003677 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 360095003678 Dehydroquinase class II; Region: DHquinase_II; pfam01220 360095003679 trimer interface [polypeptide binding]; other site 360095003680 active site 360095003681 dimer interface [polypeptide binding]; other site 360095003682 recombination protein F; Reviewed; Region: recF; PRK00064 360095003683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095003684 Walker A/P-loop; other site 360095003685 ATP binding site [chemical binding]; other site 360095003686 Q-loop/lid; other site 360095003687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095003688 ABC transporter signature motif; other site 360095003689 Walker B; other site 360095003690 D-loop; other site 360095003691 H-loop/switch region; other site 360095003692 DNA polymerase III subunit beta; Validated; Region: PRK05643 360095003693 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 360095003694 putative DNA binding surface [nucleotide binding]; other site 360095003695 dimer interface [polypeptide binding]; other site 360095003696 beta-clamp/clamp loader binding surface; other site 360095003697 beta-clamp/translesion DNA polymerase binding surface; other site 360095003698 DnaA N-terminal domain; Region: DnaA_N; pfam11638 360095003699 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 360095003700 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 360095003701 Walker A motif; other site 360095003702 ATP binding site [chemical binding]; other site 360095003703 Walker B motif; other site 360095003704 arginine finger; other site 360095003705 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 360095003706 DnaA box-binding interface [nucleotide binding]; other site 360095003707 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 360095003708 aconitate hydratase; Validated; Region: PRK09277 360095003709 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 360095003710 substrate binding site [chemical binding]; other site 360095003711 ligand binding site [chemical binding]; other site 360095003712 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 360095003713 substrate binding site [chemical binding]; other site 360095003714 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 360095003715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095003716 Walker A/P-loop; other site 360095003717 ATP binding site [chemical binding]; other site 360095003718 Q-loop/lid; other site 360095003719 ABC transporter signature motif; other site 360095003720 Walker B; other site 360095003721 D-loop; other site 360095003722 H-loop/switch region; other site 360095003723 heme exporter protein CcmB; Region: ccmB; TIGR01190 360095003724 heme exporter protein CcmC; Region: ccmC; TIGR01191 360095003725 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 360095003726 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 360095003727 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360095003728 catalytic residues [active] 360095003729 central insert; other site 360095003730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 360095003731 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 360095003732 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 360095003733 inhibitor-cofactor binding pocket; inhibition site 360095003734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360095003735 catalytic residue [active] 360095003736 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360095003737 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360095003738 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360095003739 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 360095003740 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 360095003741 dimerization interface [polypeptide binding]; other site 360095003742 domain crossover interface; other site 360095003743 redox-dependent activation switch; other site 360095003744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 360095003745 Smr domain; Region: Smr; pfam01713 360095003746 Tim44-like domain; Region: Tim44; pfam04280 360095003747 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 360095003748 preprotein translocase subunit SecB; Validated; Region: PRK05751 360095003749 SecA binding site; other site 360095003750 Preprotein binding site; other site 360095003751 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 360095003752 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360095003753 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360095003754 putative NAD(P) binding site [chemical binding]; other site 360095003755 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 360095003756 MutS domain I; Region: MutS_I; pfam01624 360095003757 MutS domain II; Region: MutS_II; pfam05188 360095003758 MutS domain III; Region: MutS_III; pfam05192 360095003759 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 360095003760 Walker A/P-loop; other site 360095003761 ATP binding site [chemical binding]; other site 360095003762 Q-loop/lid; other site 360095003763 ABC transporter signature motif; other site 360095003764 Walker B; other site 360095003765 D-loop; other site 360095003766 H-loop/switch region; other site 360095003767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 360095003768 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 360095003769 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 360095003770 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 360095003771 hinge; other site 360095003772 active site 360095003773 cytidylate kinase; Provisional; Region: cmk; PRK00023 360095003774 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 360095003775 CMP-binding site; other site 360095003776 The sites determining sugar specificity; other site 360095003777 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360095003778 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 360095003779 RNA binding site [nucleotide binding]; other site 360095003780 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 360095003781 RNA binding site [nucleotide binding]; other site 360095003782 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 360095003783 RNA binding site [nucleotide binding]; other site 360095003784 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 360095003785 RNA binding site [nucleotide binding]; other site 360095003786 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 360095003787 RNA binding site [nucleotide binding]; other site 360095003788 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 360095003789 RNA binding site [nucleotide binding]; other site 360095003790 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 360095003791 Putative glucoamylase; Region: Glycoamylase; pfam10091 360095003792 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 360095003793 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 360095003794 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 360095003795 Protein of unknown function, DUF608; Region: DUF608; pfam04685 360095003796 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 360095003797 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 360095003798 active site 360095003799 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360095003800 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 360095003801 ABC-ATPase subunit interface; other site 360095003802 dimer interface [polypeptide binding]; other site 360095003803 putative PBP binding regions; other site 360095003804 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360095003805 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 360095003806 ABC-ATPase subunit interface; other site 360095003807 dimer interface [polypeptide binding]; other site 360095003808 putative PBP binding regions; other site 360095003809 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360095003810 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360095003811 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 360095003812 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 360095003813 metal binding site [ion binding]; metal-binding site 360095003814 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 360095003815 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 360095003816 putative tRNA-binding site [nucleotide binding]; other site 360095003817 B3/4 domain; Region: B3_4; pfam03483 360095003818 tRNA synthetase B5 domain; Region: B5; smart00874 360095003819 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 360095003820 dimer interface [polypeptide binding]; other site 360095003821 motif 1; other site 360095003822 motif 3; other site 360095003823 motif 2; other site 360095003824 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 360095003825 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 360095003826 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360095003827 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 360095003828 dimer interface [polypeptide binding]; other site 360095003829 motif 1; other site 360095003830 active site 360095003831 motif 2; other site 360095003832 motif 3; other site 360095003833 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360095003834 23S rRNA binding site [nucleotide binding]; other site 360095003835 L21 binding site [polypeptide binding]; other site 360095003836 L13 binding site [polypeptide binding]; other site 360095003837 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 360095003838 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 360095003839 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360095003840 minor groove reading motif; other site 360095003841 helix-hairpin-helix signature motif; other site 360095003842 substrate binding pocket [chemical binding]; other site 360095003843 active site 360095003844 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 360095003845 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 360095003846 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360095003847 catalytic residue [active] 360095003848 RmuC family; Region: RmuC; pfam02646 360095003849 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 360095003850 active site 360095003851 catalytic residues [active] 360095003852 metal binding site [ion binding]; metal-binding site 360095003853 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360095003854 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360095003855 putative active site [active] 360095003856 substrate binding site [chemical binding]; other site 360095003857 putative cosubstrate binding site; other site 360095003858 catalytic site [active] 360095003859 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360095003860 substrate binding site [chemical binding]; other site 360095003861 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360095003862 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 360095003863 dimerization interface 3.5A [polypeptide binding]; other site 360095003864 active site 360095003865 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 360095003866 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 360095003867 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 360095003868 trimer interface [polypeptide binding]; other site 360095003869 active site 360095003870 substrate binding site [chemical binding]; other site 360095003871 CoA binding site [chemical binding]; other site 360095003872 GTP-binding protein LepA; Provisional; Region: PRK05433 360095003873 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360095003874 G1 box; other site 360095003875 putative GEF interaction site [polypeptide binding]; other site 360095003876 GTP/Mg2+ binding site [chemical binding]; other site 360095003877 Switch I region; other site 360095003878 G2 box; other site 360095003879 G3 box; other site 360095003880 Switch II region; other site 360095003881 G4 box; other site 360095003882 G5 box; other site 360095003883 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 360095003884 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 360095003885 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360095003886 EamA-like transporter family; Region: EamA; pfam00892 360095003887 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360095003888 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 360095003889 homohexameric interface [polypeptide binding]; other site 360095003890 feedback inhibition sensing region; other site 360095003891 nucleotide binding site [chemical binding]; other site 360095003892 N-acetyl-L-glutamate binding site [chemical binding]; other site 360095003893 chaperone protein DnaJ; Provisional; Region: PRK10767 360095003894 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 360095003895 HSP70 interaction site [polypeptide binding]; other site 360095003896 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360095003897 substrate binding site [polypeptide binding]; other site 360095003898 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360095003899 Zn binding sites [ion binding]; other site 360095003900 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360095003901 dimer interface [polypeptide binding]; other site 360095003902 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360095003903 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 360095003904 nucleotide binding site [chemical binding]; other site 360095003905 NEF interaction site [polypeptide binding]; other site 360095003906 SBD interface [polypeptide binding]; other site 360095003907 Protein of unknown function (DUF461); Region: DUF461; pfam04314 360095003908 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360095003909 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 360095003910 active site 360095003911 phosphorylation site [posttranslational modification] 360095003912 intermolecular recognition site; other site 360095003913 dimerization interface [polypeptide binding]; other site 360095003914 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 360095003915 DNA binding site [nucleotide binding] 360095003916 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 360095003917 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 360095003918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360095003919 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 360095003920 dimerization interface [polypeptide binding]; other site 360095003921 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 360095003922 dimer interface [polypeptide binding]; other site 360095003923 phosphorylation site [posttranslational modification] 360095003924 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 360095003925 ATP binding site [chemical binding]; other site 360095003926 Mg2+ binding site [ion binding]; other site 360095003927 G-X-G motif; other site 360095003928 heat shock protein GrpE; Provisional; Region: PRK14141 360095003929 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 360095003930 dimer interface [polypeptide binding]; other site 360095003931 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360095003932 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 360095003933 active site 360095003934 dimerization interface [polypeptide binding]; other site 360095003935 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 360095003936 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 360095003937 FeS/SAM binding site; other site 360095003938 HemN C-terminal domain; Region: HemN_C; pfam06969 360095003939 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 360095003940 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360095003941 metal binding site [ion binding]; metal-binding site 360095003942 dimer interface [polypeptide binding]; other site 360095003943 Protein of unknown function DUF45; Region: DUF45; pfam01863 360095003944 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360095003945 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 360095003946 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360095003947 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360095003948 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360095003949 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360095003950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360095003951 Walker A/P-loop; other site 360095003952 ATP binding site [chemical binding]; other site 360095003953 Q-loop/lid; other site 360095003954 ABC transporter signature motif; other site 360095003955 Walker B; other site 360095003956 D-loop; other site 360095003957 H-loop/switch region; other site 360095003958 Family of unknown function (DUF490); Region: DUF490; pfam04357 360095003959 Family of unknown function (DUF490); Region: DUF490; pfam04357 360095003960 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 360095003961 Surface antigen; Region: Bac_surface_Ag; pfam01103 360095003962 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360095003963 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360095003964 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 360095003965 Walker A motif; other site 360095003966 ATP binding site [chemical binding]; other site 360095003967 Walker B motif; other site 360095003968 arginine finger; other site 360095003969 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360095003970 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 360095003971 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 360095003972 Mg2+ binding site [ion binding]; other site 360095003973 G-X-G motif; other site 360095003974 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 360095003975 anchoring element; other site 360095003976 dimer interface [polypeptide binding]; other site 360095003977 ATP binding site [chemical binding]; other site 360095003978 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 360095003979 active site 360095003980 putative metal-binding site [ion binding]; other site 360095003981 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360095003982 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 360095003983 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 360095003984 S-adenosylmethionine binding site [chemical binding]; other site 360095003985 ABC1 family; Region: ABC1; cl17513 360095003986 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 360095003987 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 360095003988 Flavoprotein; Region: Flavoprotein; pfam02441 360095003989 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 360095003990 CysZ-like protein; Reviewed; Region: PRK12768 360095003991 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 360095003992 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 360095003993 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 360095003994 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 360095003995 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 360095003996 putative NAD(P) binding site [chemical binding]; other site 360095003997 active site 360095003998 PAS fold; Region: PAS_7; pfam12860 360095003999 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360095004000 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 360095004001 dimer interface [polypeptide binding]; other site 360095004002 phosphorylation site [posttranslational modification] 360095004003 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 360095004004 ATP binding site [chemical binding]; other site 360095004005 Mg2+ binding site [ion binding]; other site 360095004006 G-X-G motif; other site 360095004007 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 360095004008 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 360095004009 Phosphotransferase enzyme family; Region: APH; pfam01636 360095004010 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 360095004011 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 360095004012 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 360095004013 Part of AAA domain; Region: AAA_19; pfam13245 360095004014 Family description; Region: UvrD_C_2; pfam13538 360095004015 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360095004016 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 360095004017 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360095004018 catalytic residues [active] 360095004019 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 360095004020 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 360095004021 G1 box; other site 360095004022 putative GEF interaction site [polypeptide binding]; other site 360095004023 GTP/Mg2+ binding site [chemical binding]; other site 360095004024 Switch I region; other site 360095004025 G2 box; other site 360095004026 G3 box; other site 360095004027 Switch II region; other site 360095004028 G4 box; other site 360095004029 G5 box; other site 360095004030 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 360095004031 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 360095004032 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360095004033 active site 360095004034 nucleotide binding site [chemical binding]; other site 360095004035 HIGH motif; other site 360095004036 KMSKS motif; other site 360095004037 argininosuccinate synthase; Provisional; Region: PRK13820 360095004038 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 360095004039 ANP binding site [chemical binding]; other site 360095004040 Substrate Binding Site II [chemical binding]; other site 360095004041 Substrate Binding Site I [chemical binding]; other site 360095004042 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360095004043 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 360095004044 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 360095004045 FeS/SAM binding site; other site 360095004046 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 360095004047 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 360095004048 active site 360095004049 phosphorylation site [posttranslational modification] 360095004050 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360095004051 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 360095004052 Walker A/P-loop; other site 360095004053 ATP binding site [chemical binding]; other site 360095004054 Q-loop/lid; other site 360095004055 ABC transporter signature motif; other site 360095004056 Walker B; other site 360095004057 D-loop; other site 360095004058 H-loop/switch region; other site 360095004059 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 360095004060 OstA-like protein; Region: OstA; pfam03968 360095004061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 360095004062 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 360095004063 IHF dimer interface [polypeptide binding]; other site 360095004064 IHF - DNA interface [nucleotide binding]; other site 360095004065 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 360095004066 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 360095004067 S-adenosylmethionine binding site [chemical binding]; other site 360095004068 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 360095004069 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 360095004070 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360095004071 lipoprotein signal peptidase; Provisional; Region: PRK14795