-- dump date 20140620_035058 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1003202000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1003202000002 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 1003202000003 catalytic residues [active] 1003202000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1003202000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1003202000006 Walker A/P-loop; other site 1003202000007 ATP binding site [chemical binding]; other site 1003202000008 Q-loop/lid; other site 1003202000009 ABC transporter signature motif; other site 1003202000010 Walker B; other site 1003202000011 D-loop; other site 1003202000012 H-loop/switch region; other site 1003202000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1003202000014 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1003202000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1003202000016 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1003202000017 FAD binding pocket [chemical binding]; other site 1003202000018 conserved FAD binding motif [chemical binding]; other site 1003202000019 phosphate binding motif [ion binding]; other site 1003202000020 beta-alpha-beta structure motif; other site 1003202000021 NAD binding pocket [chemical binding]; other site 1003202000022 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1003202000023 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 1003202000024 active site 1003202000025 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 1003202000026 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1003202000027 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1003202000028 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 1003202000029 trimer interface [polypeptide binding]; other site 1003202000030 active site 1003202000031 UDP-GlcNAc binding site [chemical binding]; other site 1003202000032 lipid binding site [chemical binding]; lipid-binding site 1003202000033 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1003202000034 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 1003202000035 FMN binding site [chemical binding]; other site 1003202000036 active site 1003202000037 catalytic residues [active] 1003202000038 substrate binding site [chemical binding]; other site 1003202000039 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1003202000040 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1003202000041 NodB motif; other site 1003202000042 putative active site [active] 1003202000043 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1003202000044 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1003202000045 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 1003202000046 putative ligand binding site [chemical binding]; other site 1003202000047 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1003202000048 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1003202000049 active site 1003202000050 NTP binding site [chemical binding]; other site 1003202000051 metal binding triad [ion binding]; metal-binding site 1003202000052 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1003202000053 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1003202000054 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 1003202000055 active site 1003202000056 putative DNA-binding cleft [nucleotide binding]; other site 1003202000057 dimer interface [polypeptide binding]; other site 1003202000058 GTPase [General function prediction only]; Region: Era; COG1159 1003202000059 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1003202000060 G1 box; other site 1003202000061 GTP/Mg2+ binding site [chemical binding]; other site 1003202000062 Switch I region; other site 1003202000063 G2 box; other site 1003202000064 Switch II region; other site 1003202000065 G3 box; other site 1003202000066 G4 box; other site 1003202000067 G5 box; other site 1003202000068 KH domain; Region: KH_2; pfam07650 1003202000069 ribonuclease III; Reviewed; Region: rnc; PRK00102 1003202000070 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 1003202000071 dimerization interface [polypeptide binding]; other site 1003202000072 active site 1003202000073 metal binding site [ion binding]; metal-binding site 1003202000074 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 1003202000075 dsRNA binding site [nucleotide binding]; other site 1003202000076 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1003202000077 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 1003202000078 Catalytic site [active] 1003202000079 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 1003202000080 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1003202000081 SLBB domain; Region: SLBB; pfam10531 1003202000082 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1003202000083 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1003202000084 Protein export membrane protein; Region: SecD_SecF; pfam02355 1003202000085 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 1003202000086 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1003202000087 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1003202000088 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1003202000089 propionate/acetate kinase; Provisional; Region: PRK12379 1003202000090 phosphate acetyltransferase; Provisional; Region: PRK11890 1003202000091 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1003202000092 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1003202000093 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1003202000094 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1003202000095 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1003202000096 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1003202000097 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1003202000098 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1003202000099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202000100 Walker A/P-loop; other site 1003202000101 ATP binding site [chemical binding]; other site 1003202000102 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1003202000103 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1003202000104 G1 box; other site 1003202000105 GTP/Mg2+ binding site [chemical binding]; other site 1003202000106 Switch I region; other site 1003202000107 G2 box; other site 1003202000108 G3 box; other site 1003202000109 Switch II region; other site 1003202000110 G4 box; other site 1003202000111 G5 box; other site 1003202000112 50S ribosomal protein L31; Provisional; Region: PRK01397 1003202000113 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1003202000114 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1003202000115 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1003202000116 Walker A/P-loop; other site 1003202000117 ATP binding site [chemical binding]; other site 1003202000118 Q-loop/lid; other site 1003202000119 ABC transporter signature motif; other site 1003202000120 Walker B; other site 1003202000121 D-loop; other site 1003202000122 H-loop/switch region; other site 1003202000123 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1003202000124 Permease; Region: Permease; pfam02405 1003202000125 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1003202000126 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1003202000127 active site 1003202000128 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1003202000129 dimer interface [polypeptide binding]; other site 1003202000130 substrate binding site [chemical binding]; other site 1003202000131 catalytic residues [active] 1003202000132 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1003202000133 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1003202000134 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1003202000135 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1003202000136 S-adenosylmethionine binding site [chemical binding]; other site 1003202000137 aspartate aminotransferase; Provisional; Region: PRK05764 1003202000138 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 1003202000139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1003202000140 homodimer interface [polypeptide binding]; other site 1003202000141 catalytic residue [active] 1003202000142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1003202000143 putative acyl-acceptor binding pocket; other site 1003202000144 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1003202000145 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1003202000146 elongation factor Ts; Provisional; Region: tsf; PRK09377 1003202000147 UBA/TS-N domain; Region: UBA; pfam00627 1003202000148 Elongation factor TS; Region: EF_TS; pfam00889 1003202000149 Elongation factor TS; Region: EF_TS; pfam00889 1003202000150 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 1003202000151 rRNA interaction site [nucleotide binding]; other site 1003202000152 S8 interaction site; other site 1003202000153 putative laminin-1 binding site; other site 1003202000154 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1003202000155 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1003202000156 active site 1003202000157 HIGH motif; other site 1003202000158 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1003202000159 KMSKS motif; other site 1003202000160 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1003202000161 tRNA binding surface [nucleotide binding]; other site 1003202000162 anticodon binding site; other site 1003202000163 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1003202000164 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 1003202000165 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202000166 putative substrate translocation pore; other site 1003202000167 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1003202000168 EamA-like transporter family; Region: EamA; pfam00892 1003202000169 EamA-like transporter family; Region: EamA; pfam00892 1003202000170 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1003202000171 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1003202000172 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1003202000173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1003202000174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1003202000175 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1003202000176 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1003202000177 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1003202000178 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 1003202000179 active site 1003202000180 phosphorylation site [posttranslational modification] 1003202000181 intermolecular recognition site; other site 1003202000182 dimerization interface [polypeptide binding]; other site 1003202000183 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 1003202000184 DNA binding site [nucleotide binding] 1003202000185 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1003202000186 SecA binding site; other site 1003202000187 Preprotein binding site; other site 1003202000188 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1003202000189 trimer interface [polypeptide binding]; other site 1003202000190 active site 1003202000191 Gram-negative porin; Region: Porin_4; pfam13609 1003202000192 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1003202000193 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 1003202000194 CAP-like domain; other site 1003202000195 active site 1003202000196 primary dimer interface [polypeptide binding]; other site 1003202000197 Sporulation related domain; Region: SPOR; pfam05036 1003202000198 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1003202000199 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1003202000200 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1003202000201 active site 1003202000202 HIGH motif; other site 1003202000203 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1003202000204 KMSK motif region; other site 1003202000205 tRNA binding surface [nucleotide binding]; other site 1003202000206 DALR anticodon binding domain; Region: DALR_1; smart00836 1003202000207 anticodon binding site; other site 1003202000208 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1003202000209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1003202000210 Zn2+ binding site [ion binding]; other site 1003202000211 Mg2+ binding site [ion binding]; other site 1003202000212 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1003202000213 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1003202000214 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1003202000215 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1003202000216 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1003202000217 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1003202000218 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1003202000219 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1003202000220 ABC transporter; Region: ABC_tran_2; pfam12848 1003202000221 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1003202000222 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1003202000223 ParB-like nuclease domain; Region: ParBc; pfam02195 1003202000224 KorB domain; Region: KorB; pfam08535 1003202000225 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1003202000226 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1003202000227 P loop; other site 1003202000228 Nucleotide binding site [chemical binding]; other site 1003202000229 DTAP/Switch II; other site 1003202000230 Switch I; other site 1003202000231 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 1003202000232 Magnesium ion binding site [ion binding]; other site 1003202000233 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1003202000234 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1003202000235 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1003202000236 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1003202000237 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1003202000238 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 1003202000239 active site 1003202000240 multimer interface [polypeptide binding]; other site 1003202000241 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1003202000242 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 1003202000243 putative substrate translocation pore; other site 1003202000244 TLC ATP/ADP transporter; Region: TLC; pfam03219 1003202000245 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1003202000246 membrane protein insertase; Provisional; Region: PRK01318 1003202000247 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1003202000248 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1003202000249 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1003202000250 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1003202000251 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1003202000252 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1003202000253 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1003202000254 FtsH Extracellular; Region: FtsH_ext; pfam06480 1003202000255 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1003202000256 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 1003202000257 Walker A motif; other site 1003202000258 ATP binding site [chemical binding]; other site 1003202000259 Walker B motif; other site 1003202000260 arginine finger; other site 1003202000261 Peptidase family M41; Region: Peptidase_M41; pfam01434 1003202000262 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1003202000263 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 1003202000264 Ligand Binding Site [chemical binding]; other site 1003202000265 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1003202000266 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1003202000267 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1003202000268 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1003202000269 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1003202000270 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1003202000271 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1003202000272 Di-iron ligands [ion binding]; other site 1003202000273 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1003202000274 UGMP family protein; Validated; Region: PRK09604 1003202000275 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1003202000276 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1003202000277 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1003202000278 Clp amino terminal domain; Region: Clp_N; pfam02861 1003202000279 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 1003202000280 Walker A motif; other site 1003202000281 ATP binding site [chemical binding]; other site 1003202000282 Walker B motif; other site 1003202000283 arginine finger; other site 1003202000284 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 1003202000285 Walker A motif; other site 1003202000286 ATP binding site [chemical binding]; other site 1003202000287 Walker B motif; other site 1003202000288 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1003202000289 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1003202000290 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1003202000291 NAD(P) binding site [chemical binding]; other site 1003202000292 homotetramer interface [polypeptide binding]; other site 1003202000293 homodimer interface [polypeptide binding]; other site 1003202000294 active site 1003202000295 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1003202000296 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1003202000297 Colicin V production protein; Region: Colicin_V; pfam02674 1003202000298 Putative transcriptional regulator [Transcription]; Region: COG1678 1003202000299 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1003202000300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202000301 Walker A/P-loop; other site 1003202000302 ATP binding site [chemical binding]; other site 1003202000303 Q-loop/lid; other site 1003202000304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202000305 ABC transporter signature motif; other site 1003202000306 Walker B; other site 1003202000307 D-loop; other site 1003202000308 H-loop/switch region; other site 1003202000309 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1003202000310 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 1003202000311 S-adenosylmethionine binding site [chemical binding]; other site 1003202000312 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1003202000313 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1003202000314 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1003202000315 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1003202000316 catalytic residues [active] 1003202000317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1003202000318 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1003202000319 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1003202000320 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1003202000321 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1003202000322 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1003202000323 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1003202000324 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1003202000325 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1003202000326 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1003202000327 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1003202000328 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 1003202000329 Walker A motif; other site 1003202000330 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 1003202000331 HflK protein; Region: hflK; TIGR01933 1003202000332 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1003202000333 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 1003202000334 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1003202000335 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1003202000336 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 1003202000337 protein binding site [polypeptide binding]; other site 1003202000338 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 1003202000339 protein binding site [polypeptide binding]; other site 1003202000340 hypothetical protein; Validated; Region: PRK01415 1003202000341 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1003202000342 active site residue [active] 1003202000343 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 1003202000344 Iron-sulfur protein interface; other site 1003202000345 proximal quinone binding site [chemical binding]; other site 1003202000346 SdhD (CybS) interface [polypeptide binding]; other site 1003202000347 proximal heme binding site [chemical binding]; other site 1003202000348 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 1003202000349 putative SdhC subunit interface [polypeptide binding]; other site 1003202000350 putative proximal heme binding site [chemical binding]; other site 1003202000351 putative Iron-sulfur protein interface [polypeptide binding]; other site 1003202000352 putative proximal quinone binding site; other site 1003202000353 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1003202000354 L-aspartate oxidase; Provisional; Region: PRK06175 1003202000355 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1003202000356 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1003202000357 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 1003202000358 dimer interface [polypeptide binding]; other site 1003202000359 conserved gate region; other site 1003202000360 putative PBP binding loops; other site 1003202000361 ABC-ATPase subunit interface; other site 1003202000362 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 1003202000363 S17 interaction site [polypeptide binding]; other site 1003202000364 S8 interaction site; other site 1003202000365 16S rRNA interaction site [nucleotide binding]; other site 1003202000366 streptomycin interaction site [chemical binding]; other site 1003202000367 23S rRNA interaction site [nucleotide binding]; other site 1003202000368 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1003202000369 30S ribosomal protein S7; Validated; Region: PRK05302 1003202000370 elongation factor G; Reviewed; Region: PRK00007 1003202000371 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1003202000372 G1 box; other site 1003202000373 putative GEF interaction site [polypeptide binding]; other site 1003202000374 GTP/Mg2+ binding site [chemical binding]; other site 1003202000375 Switch I region; other site 1003202000376 G2 box; other site 1003202000377 G3 box; other site 1003202000378 Switch II region; other site 1003202000379 G4 box; other site 1003202000380 G5 box; other site 1003202000381 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 1003202000382 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 1003202000383 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 1003202000384 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1003202000385 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1003202000386 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1003202000387 putative homodimer interface [polypeptide binding]; other site 1003202000388 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1003202000389 heterodimer interface [polypeptide binding]; other site 1003202000390 homodimer interface [polypeptide binding]; other site 1003202000391 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1003202000392 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 1003202000393 23S rRNA interface [nucleotide binding]; other site 1003202000394 putative thiostrepton binding site; other site 1003202000395 L7/L12 interface [polypeptide binding]; other site 1003202000396 L25 interface [polypeptide binding]; other site 1003202000397 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 1003202000398 mRNA/rRNA interface [nucleotide binding]; other site 1003202000399 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 1003202000400 23S rRNA interface [nucleotide binding]; other site 1003202000401 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1003202000402 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 1003202000403 core dimer interface [polypeptide binding]; other site 1003202000404 peripheral dimer interface [polypeptide binding]; other site 1003202000405 L10 interface [polypeptide binding]; other site 1003202000406 L11 interface [polypeptide binding]; other site 1003202000407 putative EF-Tu interaction site [polypeptide binding]; other site 1003202000408 putative EF-G interaction site [polypeptide binding]; other site 1003202000409 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 1003202000410 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1003202000411 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 1003202000412 RPB11 interaction site [polypeptide binding]; other site 1003202000413 RPB12 interaction site [polypeptide binding]; other site 1003202000414 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 1003202000415 RPB3 interaction site [polypeptide binding]; other site 1003202000416 RPB1 interaction site [polypeptide binding]; other site 1003202000417 RPB11 interaction site [polypeptide binding]; other site 1003202000418 RPB10 interaction site [polypeptide binding]; other site 1003202000419 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1003202000420 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1003202000421 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1003202000422 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1003202000423 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1003202000424 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1003202000425 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1003202000426 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 1003202000427 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1003202000428 DNA binding site [nucleotide binding] 1003202000429 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1003202000430 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1003202000431 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 1003202000432 interface (dimer of trimers) [polypeptide binding]; other site 1003202000433 Substrate-binding/catalytic site; other site 1003202000434 Zn-binding sites [ion binding]; other site 1003202000435 ATPase MipZ; Region: MipZ; pfam09140 1003202000436 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 1003202000437 P-loop; other site 1003202000438 Magnesium ion binding site [ion binding]; other site 1003202000439 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 1003202000440 Magnesium ion binding site [ion binding]; other site 1003202000441 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1003202000442 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1003202000443 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 1003202000444 dimer interface [polypeptide binding]; other site 1003202000445 anticodon binding site; other site 1003202000446 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 1003202000447 homodimer interface [polypeptide binding]; other site 1003202000448 motif 1; other site 1003202000449 active site 1003202000450 motif 2; other site 1003202000451 GAD domain; Region: GAD; pfam02938 1003202000452 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 1003202000453 active site 1003202000454 motif 3; other site 1003202000455 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1003202000456 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1003202000457 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1003202000458 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1003202000459 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1003202000460 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1003202000461 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1003202000462 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 1003202000463 substrate binding pocket [chemical binding]; other site 1003202000464 membrane-bound complex binding site; other site 1003202000465 hinge residues; other site 1003202000466 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1003202000467 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1003202000468 GatB domain; Region: GatB_Yqey; smart00845 1003202000469 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1003202000470 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1003202000471 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 1003202000472 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1003202000473 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 1003202000474 hinge region; other site 1003202000475 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 1003202000476 putative nucleotide binding site [chemical binding]; other site 1003202000477 uridine monophosphate binding site [chemical binding]; other site 1003202000478 homohexameric interface [polypeptide binding]; other site 1003202000479 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1003202000480 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1003202000481 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 1003202000482 putative substrate translocation pore; other site 1003202000483 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 1003202000484 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1003202000485 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1003202000486 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1003202000487 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1003202000488 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1003202000489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1003202000490 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1003202000491 Surface antigen; Region: Bac_surface_Ag; pfam01103 1003202000492 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1003202000493 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1003202000494 active site 1003202000495 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1003202000496 protein binding site [polypeptide binding]; other site 1003202000497 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1003202000498 putative substrate binding region [chemical binding]; other site 1003202000499 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1003202000500 putative RNA binding site [nucleotide binding]; other site 1003202000501 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1003202000502 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 1003202000503 S-adenosylmethionine binding site [chemical binding]; other site 1003202000504 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1003202000505 putative coenzyme Q binding site [chemical binding]; other site 1003202000506 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1003202000507 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1003202000508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1003202000509 RNA methyltransferase, RsmE family; Region: TIGR00046 1003202000510 Domain of unknown function (DUF378); Region: DUF378; cl00943 1003202000511 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1003202000512 Protein export membrane protein; Region: SecD_SecF; cl14618 1003202000513 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 1003202000514 IHF dimer interface [polypeptide binding]; other site 1003202000515 IHF - DNA interface [nucleotide binding]; other site 1003202000516 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1003202000517 signal recognition particle protein; Provisional; Region: PRK10867 1003202000518 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1003202000519 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1003202000520 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1003202000521 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1003202000522 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1003202000523 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1003202000524 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 1003202000525 FeS/SAM binding site; other site 1003202000526 HemN C-terminal domain; Region: HemN_C; pfam06969 1003202000527 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1003202000528 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1003202000529 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1003202000530 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1003202000531 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1003202000532 active site 1003202000533 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1003202000534 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 1003202000535 E3 interaction surface; other site 1003202000536 lipoyl attachment site [posttranslational modification]; other site 1003202000537 e3 binding domain; Region: E3_binding; pfam02817 1003202000538 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1003202000539 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1003202000540 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 1003202000541 TPP-binding site [chemical binding]; other site 1003202000542 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1003202000543 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1003202000544 Zn binding site [ion binding]; other site 1003202000545 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1003202000546 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1003202000547 Walker A/P-loop; other site 1003202000548 ATP binding site [chemical binding]; other site 1003202000549 Q-loop/lid; other site 1003202000550 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1003202000551 ABC transporter signature motif; other site 1003202000552 Walker B; other site 1003202000553 D-loop; other site 1003202000554 H-loop/switch region; other site 1003202000555 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1003202000556 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1003202000557 chaperone protein DnaJ; Provisional; Region: PRK14300 1003202000558 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 1003202000559 HSP70 interaction site [polypeptide binding]; other site 1003202000560 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1003202000561 substrate binding site [polypeptide binding]; other site 1003202000562 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1003202000563 Zn binding sites [ion binding]; other site 1003202000564 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1003202000565 dimer interface [polypeptide binding]; other site 1003202000566 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1003202000567 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1003202000568 nucleotide binding site [chemical binding]; other site 1003202000569 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1003202000570 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1003202000571 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 1003202000572 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1003202000573 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1003202000574 diiron binding motif [ion binding]; other site 1003202000575 potential frameshift: common BLAST hit: gi|15604065|ref|NP_220580.1| cytochrome C oxidase polypeptide III (coxC) 1003202000576 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1003202000577 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1003202000578 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 1003202000579 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 1003202000580 trimer interface [polypeptide binding]; other site 1003202000581 active site 1003202000582 substrate binding site [chemical binding]; other site 1003202000583 CoA binding site [chemical binding]; other site 1003202000584 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1003202000585 Transglycosylase; Region: Transgly; pfam00912 1003202000586 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1003202000587 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1003202000588 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 1003202000589 Ligand Binding Site [chemical binding]; other site 1003202000590 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1003202000591 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1003202000592 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1003202000593 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 1003202000594 catalytic loop [active] 1003202000595 iron binding site [ion binding]; other site 1003202000596 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1003202000597 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1003202000598 nucleotide binding site [chemical binding]; other site 1003202000599 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1003202000600 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 1003202000601 HSP70 interaction site [polypeptide binding]; other site 1003202000602 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1003202000603 RNA/DNA hybrid binding site [nucleotide binding]; other site 1003202000604 active site 1003202000605 excinuclease ABC subunit B; Provisional; Region: PRK05298 1003202000606 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 1003202000607 ATP binding site [chemical binding]; other site 1003202000608 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 1003202000609 nucleotide binding region [chemical binding]; other site 1003202000610 ATP-binding site [chemical binding]; other site 1003202000611 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1003202000612 UvrB/uvrC motif; Region: UVR; pfam02151 1003202000613 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 1003202000614 GSH binding site [chemical binding]; other site 1003202000615 catalytic residues [active] 1003202000616 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1003202000617 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1003202000618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202000619 Walker A/P-loop; other site 1003202000620 ATP binding site [chemical binding]; other site 1003202000621 Q-loop/lid; other site 1003202000622 ABC transporter signature motif; other site 1003202000623 Walker B; other site 1003202000624 D-loop; other site 1003202000625 H-loop/switch region; other site 1003202000626 DNA gyrase subunit A; Validated; Region: PRK05560 1003202000627 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 1003202000628 CAP-like domain; other site 1003202000629 active site 1003202000630 primary dimer interface [polypeptide binding]; other site 1003202000631 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1003202000632 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1003202000633 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1003202000634 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1003202000635 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 1003202000636 active site 1003202000637 catalytic residues [active] 1003202000638 metal binding site [ion binding]; metal-binding site 1003202000639 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1003202000640 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1003202000641 putative active site [active] 1003202000642 substrate binding site [chemical binding]; other site 1003202000643 putative cosubstrate binding site; other site 1003202000644 catalytic site [active] 1003202000645 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1003202000646 substrate binding site [chemical binding]; other site 1003202000647 Predicted ATPase [General function prediction only]; Region: COG1485 1003202000648 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 1003202000649 Walker A motif; other site 1003202000650 ATP binding site [chemical binding]; other site 1003202000651 Walker B motif; other site 1003202000652 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1003202000653 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1003202000654 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1003202000655 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1003202000656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202000657 Walker A/P-loop; other site 1003202000658 ATP binding site [chemical binding]; other site 1003202000659 Q-loop/lid; other site 1003202000660 ABC transporter signature motif; other site 1003202000661 Walker B; other site 1003202000662 D-loop; other site 1003202000663 H-loop/switch region; other site 1003202000664 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1003202000665 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1003202000666 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1003202000667 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1003202000668 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1003202000669 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1003202000670 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1003202000671 putative metal binding site; other site 1003202000672 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1003202000673 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1003202000674 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1003202000675 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1003202000676 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1003202000677 ATP binding site [chemical binding]; other site 1003202000678 active site 1003202000679 substrate binding site [chemical binding]; other site 1003202000680 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1003202000681 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 1003202000682 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1003202000683 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 1003202000684 active site 1003202000685 dimer interface [polypeptide binding]; other site 1003202000686 motif 1; other site 1003202000687 motif 2; other site 1003202000688 motif 3; other site 1003202000689 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 1003202000690 anticodon binding site; other site 1003202000691 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1003202000692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1003202000693 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1003202000694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1003202000695 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1003202000696 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1003202000697 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1003202000698 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1003202000699 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 1003202000700 ATP binding site [chemical binding]; other site 1003202000701 Mg2+ binding site [ion binding]; other site 1003202000702 G-X-G motif; other site 1003202000703 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 1003202000704 anchoring element; other site 1003202000705 dimer interface [polypeptide binding]; other site 1003202000706 ATP binding site [chemical binding]; other site 1003202000707 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 1003202000708 active site 1003202000709 metal binding site [ion binding]; metal-binding site 1003202000710 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1003202000711 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1003202000712 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1003202000713 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 1003202000714 protein binding site [polypeptide binding]; other site 1003202000715 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1003202000716 Catalytic dyad [active] 1003202000717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1003202000718 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 1003202000719 dimer interface [polypeptide binding]; other site 1003202000720 phosphorylation site [posttranslational modification] 1003202000721 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 1003202000722 ATP binding site [chemical binding]; other site 1003202000723 Mg2+ binding site [ion binding]; other site 1003202000724 G-X-G motif; other site 1003202000725 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1003202000726 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1003202000727 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1003202000728 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1003202000729 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1003202000730 Trp docking motif [polypeptide binding]; other site 1003202000731 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 1003202000732 23S rRNA interface [nucleotide binding]; other site 1003202000733 L3 interface [polypeptide binding]; other site 1003202000734 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1003202000735 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 1003202000736 putative active site [active] 1003202000737 Ap4A binding site [chemical binding]; other site 1003202000738 nudix motif; other site 1003202000739 putative metal binding site [ion binding]; other site 1003202000740 response regulator PleD; Reviewed; Region: pleD; PRK09581 1003202000741 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 1003202000742 active site 1003202000743 phosphorylation site [posttranslational modification] 1003202000744 intermolecular recognition site; other site 1003202000745 dimerization interface [polypeptide binding]; other site 1003202000746 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 1003202000747 active site 1003202000748 phosphorylation site [posttranslational modification] 1003202000749 intermolecular recognition site; other site 1003202000750 dimerization interface [polypeptide binding]; other site 1003202000751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1003202000752 metal binding site [ion binding]; metal-binding site 1003202000753 active site 1003202000754 I-site; other site 1003202000755 elongation factor P; Validated; Region: PRK00529 1003202000756 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1003202000757 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 1003202000758 RNA binding site [nucleotide binding]; other site 1003202000759 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 1003202000760 RNA binding site [nucleotide binding]; other site 1003202000761 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1003202000762 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1003202000763 active site 1003202000764 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1003202000765 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1003202000766 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1003202000767 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1003202000768 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1003202000769 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1003202000770 HlyD family secretion protein; Region: HlyD_3; pfam13437 1003202000771 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1003202000772 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 1003202000773 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1003202000774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1003202000775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1003202000776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1003202000777 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1003202000778 FAD binding domain; Region: FAD_binding_4; pfam01565 1003202000779 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1003202000780 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1003202000781 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1003202000782 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1003202000783 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1003202000784 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1003202000785 Cell division protein FtsQ; Region: FtsQ; pfam03799 1003202000786 cell division protein FtsA; Region: ftsA; TIGR01174 1003202000787 Cell division protein FtsA; Region: FtsA; smart00842 1003202000788 Cell division protein FtsA; Region: FtsA; pfam14450 1003202000789 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1003202000790 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1003202000791 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1003202000792 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1003202000793 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 1003202000794 RNA binding site [nucleotide binding]; other site 1003202000795 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 1003202000796 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1003202000797 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1003202000798 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 1003202000799 RNA binding surface [nucleotide binding]; other site 1003202000800 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1003202000801 active site 1003202000802 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1003202000803 Beta-lactamase; Region: Beta-lactamase; pfam00144 1003202000804 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 1003202000805 putative catalytic site [active] 1003202000806 putative phosphate binding site [ion binding]; other site 1003202000807 active site 1003202000808 metal binding site A [ion binding]; metal-binding site 1003202000809 DNA binding site [nucleotide binding] 1003202000810 putative AP binding site [nucleotide binding]; other site 1003202000811 putative metal binding site B [ion binding]; other site 1003202000812 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1003202000813 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 1003202000814 tetramer interface [polypeptide binding]; other site 1003202000815 TPP-binding site [chemical binding]; other site 1003202000816 heterodimer interface [polypeptide binding]; other site 1003202000817 phosphorylation loop region [posttranslational modification] 1003202000818 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1003202000819 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 1003202000820 alpha subunit interface [polypeptide binding]; other site 1003202000821 TPP binding site [chemical binding]; other site 1003202000822 heterodimer interface [polypeptide binding]; other site 1003202000823 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1003202000824 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1003202000825 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1003202000826 G1 box; other site 1003202000827 putative GEF interaction site [polypeptide binding]; other site 1003202000828 GTP/Mg2+ binding site [chemical binding]; other site 1003202000829 Switch I region; other site 1003202000830 G2 box; other site 1003202000831 G3 box; other site 1003202000832 Switch II region; other site 1003202000833 G4 box; other site 1003202000834 G5 box; other site 1003202000835 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 1003202000836 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 1003202000837 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1003202000838 isocitrate dehydrogenase; Validated; Region: PRK09222 1003202000839 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1003202000840 monovalent cation/proton antiporter, MnhG/PhaG subunit; Region: CPA3_mnhG_phaG; TIGR01300 1003202000841 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1003202000842 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1003202000843 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1003202000844 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1003202000845 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1003202000846 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1003202000847 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1003202000848 [2Fe-2S] cluster binding site [ion binding]; other site 1003202000849 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1003202000850 cytochrome b; Provisional; Region: CYTB; MTH00191 1003202000851 Qi binding site; other site 1003202000852 intrachain domain interface; other site 1003202000853 interchain domain interface [polypeptide binding]; other site 1003202000854 heme bH binding site [chemical binding]; other site 1003202000855 heme bL binding site [chemical binding]; other site 1003202000856 Qo binding site; other site 1003202000857 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1003202000858 interchain domain interface [polypeptide binding]; other site 1003202000859 intrachain domain interface; other site 1003202000860 Qi binding site; other site 1003202000861 Qo binding site; other site 1003202000862 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1003202000863 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1003202000864 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1003202000865 putative dimer interface [polypeptide binding]; other site 1003202000866 PCRF domain; Region: PCRF; pfam03462 1003202000867 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1003202000868 RF-1 domain; Region: RF-1; pfam00472 1003202000869 GTP-binding protein LepA; Provisional; Region: PRK05433 1003202000870 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1003202000871 G1 box; other site 1003202000872 putative GEF interaction site [polypeptide binding]; other site 1003202000873 GTP/Mg2+ binding site [chemical binding]; other site 1003202000874 Switch I region; other site 1003202000875 G2 box; other site 1003202000876 G3 box; other site 1003202000877 Switch II region; other site 1003202000878 G4 box; other site 1003202000879 G5 box; other site 1003202000880 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 1003202000881 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 1003202000882 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1003202000883 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1003202000884 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1003202000885 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1003202000886 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1003202000887 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1003202000888 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1003202000889 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1003202000890 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 1003202000891 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1003202000892 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1003202000893 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1003202000894 VirB7 interaction site; other site 1003202000895 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1003202000896 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1003202000897 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1003202000898 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1003202000899 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1003202000900 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1003202000901 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1003202000902 Walker A motif; other site 1003202000903 hexamer interface [polypeptide binding]; other site 1003202000904 ATP binding site [chemical binding]; other site 1003202000905 Walker B motif; other site 1003202000906 type IV secretion system component VirD4; Provisional; Region: PRK13897 1003202000907 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1003202000908 Walker A motif; other site 1003202000909 ATP binding site [chemical binding]; other site 1003202000910 Walker B motif; other site 1003202000911 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1003202000912 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1003202000913 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1003202000914 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1003202000915 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1003202000916 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1003202000917 active site 1003202000918 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1003202000919 MutS domain I; Region: MutS_I; pfam01624 1003202000920 MutS domain II; Region: MutS_II; pfam05188 1003202000921 MutS domain III; Region: MutS_III; pfam05192 1003202000922 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1003202000923 Walker A/P-loop; other site 1003202000924 ATP binding site [chemical binding]; other site 1003202000925 Q-loop/lid; other site 1003202000926 ABC transporter signature motif; other site 1003202000927 Walker B; other site 1003202000928 D-loop; other site 1003202000929 H-loop/switch region; other site 1003202000930 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1003202000931 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1003202000932 Peptidase family M23; Region: Peptidase_M23; pfam01551 1003202000933 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1003202000934 translocation protein TolB; Provisional; Region: tolB; PRK05137 1003202000935 TolB amino-terminal domain; Region: TolB_N; pfam04052 1003202000936 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1003202000937 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1003202000938 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1003202000939 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1003202000940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1003202000941 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 1003202000942 DNA binding residues [nucleotide binding] 1003202000943 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 1003202000944 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1003202000945 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 1003202000946 Ligand Binding Site [chemical binding]; other site 1003202000947 amino acid transporter; Region: 2A0306; TIGR00909 1003202000948 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1003202000949 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 1003202000950 dimer interface [polypeptide binding]; other site 1003202000951 motif 1; other site 1003202000952 active site 1003202000953 motif 2; other site 1003202000954 motif 3; other site 1003202000955 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 1003202000956 anticodon binding site; other site 1003202000957 TolQ protein; Region: tolQ; TIGR02796 1003202000958 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1003202000959 TolR protein; Region: tolR; TIGR02801 1003202000960 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1003202000961 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1003202000962 HD domain; Region: HD_4; pfam13328 1003202000963 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 1003202000964 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202000965 putative substrate translocation pore; other site 1003202000966 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1003202000967 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1003202000968 HlyD family secretion protein; Region: HlyD_3; pfam13437 1003202000969 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1003202000970 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1003202000971 Walker A/P-loop; other site 1003202000972 ATP binding site [chemical binding]; other site 1003202000973 Q-loop/lid; other site 1003202000974 ABC transporter signature motif; other site 1003202000975 Walker B; other site 1003202000976 D-loop; other site 1003202000977 H-loop/switch region; other site 1003202000978 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1003202000979 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1003202000980 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1003202000981 nucleotide binding site/active site [active] 1003202000982 HIT family signature motif; other site 1003202000983 catalytic residue [active] 1003202000984 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1003202000985 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1003202000986 active site 1003202000987 HslU subunit interaction site [polypeptide binding]; other site 1003202000988 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1003202000989 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 1003202000990 Walker A motif; other site 1003202000991 ATP binding site [chemical binding]; other site 1003202000992 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1003202000993 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1003202000994 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1003202000995 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1003202000996 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1003202000997 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1003202000998 dimerization interface [polypeptide binding]; other site 1003202000999 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1003202001000 putative iron binding site [ion binding]; other site 1003202001001 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1003202001002 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1003202001003 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1003202001004 active site 1003202001005 HIGH motif; other site 1003202001006 nucleotide binding site [chemical binding]; other site 1003202001007 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1003202001008 active site 1003202001009 KMSKS motif; other site 1003202001010 DNA topoisomerase I; Validated; Region: PRK06599 1003202001011 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 1003202001012 active site 1003202001013 interdomain interaction site; other site 1003202001014 putative metal-binding site [ion binding]; other site 1003202001015 nucleotide binding site [chemical binding]; other site 1003202001016 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 1003202001017 domain I; other site 1003202001018 DNA binding groove [nucleotide binding] 1003202001019 phosphate binding site [ion binding]; other site 1003202001020 domain II; other site 1003202001021 domain III; other site 1003202001022 nucleotide binding site [chemical binding]; other site 1003202001023 catalytic site [active] 1003202001024 domain IV; other site 1003202001025 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1003202001026 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1003202001027 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1003202001028 dimer interface [polypeptide binding]; other site 1003202001029 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1003202001030 catalytic triad [active] 1003202001031 peroxidatic and resolving cysteines [active] 1003202001032 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1003202001033 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1003202001034 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1003202001035 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1003202001036 Sulfatase; Region: Sulfatase; pfam00884 1003202001037 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1003202001038 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1003202001039 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1003202001040 NADP binding site [chemical binding]; other site 1003202001041 active site 1003202001042 putative substrate binding site [chemical binding]; other site 1003202001043 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1003202001044 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1003202001045 NAD(P) binding site [chemical binding]; other site 1003202001046 homodimer interface [polypeptide binding]; other site 1003202001047 substrate binding site [chemical binding]; other site 1003202001048 active site 1003202001049 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1003202001050 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1003202001051 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1003202001052 active site 1003202001053 homodimer interface [polypeptide binding]; other site 1003202001054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1003202001055 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 1003202001056 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1003202001057 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1003202001058 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1003202001059 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1003202001060 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1003202001061 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1003202001062 active site 1003202001063 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1003202001064 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1003202001065 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1003202001066 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1003202001067 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1003202001068 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1003202001069 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1003202001070 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1003202001071 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 1003202001072 putative ADP-binding pocket [chemical binding]; other site 1003202001073 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1003202001074 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1003202001075 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 1003202001076 RNA binding surface [nucleotide binding]; other site 1003202001077 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1003202001078 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1003202001079 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1003202001080 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1003202001081 RimM N-terminal domain; Region: RimM; pfam01782 1003202001082 PRC-barrel domain; Region: PRC; pfam05239 1003202001083 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1003202001084 exodeoxyribonuclease VII, small subunit; Region: xseB; TIGR01280 1003202001085 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1003202001086 active site 1003202001087 DNA binding site [nucleotide binding] 1003202001088 hypothetical protein; Provisional; Region: PRK14388 1003202001089 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1003202001090 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 1003202001091 putative dimer interface [polypeptide binding]; other site 1003202001092 [2Fe-2S] cluster binding site [ion binding]; other site 1003202001093 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1003202001094 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1003202001095 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1003202001096 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1003202001097 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1003202001098 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1003202001099 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1003202001100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1003202001101 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1003202001102 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 1003202001103 active site 1003202001104 DNA binding site [nucleotide binding] 1003202001105 Int/Topo IB signature motif; other site 1003202001106 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1003202001107 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1003202001108 NAD binding site [chemical binding]; other site 1003202001109 homotetramer interface [polypeptide binding]; other site 1003202001110 homodimer interface [polypeptide binding]; other site 1003202001111 substrate binding site [chemical binding]; other site 1003202001112 active site 1003202001113 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1003202001114 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1003202001115 putative active site [active] 1003202001116 catalytic triad [active] 1003202001117 putative dimer interface [polypeptide binding]; other site 1003202001118 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 1003202001119 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 1003202001120 TM-ABC transporter signature motif; other site 1003202001121 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1003202001122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202001123 Walker A/P-loop; other site 1003202001124 ATP binding site [chemical binding]; other site 1003202001125 Q-loop/lid; other site 1003202001126 ABC transporter signature motif; other site 1003202001127 Walker B; other site 1003202001128 D-loop; other site 1003202001129 H-loop/switch region; other site 1003202001130 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1003202001131 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1003202001132 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1003202001133 active site 1003202001134 HIGH motif; other site 1003202001135 KMSKS motif; other site 1003202001136 Predicted permeases [General function prediction only]; Region: COG0679 1003202001137 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1003202001138 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1003202001139 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1003202001140 putative NAD(P) binding site [chemical binding]; other site 1003202001141 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1003202001142 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor...; Region: Sec7; cd00171 1003202001143 active site/putative ARF binding site [active] 1003202001144 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 1003202001145 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202001146 putative substrate translocation pore; other site 1003202001147 malate dehydrogenase; Reviewed; Region: PRK06223 1003202001148 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1003202001149 NAD(P) binding site [chemical binding]; other site 1003202001150 dimer interface [polypeptide binding]; other site 1003202001151 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1003202001152 substrate binding site [chemical binding]; other site 1003202001153 TLC ATP/ADP transporter; Region: TLC; pfam03219 1003202001154 CTP synthetase; Validated; Region: pyrG; PRK05380 1003202001155 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 1003202001156 Catalytic site [active] 1003202001157 active site 1003202001158 UTP binding site [chemical binding]; other site 1003202001159 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1003202001160 active site 1003202001161 putative oxyanion hole; other site 1003202001162 catalytic triad [active] 1003202001163 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1003202001164 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1003202001165 Ligand binding site; other site 1003202001166 oligomer interface; other site 1003202001167 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1003202001168 GTP cyclohydrolase I; Provisional; Region: PLN03044 1003202001169 active site 1003202001170 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1003202001171 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 1003202001172 dimer interface [polypeptide binding]; other site 1003202001173 motif 1; other site 1003202001174 active site 1003202001175 motif 2; other site 1003202001176 motif 3; other site 1003202001177 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 1003202001178 anticodon binding site; other site 1003202001179 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1003202001180 RuvA N terminal domain; Region: RuvA_N; pfam01330 1003202001181 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1003202001182 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1003202001183 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 1003202001184 Walker A motif; other site 1003202001185 ATP binding site [chemical binding]; other site 1003202001186 Walker B motif; other site 1003202001187 arginine finger; other site 1003202001188 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1003202001189 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1003202001190 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1003202001191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202001192 Walker A/P-loop; other site 1003202001193 ATP binding site [chemical binding]; other site 1003202001194 Q-loop/lid; other site 1003202001195 ABC transporter signature motif; other site 1003202001196 Walker B; other site 1003202001197 D-loop; other site 1003202001198 H-loop/switch region; other site 1003202001199 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1003202001200 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1003202001201 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1003202001202 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1003202001203 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1003202001204 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1003202001205 BON domain; Region: BON; pfam04972 1003202001206 BON domain; Region: BON; pfam04972 1003202001207 intracellular septation protein A; Reviewed; Region: PRK00259 1003202001208 Iron permease FTR1 family; Region: FTR1; pfam03239 1003202001209 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1003202001210 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1003202001211 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1003202001212 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1003202001213 active site 1003202001214 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 1003202001215 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1003202001216 catalytic residues [active] 1003202001217 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1003202001218 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1003202001219 tandem repeat interface [polypeptide binding]; other site 1003202001220 oligomer interface [polypeptide binding]; other site 1003202001221 active site residues [active] 1003202001222 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1003202001223 trimer interface [polypeptide binding]; other site 1003202001224 active site 1003202001225 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1003202001226 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 1003202001227 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1003202001228 catalytic residue [active] 1003202001229 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1003202001230 dimer interface [polypeptide binding]; other site 1003202001231 catalytic triad [active] 1003202001232 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1003202001233 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1003202001234 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1003202001235 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1003202001236 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1003202001237 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1003202001238 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1003202001239 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1003202001240 putative peptidase; Provisional; Region: PRK11649 1003202001241 Peptidase family M23; Region: Peptidase_M23; pfam01551 1003202001242 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1003202001243 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1003202001244 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1003202001245 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1003202001246 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1003202001247 cell division protein FtsW; Region: ftsW; TIGR02614 1003202001248 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1003202001249 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 1003202001250 active site 1003202001251 homodimer interface [polypeptide binding]; other site 1003202001252 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 1003202001253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1003202001254 diaminopimelate epimerase; Region: DapF; TIGR00652 1003202001255 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1003202001256 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1003202001257 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1003202001258 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1003202001259 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 1003202001260 FeS/SAM binding site; other site 1003202001261 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1003202001262 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1003202001263 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 1003202001264 dimer interface [polypeptide binding]; other site 1003202001265 motif 1; other site 1003202001266 active site 1003202001267 motif 2; other site 1003202001268 motif 3; other site 1003202001269 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1003202001270 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 1003202001271 putative tRNA-binding site [nucleotide binding]; other site 1003202001272 B3/4 domain; Region: B3_4; pfam03483 1003202001273 tRNA synthetase B5 domain; Region: B5; smart00874 1003202001274 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 1003202001275 dimer interface [polypeptide binding]; other site 1003202001276 motif 1; other site 1003202001277 motif 3; other site 1003202001278 motif 2; other site 1003202001279 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1003202001280 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 1003202001281 DNA polymerase III subunit beta; Validated; Region: PRK05643 1003202001282 putative DNA binding surface [nucleotide binding]; other site 1003202001283 dimer interface [polypeptide binding]; other site 1003202001284 beta-clamp/clamp loader binding surface; other site 1003202001285 beta-clamp/translesion DNA polymerase binding surface; other site 1003202001286 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1003202001287 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1003202001288 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1003202001289 HIGH motif; other site 1003202001290 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1003202001291 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1003202001292 active site 1003202001293 KMSKS motif; other site 1003202001294 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1003202001295 tRNA binding surface [nucleotide binding]; other site 1003202001296 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1003202001297 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1003202001298 catalytic site [active] 1003202001299 putative active site [active] 1003202001300 putative substrate binding site [chemical binding]; other site 1003202001301 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1003202001302 Septum formation initiator; Region: DivIC; pfam04977 1003202001303 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1003202001304 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1003202001305 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1003202001306 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1003202001307 catalytic residue [active] 1003202001308 putative FPP diphosphate binding site; other site 1003202001309 putative FPP binding hydrophobic cleft; other site 1003202001310 dimer interface [polypeptide binding]; other site 1003202001311 putative IPP diphosphate binding site; other site 1003202001312 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 1003202001313 dimer interface [polypeptide binding]; other site 1003202001314 phosphorylation site [posttranslational modification] 1003202001315 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 1003202001316 ATP binding site [chemical binding]; other site 1003202001317 Mg2+ binding site [ion binding]; other site 1003202001318 G-X-G motif; other site 1003202001319 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1003202001320 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 1003202001321 active site 1003202001322 phosphorylation site [posttranslational modification] 1003202001323 intermolecular recognition site; other site 1003202001324 dimerization interface [polypeptide binding]; other site 1003202001325 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 1003202001326 DNA binding site [nucleotide binding] 1003202001327 branched-chain amino acid aminotransferase; Validated; Region: PRK06606 1003202001328 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1003202001329 homodimer interface [polypeptide binding]; other site 1003202001330 substrate-cofactor binding pocket; other site 1003202001331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1003202001332 catalytic residue [active] 1003202001333 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1003202001334 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1003202001335 dimer interface [polypeptide binding]; other site 1003202001336 active site 1003202001337 catalytic residue [active] 1003202001338 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 1003202001339 SmpB-tmRNA interface; other site 1003202001340 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 1003202001341 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1003202001342 catalytic residues [active] 1003202001343 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1003202001344 CoA binding domain; Region: CoA_binding; pfam02629 1003202001345 CoA-ligase; Region: Ligase_CoA; pfam00549 1003202001346 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1003202001347 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1003202001348 CoA-ligase; Region: Ligase_CoA; pfam00549 1003202001349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1003202001350 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1003202001351 Predicted membrane protein [Function unknown]; Region: COG1238 1003202001352 RDD family; Region: RDD; pfam06271 1003202001353 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1003202001354 RecR protein; Region: RecR; pfam02132 1003202001355 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 1003202001356 putative active site [active] 1003202001357 putative metal-binding site [ion binding]; other site 1003202001358 tetramer interface [polypeptide binding]; other site 1003202001359 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1003202001360 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1003202001361 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1003202001362 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1003202001363 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1003202001364 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1003202001365 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1003202001366 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1003202001367 Predicted permeases [General function prediction only]; Region: COG0679 1003202001368 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1003202001369 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1003202001370 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1003202001371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1003202001372 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1003202001373 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1003202001374 active site 1003202001375 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1003202001376 Part of AAA domain; Region: AAA_19; pfam13245 1003202001377 Family description; Region: UvrD_C_2; pfam13538 1003202001378 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1003202001379 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1003202001380 tetramer interface [polypeptide binding]; other site 1003202001381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1003202001382 catalytic residue [active] 1003202001383 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1003202001384 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1003202001385 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 1003202001386 Walker A motif; other site 1003202001387 ATP binding site [chemical binding]; other site 1003202001388 Walker B motif; other site 1003202001389 arginine finger; other site 1003202001390 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1003202001391 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1003202001392 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1003202001393 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1003202001394 homotetramer interface [polypeptide binding]; other site 1003202001395 FMN binding site [chemical binding]; other site 1003202001396 homodimer contacts [polypeptide binding]; other site 1003202001397 putative active site [active] 1003202001398 putative substrate binding site [chemical binding]; other site 1003202001399 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1003202001400 Substrate binding site; other site 1003202001401 Mg++ binding site; other site 1003202001402 hypothetical protein; Validated; Region: PRK00110 1003202001403 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1003202001404 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1003202001405 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 1003202001406 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1003202001407 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1003202001408 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1003202001409 S-adenosylmethionine binding site [chemical binding]; other site 1003202001410 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1003202001411 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1003202001412 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1003202001413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1003202001414 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1003202001415 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1003202001416 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1003202001417 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1003202001418 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1003202001419 catalytic site [active] 1003202001420 putative active site [active] 1003202001421 putative substrate binding site [chemical binding]; other site 1003202001422 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1003202001423 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 1003202001424 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1003202001425 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1003202001426 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1003202001427 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1003202001428 Na binding site [ion binding]; other site 1003202001429 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1003202001430 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 1003202001431 dimer interface [polypeptide binding]; other site 1003202001432 phosphorylation site [posttranslational modification] 1003202001433 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 1003202001434 ATP binding site [chemical binding]; other site 1003202001435 Mg2+ binding site [ion binding]; other site 1003202001436 G-X-G motif; other site 1003202001437 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1003202001438 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1003202001439 domain interfaces; other site 1003202001440 active site 1003202001441 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1003202001442 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1003202001443 active site 1003202001444 HIGH motif; other site 1003202001445 dimer interface [polypeptide binding]; other site 1003202001446 KMSKS motif; other site 1003202001447 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1003202001448 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1003202001449 putative acyl-acceptor binding pocket; other site 1003202001450 Protein required for attachment to host cells; Region: Host_attach; cl02398 1003202001451 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1003202001452 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1003202001453 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1003202001454 HemY protein N-terminus; Region: HemY_N; pfam07219 1003202001455 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1003202001456 active site 1003202001457 AmpG-like permease; Region: 2A0125; TIGR00901 1003202001458 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1003202001459 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1003202001460 Ligand binding site; other site 1003202001461 metal-binding site 1003202001462 TLC ATP/ADP transporter; Region: TLC; pfam03219 1003202001463 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1003202001464 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1003202001465 substrate binding pocket [chemical binding]; other site 1003202001466 chain length determination region; other site 1003202001467 substrate-Mg2+ binding site; other site 1003202001468 catalytic residues [active] 1003202001469 aspartate-rich region 1; other site 1003202001470 active site lid residues [active] 1003202001471 aspartate-rich region 2; other site 1003202001472 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1003202001473 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1003202001474 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 1003202001475 active site 1003202001476 arginine:agmatin antiporter; Provisional; Region: PRK10644 1003202001477 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1003202001478 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1003202001479 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1003202001480 trimerization site [polypeptide binding]; other site 1003202001481 active site 1003202001482 cysteine desulfurase; Provisional; Region: PRK14012 1003202001483 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1003202001484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1003202001485 catalytic residue [active] 1003202001486 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1003202001487 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1003202001488 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1003202001489 catalytic residue [active] 1003202001490 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1003202001491 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 1003202001492 GSH binding site (G-site) [chemical binding]; other site 1003202001493 C-terminal domain interface [polypeptide binding]; other site 1003202001494 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1003202001495 N-terminal domain interface [polypeptide binding]; other site 1003202001496 dimer interface [polypeptide binding]; other site 1003202001497 substrate binding pocket (H-site) [chemical binding]; other site 1003202001498 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1003202001499 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1003202001500 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1003202001501 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1003202001502 hypothetical protein; Provisional; Region: PRK06661 1003202001503 intersubunit interface [polypeptide binding]; other site 1003202001504 active site 1003202001505 Zn2+ binding site [ion binding]; other site 1003202001506 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1003202001507 uncharacterized protein, YfiH family; Region: TIGR00726 1003202001508 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1003202001509 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1003202001510 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1003202001511 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 1003202001512 non-specific DNA binding site [nucleotide binding]; other site 1003202001513 salt bridge; other site 1003202001514 sequence-specific DNA binding site [nucleotide binding]; other site 1003202001515 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1003202001516 TLC ATP/ADP transporter; Region: TLC; pfam03219 1003202001517 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01528 1003202001518 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1003202001519 RNA binding site [nucleotide binding]; other site 1003202001520 active site 1003202001521 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 1003202001522 16S/18S rRNA binding site [nucleotide binding]; other site 1003202001523 S13e-L30e interaction site [polypeptide binding]; other site 1003202001524 25S rRNA binding site [nucleotide binding]; other site 1003202001525 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1003202001526 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1003202001527 RNase E interface [polypeptide binding]; other site 1003202001528 trimer interface [polypeptide binding]; other site 1003202001529 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1003202001530 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1003202001531 RNase E interface [polypeptide binding]; other site 1003202001532 trimer interface [polypeptide binding]; other site 1003202001533 active site 1003202001534 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 1003202001535 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 1003202001536 RNA binding site [nucleotide binding]; other site 1003202001537 domain interface; other site 1003202001538 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1003202001539 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 1003202001540 putative active site [active] 1003202001541 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 1003202001542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1003202001543 OstA-like protein; Region: OstA; cl00844 1003202001544 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1003202001545 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1003202001546 Walker A/P-loop; other site 1003202001547 ATP binding site [chemical binding]; other site 1003202001548 Q-loop/lid; other site 1003202001549 ABC transporter signature motif; other site 1003202001550 Walker B; other site 1003202001551 D-loop; other site 1003202001552 H-loop/switch region; other site 1003202001553 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1003202001554 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1003202001555 active site 1003202001556 substrate binding site [chemical binding]; other site 1003202001557 metal binding site [ion binding]; metal-binding site 1003202001558 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1003202001559 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1003202001560 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1003202001561 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1003202001562 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1003202001563 dimer interface [polypeptide binding]; other site 1003202001564 putative radical transfer pathway; other site 1003202001565 diiron center [ion binding]; other site 1003202001566 tyrosyl radical; other site 1003202001567 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1003202001568 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1003202001569 active site 1003202001570 dimer interface [polypeptide binding]; other site 1003202001571 catalytic residues [active] 1003202001572 effector binding site; other site 1003202001573 R2 peptide binding site; other site 1003202001574 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1003202001575 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1003202001576 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1003202001577 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1003202001578 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1003202001579 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1003202001580 homodimer interface [polypeptide binding]; other site 1003202001581 NADP binding site [chemical binding]; other site 1003202001582 substrate binding site [chemical binding]; other site 1003202001583 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1003202001584 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1003202001585 trimer interface [polypeptide binding]; other site 1003202001586 putative metal binding site [ion binding]; other site 1003202001587 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1003202001588 30S subunit binding site; other site 1003202001589 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1003202001590 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1003202001591 oligomer interface [polypeptide binding]; other site 1003202001592 active site residues [active] 1003202001593 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1003202001594 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 1003202001595 RNA binding site [nucleotide binding]; other site 1003202001596 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 1003202001597 RNA binding site [nucleotide binding]; other site 1003202001598 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 1003202001599 RNA binding site [nucleotide binding]; other site 1003202001600 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 1003202001601 RNA binding site [nucleotide binding]; other site 1003202001602 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 1003202001603 RNA binding site [nucleotide binding]; other site 1003202001604 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 1003202001605 RNA binding site [nucleotide binding]; other site 1003202001606 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1003202001607 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 1003202001608 CMP-binding site; other site 1003202001609 The sites determining sugar specificity; other site 1003202001610 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1003202001611 IHF - DNA interface [nucleotide binding]; other site 1003202001612 IHF dimer interface [polypeptide binding]; other site 1003202001613 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1003202001614 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1003202001615 tandem repeat interface [polypeptide binding]; other site 1003202001616 oligomer interface [polypeptide binding]; other site 1003202001617 active site residues [active] 1003202001618 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1003202001619 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1003202001620 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 1003202001621 RNA binding site [nucleotide binding]; other site 1003202001622 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 1003202001623 multimer interface [polypeptide binding]; other site 1003202001624 Walker A motif; other site 1003202001625 ATP binding site [chemical binding]; other site 1003202001626 Walker B motif; other site 1003202001627 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 1003202001628 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 1003202001629 S-adenosylmethionine binding site [chemical binding]; other site 1003202001630 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1003202001631 DHH family; Region: DHH; pfam01368 1003202001632 DHHA1 domain; Region: DHHA1; pfam02272 1003202001633 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1003202001634 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1003202001635 RF-1 domain; Region: RF-1; pfam00472 1003202001636 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 1003202001637 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1003202001638 E3 interaction surface; other site 1003202001639 lipoyl attachment site [posttranslational modification]; other site 1003202001640 e3 binding domain; Region: E3_binding; pfam02817 1003202001641 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1003202001642 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1003202001643 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1003202001644 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1003202001645 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 1003202001646 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1003202001647 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1003202001648 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1003202001649 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1003202001650 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1003202001651 active site 1003202001652 nucleophile elbow; other site 1003202001653 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1003202001654 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1003202001655 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1003202001656 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1003202001657 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1003202001658 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1003202001659 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1003202001660 dimer interface [polypeptide binding]; other site 1003202001661 allosteric magnesium binding site [ion binding]; other site 1003202001662 active site 1003202001663 aspartate-rich active site metal binding site; other site 1003202001664 Schiff base residues; other site 1003202001665 primosome assembly protein PriA; Validated; Region: PRK05580 1003202001666 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 1003202001667 ATP binding site [chemical binding]; other site 1003202001668 putative Mg++ binding site [ion binding]; other site 1003202001669 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1003202001670 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 1003202001671 Flavoprotein; Region: Flavoprotein; pfam02441 1003202001672 replicative DNA helicase; Provisional; Region: PRK09165 1003202001673 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1003202001674 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 1003202001675 Walker A motif; other site 1003202001676 ATP binding site [chemical binding]; other site 1003202001677 Walker B motif; other site 1003202001678 DNA binding loops [nucleotide binding] 1003202001679 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1003202001680 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 1003202001681 RNA binding surface [nucleotide binding]; other site 1003202001682 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1003202001683 active site 1003202001684 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1003202001685 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 1003202001686 S-adenosylmethionine binding site [chemical binding]; other site 1003202001687 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1003202001688 DNA repair protein RadA; Provisional; Region: PRK11823 1003202001689 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 1003202001690 Walker A motif; other site 1003202001691 ATP binding site [chemical binding]; other site 1003202001692 Walker B motif; other site 1003202001693 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1003202001694 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1003202001695 Recombination protein O N terminal; Region: RecO_N; pfam11967 1003202001696 Recombination protein O C terminal; Region: RecO_C; pfam02565 1003202001697 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1003202001698 Glycoprotease family; Region: Peptidase_M22; pfam00814 1003202001699 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1003202001700 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1003202001701 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1003202001702 G1 box; other site 1003202001703 putative GEF interaction site [polypeptide binding]; other site 1003202001704 GTP/Mg2+ binding site [chemical binding]; other site 1003202001705 Switch I region; other site 1003202001706 G2 box; other site 1003202001707 G3 box; other site 1003202001708 Switch II region; other site 1003202001709 G4 box; other site 1003202001710 G5 box; other site 1003202001711 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 1003202001712 Translation-initiation factor 2; Region: IF-2; pfam11987 1003202001713 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 1003202001714 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1003202001715 NusA N-terminal domain; Region: NusA_N; pfam08529 1003202001716 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 1003202001717 RNA binding site [nucleotide binding]; other site 1003202001718 homodimer interface [polypeptide binding]; other site 1003202001719 NusA-like KH domain; Region: KH_5; pfam13184 1003202001720 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 1003202001721 G-X-X-G motif; other site 1003202001722 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1003202001723 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 1003202001724 Sm and related proteins; Region: Sm_like; cl00259 1003202001725 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1003202001726 putative oligomer interface [polypeptide binding]; other site 1003202001727 putative RNA binding site [nucleotide binding]; other site 1003202001728 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1003202001729 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 1003202001730 RNA binding surface [nucleotide binding]; other site 1003202001731 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1003202001732 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1003202001733 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1003202001734 active site 1003202001735 HIGH motif; other site 1003202001736 dimer interface [polypeptide binding]; other site 1003202001737 KMSKS motif; other site 1003202001738 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 1003202001739 RNA binding surface [nucleotide binding]; other site 1003202001740 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1003202001741 MG2 domain; Region: A2M_N; pfam01835 1003202001742 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1003202001743 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1003202001744 surface patch; other site 1003202001745 thioester region; other site 1003202001746 specificity defining residues; other site 1003202001747 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1003202001748 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1003202001749 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1003202001750 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1003202001751 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1003202001752 substrate binding site [chemical binding]; other site 1003202001753 oxyanion hole (OAH) forming residues; other site 1003202001754 trimer interface [polypeptide binding]; other site 1003202001755 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1003202001756 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1003202001757 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1003202001758 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1003202001759 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 1003202001760 active site 1003202001761 phosphorylation site [posttranslational modification] 1003202001762 intermolecular recognition site; other site 1003202001763 dimerization interface [polypeptide binding]; other site 1003202001764 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 1003202001765 Walker A motif; other site 1003202001766 ATP binding site [chemical binding]; other site 1003202001767 Walker B motif; other site 1003202001768 arginine finger; other site 1003202001769 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1003202001770 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1003202001771 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1003202001772 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1003202001773 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1003202001774 UDP-glycosyltransferase; Region: PLN02534 1003202001775 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1003202001776 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1003202001777 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1003202001778 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1003202001779 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1003202001780 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1003202001781 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1003202001782 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1003202001783 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 1003202001784 S-adenosylmethionine binding site [chemical binding]; other site 1003202001785 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 1003202001786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1003202001787 MraZ protein; Region: MraZ; pfam02381 1003202001788 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1003202001789 Na binding site [ion binding]; other site 1003202001790 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1003202001791 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1003202001792 GIY-YIG motif/motif A; other site 1003202001793 active site 1003202001794 catalytic site [active] 1003202001795 putative DNA binding site [nucleotide binding]; other site 1003202001796 metal binding site [ion binding]; metal-binding site 1003202001797 UvrB/uvrC motif; Region: UVR; pfam02151 1003202001798 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1003202001799 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1003202001800 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1003202001801 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1003202001802 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1003202001803 SEC-C motif; Region: SEC-C; pfam02810 1003202001804 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 1003202001805 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1003202001806 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1003202001807 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1003202001808 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1003202001809 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 1003202001810 hinge; other site 1003202001811 active site 1003202001812 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1003202001813 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 1003202001814 Mg2+ binding site [ion binding]; other site 1003202001815 G-X-G motif; other site 1003202001816 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 1003202001817 anchoring element; other site 1003202001818 dimer interface [polypeptide binding]; other site 1003202001819 ATP binding site [chemical binding]; other site 1003202001820 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 1003202001821 active site 1003202001822 putative metal-binding site [ion binding]; other site 1003202001823 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1003202001824 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1003202001825 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 1003202001826 active site 1003202001827 motif I; other site 1003202001828 motif II; other site 1003202001829 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 1003202001830 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1003202001831 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1003202001832 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 1003202001833 Divalent cation transporter; Region: MgtE; pfam01769 1003202001834 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1003202001835 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1003202001836 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1003202001837 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1003202001838 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 1003202001839 Cu(I) binding site [ion binding]; other site 1003202001840 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 1003202001841 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 1003202001842 dimer interface [polypeptide binding]; other site 1003202001843 substrate binding site [chemical binding]; other site 1003202001844 metal binding sites [ion binding]; metal-binding site 1003202001845 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1003202001846 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1003202001847 TraX protein; Region: TraX; pfam05857 1003202001848 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1003202001849 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 1003202001850 ssDNA binding site; other site 1003202001851 generic binding surface II; other site 1003202001852 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 1003202001853 ATP binding site [chemical binding]; other site 1003202001854 putative Mg++ binding site [ion binding]; other site 1003202001855 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 1003202001856 nucleotide binding region [chemical binding]; other site 1003202001857 ATP-binding site [chemical binding]; other site 1003202001858 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1003202001859 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 1003202001860 Mg++ binding site [ion binding]; other site 1003202001861 putative catalytic motif [active] 1003202001862 putative substrate binding site [chemical binding]; other site 1003202001863 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1003202001864 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1003202001865 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1003202001866 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1003202001867 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1003202001868 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1003202001869 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1003202001870 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1003202001871 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1003202001872 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1003202001873 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 1003202001874 ATP binding site [chemical binding]; other site 1003202001875 putative Mg++ binding site [ion binding]; other site 1003202001876 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 1003202001877 nucleotide binding region [chemical binding]; other site 1003202001878 ATP-binding site [chemical binding]; other site 1003202001879 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1003202001880 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1003202001881 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1003202001882 active site residue [active] 1003202001883 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1003202001884 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1003202001885 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 1003202001886 Walker A motif; other site 1003202001887 ATP binding site [chemical binding]; other site 1003202001888 Walker B motif; other site 1003202001889 arginine finger; other site 1003202001890 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 1003202001891 DnaA box-binding interface [nucleotide binding]; other site 1003202001892 Patatin [General function prediction only]; Region: COG3621 1003202001893 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1003202001894 active site 1003202001895 nucleophile elbow; other site 1003202001896 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1003202001897 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 1003202001898 putative substrate translocation pore; other site 1003202001899 GTP-binding protein YchF; Reviewed; Region: PRK09601 1003202001900 YchF GTPase; Region: YchF; cd01900 1003202001901 G1 box; other site 1003202001902 GTP/Mg2+ binding site [chemical binding]; other site 1003202001903 Switch I region; other site 1003202001904 G2 box; other site 1003202001905 Switch II region; other site 1003202001906 G3 box; other site 1003202001907 G4 box; other site 1003202001908 G5 box; other site 1003202001909 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 1003202001910 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 1003202001911 putative active site [active] 1003202001912 catalytic residue [active] 1003202001913 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1003202001914 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1003202001915 5S rRNA interface [nucleotide binding]; other site 1003202001916 CTC domain interface [polypeptide binding]; other site 1003202001917 L16 interface [polypeptide binding]; other site 1003202001918 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1003202001919 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 1003202001920 FeS/SAM binding site; other site 1003202001921 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1003202001922 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1003202001923 23S rRNA binding site [nucleotide binding]; other site 1003202001924 L21 binding site [polypeptide binding]; other site 1003202001925 L13 binding site [polypeptide binding]; other site 1003202001926 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1003202001927 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1003202001928 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1003202001929 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 1003202001930 dimerization interface [polypeptide binding]; other site 1003202001931 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 1003202001932 dimer interface [polypeptide binding]; other site 1003202001933 phosphorylation site [posttranslational modification] 1003202001934 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 1003202001935 ATP binding site [chemical binding]; other site 1003202001936 Mg2+ binding site [ion binding]; other site 1003202001937 G-X-G motif; other site 1003202001938 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1003202001939 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1003202001940 COQ9; Region: COQ9; pfam08511 1003202001941 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 1003202001942 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1003202001943 HIGH motif; other site 1003202001944 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1003202001945 active site 1003202001946 KMSKS motif; other site 1003202001947 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1003202001948 tRNA binding surface [nucleotide binding]; other site 1003202001949 anticodon binding site; other site 1003202001950 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1003202001951 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1003202001952 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1003202001953 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1003202001954 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 1003202001955 carboxyltransferase (CT) interaction site; other site 1003202001956 biotinylation site [posttranslational modification]; other site 1003202001957 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1003202001958 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1003202001959 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1003202001960 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1003202001961 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 1003202001962 putative substrate translocation pore; other site 1003202001963 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1003202001964 putative acyl-acceptor binding pocket; other site 1003202001965 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1003202001966 acyl-activating enzyme (AAE) consensus motif; other site 1003202001967 putative AMP binding site [chemical binding]; other site 1003202001968 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1003202001969 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 1003202001970 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1003202001971 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 1003202001972 S-adenosylmethionine binding site [chemical binding]; other site 1003202001973 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1003202001974 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1003202001975 HIGH motif; other site 1003202001976 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1003202001977 active site 1003202001978 KMSKS motif; other site 1003202001979 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1003202001980 HD domain; Region: HD_4; pfam13328 1003202001981 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1003202001982 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1003202001983 synthetase active site [active] 1003202001984 NTP binding site [chemical binding]; other site 1003202001985 metal binding site [ion binding]; metal-binding site 1003202001986 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1003202001987 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 1003202001988 ring oligomerisation interface [polypeptide binding]; other site 1003202001989 ATP/Mg binding site [chemical binding]; other site 1003202001990 stacking interactions; other site 1003202001991 hinge regions; other site 1003202001992 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 1003202001993 oligomerisation interface [polypeptide binding]; other site 1003202001994 mobile loop; other site 1003202001995 roof hairpin; other site 1003202001996 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1003202001997 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1003202001998 oligomer interface [polypeptide binding]; other site 1003202001999 RNA binding site [nucleotide binding]; other site 1003202002000 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1003202002001 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 1003202002002 dimer interface [polypeptide binding]; other site 1003202002003 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1003202002004 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1003202002005 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1003202002006 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1003202002007 hypothetical protein; Validated; Region: PRK06620 1003202002008 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1003202002009 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1003202002010 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1003202002011 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1003202002012 alphaNTD - beta interaction site [polypeptide binding]; other site 1003202002013 alphaNTD homodimer interface [polypeptide binding]; other site 1003202002014 alphaNTD - beta' interaction site [polypeptide binding]; other site 1003202002015 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1003202002016 30S ribosomal protein S11; Validated; Region: PRK05309 1003202002017 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1003202002018 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1003202002019 adenylate kinase; Reviewed; Region: adk; PRK00279 1003202002020 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 1003202002021 AMP-binding site [chemical binding]; other site 1003202002022 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1003202002023 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1003202002024 SecY translocase; Region: SecY; pfam00344 1003202002025 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1003202002026 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 1003202002027 23S rRNA binding site [nucleotide binding]; other site 1003202002028 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1003202002029 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1003202002030 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1003202002031 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 1003202002032 5S rRNA interface [nucleotide binding]; other site 1003202002033 23S rRNA interface [nucleotide binding]; other site 1003202002034 L5 interface [polypeptide binding]; other site 1003202002035 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1003202002036 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1003202002037 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1003202002038 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1003202002039 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1003202002040 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1003202002041 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1003202002042 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1003202002043 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1003202002044 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1003202002045 RNA binding site [nucleotide binding]; other site 1003202002046 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1003202002047 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1003202002048 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 1003202002049 L23 interface [polypeptide binding]; other site 1003202002050 trigger factor interaction site; other site 1003202002051 23S rRNA interface [nucleotide binding]; other site 1003202002052 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 1003202002053 23S rRNA interface [nucleotide binding]; other site 1003202002054 5S rRNA interface [nucleotide binding]; other site 1003202002055 putative antibiotic binding site [chemical binding]; other site 1003202002056 L25 interface [polypeptide binding]; other site 1003202002057 L27 interface [polypeptide binding]; other site 1003202002058 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 1003202002059 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 1003202002060 G-X-X-G motif; other site 1003202002061 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1003202002062 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 1003202002063 putative translocon binding site; other site 1003202002064 protein-rRNA interface [nucleotide binding]; other site 1003202002065 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1003202002066 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1003202002067 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1003202002068 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1003202002069 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1003202002070 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1003202002071 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1003202002072 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1003202002073 elongation factor Tu; Reviewed; Region: PRK00049 1003202002074 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1003202002075 G1 box; other site 1003202002076 GEF interaction site [polypeptide binding]; other site 1003202002077 GTP/Mg2+ binding site [chemical binding]; other site 1003202002078 Switch I region; other site 1003202002079 G2 box; other site 1003202002080 G3 box; other site 1003202002081 Switch II region; other site 1003202002082 G4 box; other site 1003202002083 G5 box; other site 1003202002084 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 1003202002085 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 1003202002086 Antibiotic Binding Site [chemical binding]; other site 1003202002087 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1003202002088 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1003202002089 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1003202002090 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1003202002091 Class II fumarases; Region: Fumarase_classII; cd01362 1003202002092 active site 1003202002093 tetramer interface [polypeptide binding]; other site 1003202002094 cell division protein FtsZ; Validated; Region: PRK09330 1003202002095 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 1003202002096 nucleotide binding site [chemical binding]; other site 1003202002097 SulA interaction site; other site 1003202002098 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1003202002099 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1003202002100 muropeptide transporter; Validated; Region: ampG; cl17669 1003202002101 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 1003202002102 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1003202002103 ATP binding site [chemical binding]; other site 1003202002104 Mg++ binding site [ion binding]; other site 1003202002105 motif III; other site 1003202002106 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 1003202002107 nucleotide binding region [chemical binding]; other site 1003202002108 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 1003202002109 DNA-binding site [nucleotide binding]; DNA binding site 1003202002110 RNA-binding motif; other site 1003202002111 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1003202002112 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 1003202002113 S-adenosylmethionine binding site [chemical binding]; other site 1003202002114 SurA N-terminal domain; Region: SurA_N_3; cl07813 1003202002115 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1003202002116 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1003202002117 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1003202002118 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 1003202002119 generic binding surface II; other site 1003202002120 generic binding surface I; other site 1003202002121 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 1003202002122 putative catalytic site [active] 1003202002123 putative phosphate binding site [ion binding]; other site 1003202002124 active site 1003202002125 metal binding site A [ion binding]; metal-binding site 1003202002126 DNA binding site [nucleotide binding] 1003202002127 putative AP binding site [nucleotide binding]; other site 1003202002128 putative metal binding site B [ion binding]; other site 1003202002129 GTP-binding protein Der; Reviewed; Region: PRK00093 1003202002130 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1003202002131 G1 box; other site 1003202002132 GTP/Mg2+ binding site [chemical binding]; other site 1003202002133 Switch I region; other site 1003202002134 G2 box; other site 1003202002135 Switch II region; other site 1003202002136 G3 box; other site 1003202002137 G4 box; other site 1003202002138 G5 box; other site 1003202002139 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1003202002140 G1 box; other site 1003202002141 GTP/Mg2+ binding site [chemical binding]; other site 1003202002142 Switch I region; other site 1003202002143 G2 box; other site 1003202002144 G3 box; other site 1003202002145 Switch II region; other site 1003202002146 G4 box; other site 1003202002147 G5 box; other site 1003202002148 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1003202002149 ABC1 family; Region: ABC1; pfam03109 1003202002150 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1003202002151 active site 1003202002152 ATP binding site [chemical binding]; other site 1003202002153 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1003202002154 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 1003202002155 S-adenosylmethionine binding site [chemical binding]; other site 1003202002156 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1003202002157 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1003202002158 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1003202002159 active site 1003202002160 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1003202002161 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1003202002162 active site 1003202002163 HIGH motif; other site 1003202002164 KMSKS motif; other site 1003202002165 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1003202002166 tRNA binding surface [nucleotide binding]; other site 1003202002167 anticodon binding site; other site 1003202002168 thymidylate kinase; Validated; Region: tmk; PRK00698 1003202002169 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 1003202002170 TMP-binding site; other site 1003202002171 ATP-binding site [chemical binding]; other site 1003202002172 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202002173 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 1003202002174 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1003202002175 UbiA prenyltransferase family; Region: UbiA; pfam01040 1003202002176 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1003202002177 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1003202002178 active site 1003202002179 HIGH motif; other site 1003202002180 nucleotide binding site [chemical binding]; other site 1003202002181 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1003202002182 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1003202002183 active site 1003202002184 KMSKS motif; other site 1003202002185 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1003202002186 tRNA binding surface [nucleotide binding]; other site 1003202002187 anticodon binding site; other site 1003202002188 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1003202002189 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1003202002190 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1003202002191 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1003202002192 RmuC family; Region: RmuC; pfam02646 1003202002193 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1003202002194 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1003202002195 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 1003202002196 Walker A motif; other site 1003202002197 ATP binding site [chemical binding]; other site 1003202002198 Walker B motif; other site 1003202002199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1003202002200 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1003202002201 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1003202002202 Coenzyme A binding pocket [chemical binding]; other site 1003202002203 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1003202002204 Ligand Binding Site [chemical binding]; other site 1003202002205 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1003202002206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1003202002207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202002208 Walker A/P-loop; other site 1003202002209 ATP binding site [chemical binding]; other site 1003202002210 Q-loop/lid; other site 1003202002211 ABC transporter signature motif; other site 1003202002212 Walker B; other site 1003202002213 D-loop; other site 1003202002214 H-loop/switch region; other site 1003202002215 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1003202002216 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 1003202002217 putative substrate translocation pore; other site 1003202002218 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1003202002219 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1003202002220 FtsX-like permease family; Region: FtsX; pfam02687 1003202002221 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1003202002222 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1003202002223 Walker A/P-loop; other site 1003202002224 ATP binding site [chemical binding]; other site 1003202002225 Q-loop/lid; other site 1003202002226 ABC transporter signature motif; other site 1003202002227 Walker B; other site 1003202002228 D-loop; other site 1003202002229 H-loop/switch region; other site 1003202002230 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1003202002231 Domain of unknown function DUF21; Region: DUF21; pfam01595 1003202002232 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 1003202002233 Transporter associated domain; Region: CorC_HlyC; smart01091 1003202002234 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1003202002235 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1003202002236 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1003202002237 Autotransporter beta-domain; Region: Autotransporter; smart00869 1003202002238 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1003202002239 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1003202002240 synthetase active site [active] 1003202002241 NTP binding site [chemical binding]; other site 1003202002242 metal binding site [ion binding]; metal-binding site 1003202002243 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1003202002244 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1003202002245 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1003202002246 DNA binding residues [nucleotide binding] 1003202002247 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1003202002248 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 1003202002249 IHF dimer interface [polypeptide binding]; other site 1003202002250 IHF - DNA interface [nucleotide binding]; other site 1003202002251 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1003202002252 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1003202002253 putative acyl-acceptor binding pocket; other site 1003202002254 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1003202002255 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1003202002256 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1003202002257 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 1003202002258 nucleotide binding pocket [chemical binding]; other site 1003202002259 K-X-D-G motif; other site 1003202002260 catalytic site [active] 1003202002261 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1003202002262 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1003202002263 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 1003202002264 Dimer interface [polypeptide binding]; other site 1003202002265 BRCT sequence motif; other site 1003202002266 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1003202002267 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1003202002268 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1003202002269 mce related protein; Region: MCE; pfam02470 1003202002270 hypothetical protein; Provisional; Region: PRK06630 1003202002271 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1003202002272 RNA/DNA hybrid binding site [nucleotide binding]; other site 1003202002273 active site 1003202002274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1003202002275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1003202002276 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1003202002277 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 1003202002278 CoA-binding site [chemical binding]; other site 1003202002279 ATP-binding [chemical binding]; other site 1003202002280 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1003202002281 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 1003202002282 active site 1003202002283 catalytic site [active] 1003202002284 substrate binding site [chemical binding]; other site 1003202002285 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; cl01321 1003202002286 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1003202002287 Part of AAA domain; Region: AAA_19; pfam13245 1003202002288 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1003202002289 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1003202002290 Family description; Region: UvrD_C_2; pfam13538 1003202002291 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1003202002292 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1003202002293 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 1003202002294 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1003202002295 dimer interface [polypeptide binding]; other site 1003202002296 active site 1003202002297 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1003202002298 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1003202002299 TLC ATP/ADP transporter; Region: TLC; pfam03219 1003202002300 FOG: CBS domain [General function prediction only]; Region: COG0517 1003202002301 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 1003202002302 Transporter associated domain; Region: CorC_HlyC; smart01091 1003202002303 metal-binding heat shock protein; Provisional; Region: PRK00016 1003202002304 lipoyl synthase; Provisional; Region: PRK05481 1003202002305 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 1003202002306 FeS/SAM binding site; other site 1003202002307 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1003202002308 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 1003202002309 dimer interface [polypeptide binding]; other site 1003202002310 active site 1003202002311 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1003202002312 folate binding site [chemical binding]; other site 1003202002313 putative hydrolase; Provisional; Region: PRK11460 1003202002314 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1003202002315 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 1003202002316 putative GSH binding site [chemical binding]; other site 1003202002317 catalytic residues [active] 1003202002318 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1003202002319 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1003202002320 minor groove reading motif; other site 1003202002321 helix-hairpin-helix signature motif; other site 1003202002322 substrate binding pocket [chemical binding]; other site 1003202002323 active site 1003202002324 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1003202002325 Predicted methyltransferases [General function prediction only]; Region: COG0313 1003202002326 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1003202002327 putative SAM binding site [chemical binding]; other site 1003202002328 putative homodimer interface [polypeptide binding]; other site 1003202002329 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1003202002330 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1003202002331 putative ligand binding site [chemical binding]; other site 1003202002332 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1003202002333 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1003202002334 tetramer interfaces [polypeptide binding]; other site 1003202002335 binuclear metal-binding site [ion binding]; other site 1003202002336 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1003202002337 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1003202002338 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1003202002339 aspartate kinase; Reviewed; Region: PRK06635 1003202002340 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 1003202002341 putative catalytic residues [active] 1003202002342 putative nucleotide binding site [chemical binding]; other site 1003202002343 putative aspartate binding site [chemical binding]; other site 1003202002344 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 1003202002345 putative allosteric regulatory residue; other site 1003202002346 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1003202002347 salt bridge; other site 1003202002348 non-specific DNA binding site [nucleotide binding]; other site 1003202002349 sequence-specific DNA binding site [nucleotide binding]; other site 1003202002350 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 1003202002351 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202002352 putative substrate translocation pore; other site 1003202002353 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1003202002354 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1003202002355 Helix-turn-helix domain; Region: HTH_25; pfam13413 1003202002356 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1003202002357 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1003202002358 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1003202002359 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1003202002360 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 1003202002361 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1003202002362 G1 box; other site 1003202002363 GTP/Mg2+ binding site [chemical binding]; other site 1003202002364 Switch I region; other site 1003202002365 G2 box; other site 1003202002366 Switch II region; other site 1003202002367 G3 box; other site 1003202002368 G4 box; other site 1003202002369 G5 box; other site 1003202002370 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1003202002371 recombinase A; Provisional; Region: recA; PRK09354 1003202002372 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 1003202002373 hexamer interface [polypeptide binding]; other site 1003202002374 Walker A motif; other site 1003202002375 ATP binding site [chemical binding]; other site 1003202002376 Walker B motif; other site 1003202002377 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1003202002378 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1003202002379 homotetramer interface [polypeptide binding]; other site 1003202002380 NAD(P) binding site [chemical binding]; other site 1003202002381 homodimer interface [polypeptide binding]; other site 1003202002382 active site 1003202002383 acyl carrier protein; Provisional; Region: acpP; PRK00982 1003202002384 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1003202002385 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 1003202002386 dimer interface [polypeptide binding]; other site 1003202002387 active site 1003202002388 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1003202002389 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 1003202002390 catalytic site [active] 1003202002391 G-X2-G-X-G-K; other site 1003202002392 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 1003202002393 sequence-specific DNA binding site [nucleotide binding]; other site 1003202002394 salt bridge; other site 1003202002395 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1003202002396 rod shape-determining protein MreC; Region: MreC; pfam04085 1003202002397 rod shape-determining protein MreB; Provisional; Region: PRK13927 1003202002398 MreB and similar proteins; Region: MreB_like; cd10225 1003202002399 nucleotide binding site [chemical binding]; other site 1003202002400 Mg binding site [ion binding]; other site 1003202002401 putative protofilament interaction site [polypeptide binding]; other site 1003202002402 RodZ interaction site [polypeptide binding]; other site 1003202002403 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1003202002404 Predicted permeases [General function prediction only]; Region: COG0795 1003202002405 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1003202002406 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1003202002407 ligand binding site [chemical binding]; other site 1003202002408 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1003202002409 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 1003202002410 dimer interface [polypeptide binding]; other site 1003202002411 active site 1003202002412 CoA binding pocket [chemical binding]; other site 1003202002413 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1003202002414 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1003202002415 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1003202002416 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1003202002417 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1003202002418 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 1003202002419 P loop; other site 1003202002420 GTP binding site [chemical binding]; other site 1003202002421 DNA polymerase I; Provisional; Region: PRK05755 1003202002422 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1003202002423 active site 1003202002424 metal binding site 1 [ion binding]; metal-binding site 1003202002425 putative 5' ssDNA interaction site; other site 1003202002426 metal binding site 3; metal-binding site 1003202002427 metal binding site 2 [ion binding]; metal-binding site 1003202002428 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1003202002429 putative DNA binding site [nucleotide binding]; other site 1003202002430 putative metal binding site [ion binding]; other site 1003202002431 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1003202002432 active site 1003202002433 DNA binding site [nucleotide binding] 1003202002434 catalytic site [active] 1003202002435 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1003202002436 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1003202002437 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1003202002438 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1003202002439 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1003202002440 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1003202002441 putative active site [active] 1003202002442 putative PHP Thumb interface [polypeptide binding]; other site 1003202002443 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 1003202002444 generic binding surface II; other site 1003202002445 generic binding surface I; other site 1003202002446 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1003202002447 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1003202002448 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1003202002449 Protein of unknown function; Region: DUF3971; pfam13116 1003202002450 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1003202002451 muropeptide transporter; Validated; Region: ampG; cl17669 1003202002452 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1003202002453 seryl-tRNA synthetase; Provisional; Region: PRK05431 1003202002454 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1003202002455 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 1003202002456 dimer interface [polypeptide binding]; other site 1003202002457 active site 1003202002458 motif 1; other site 1003202002459 motif 2; other site 1003202002460 motif 3; other site 1003202002461 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1003202002462 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1003202002463 Integral membrane protein TerC family; Region: TerC; cl10468 1003202002464 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1003202002465 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1003202002466 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 1003202002467 S-adenosylmethionine binding site [chemical binding]; other site 1003202002468 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1003202002469 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1003202002470 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1003202002471 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1003202002472 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1003202002473 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1003202002474 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1003202002475 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1003202002476 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1003202002477 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1003202002478 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1003202002479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202002480 Walker A/P-loop; other site 1003202002481 ATP binding site [chemical binding]; other site 1003202002482 Q-loop/lid; other site 1003202002483 ABC transporter signature motif; other site 1003202002484 Walker B; other site 1003202002485 D-loop; other site 1003202002486 H-loop/switch region; other site 1003202002487 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1003202002488 4Fe-4S binding domain; Region: Fer4; pfam00037 1003202002489 4Fe-4S binding domain; Region: Fer4; pfam00037 1003202002490 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1003202002491 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1003202002492 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1003202002493 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 1003202002494 catalytic loop [active] 1003202002495 iron binding site [ion binding]; other site 1003202002496 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1003202002497 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 1003202002498 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1003202002499 Predicted membrane protein [Function unknown]; Region: COG3671 1003202002500 aconitate hydratase; Validated; Region: PRK09277 1003202002501 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1003202002502 substrate binding site [chemical binding]; other site 1003202002503 ligand binding site [chemical binding]; other site 1003202002504 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 1003202002505 substrate binding site [chemical binding]; other site 1003202002506 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1003202002507 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1003202002508 gamma subunit interface [polypeptide binding]; other site 1003202002509 epsilon subunit interface [polypeptide binding]; other site 1003202002510 LBP interface [polypeptide binding]; other site 1003202002511 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1003202002512 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1003202002513 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 1003202002514 alpha subunit interaction interface [polypeptide binding]; other site 1003202002515 Walker A motif; other site 1003202002516 ATP binding site [chemical binding]; other site 1003202002517 Walker B motif; other site 1003202002518 inhibitor binding site; inhibition site 1003202002519 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1003202002520 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1003202002521 core domain interface [polypeptide binding]; other site 1003202002522 delta subunit interface [polypeptide binding]; other site 1003202002523 epsilon subunit interface [polypeptide binding]; other site 1003202002524 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1003202002525 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1003202002526 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 1003202002527 beta subunit interaction interface [polypeptide binding]; other site 1003202002528 Walker A motif; other site 1003202002529 ATP binding site [chemical binding]; other site 1003202002530 Walker B motif; other site 1003202002531 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1003202002532 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1003202002533 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1003202002534 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1003202002535 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1003202002536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1003202002537 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1003202002538 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1003202002539 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1003202002540 dimerization interface [polypeptide binding]; other site 1003202002541 DPS ferroxidase diiron center [ion binding]; other site 1003202002542 ion pore; other site 1003202002543 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1003202002544 Transglycosylase; Region: Transgly; pfam00912 1003202002545 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1003202002546 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1003202002547 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1003202002548 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 1003202002549 FeS/SAM binding site; other site 1003202002550 TRAM domain; Region: TRAM; pfam01938 1003202002551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1003202002552 Bacterial SH3 domain; Region: SH3_4; pfam06347 1003202002553 Bacterial SH3 domain; Region: SH3_4; pfam06347 1003202002554 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1003202002555 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1003202002556 TrkA-N domain; Region: TrkA_N; pfam02254 1003202002557 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1003202002558 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1003202002559 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 1003202002560 rRNA binding site [nucleotide binding]; other site 1003202002561 predicted 30S ribosome binding site; other site 1003202002562 Maf-like protein; Region: Maf; pfam02545 1003202002563 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 1003202002564 active site 1003202002565 dimer interface [polypeptide binding]; other site 1003202002566 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1003202002567 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1003202002568 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 1003202002569 active site 1003202002570 DNA binding site [nucleotide binding] 1003202002571 Int/Topo IB signature motif; other site 1003202002572 Phasin protein; Region: Phasin_2; pfam09361 1003202002573 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1003202002574 PLD-like domain; Region: PLDc_2; pfam13091 1003202002575 putative active site [active] 1003202002576 catalytic site [active] 1003202002577 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1003202002578 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1003202002579 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1003202002580 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1003202002581 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1003202002582 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1003202002583 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1003202002584 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1003202002585 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1003202002586 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 1003202002587 active site 1003202002588 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1003202002589 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1003202002590 Mg++ binding site [ion binding]; other site 1003202002591 putative catalytic motif [active] 1003202002592 putative substrate binding site [chemical binding]; other site 1003202002593 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1003202002594 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1003202002595 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1003202002596 Ferredoxin [Energy production and conversion]; Region: COG1146 1003202002597 4Fe-4S binding domain; Region: Fer4; cl02805 1003202002598 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1003202002599 heme exporter protein CcmC; Region: ccmC; TIGR01191 1003202002600 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 1003202002601 nucleoside/Zn binding site; other site 1003202002602 dimer interface [polypeptide binding]; other site 1003202002603 catalytic motif [active] 1003202002604 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1003202002605 Cation efflux family; Region: Cation_efflux; cl00316 1003202002606 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1003202002607 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1003202002608 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1003202002609 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1003202002610 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1003202002611 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1003202002612 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1003202002613 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1003202002614 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 1003202002615 dimer interface [polypeptide binding]; other site 1003202002616 ssDNA binding site [nucleotide binding]; other site 1003202002617 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1003202002618 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1003202002619 hypothetical protein; Reviewed; Region: PRK01530 1003202002620 heat shock protein 90; Provisional; Region: PRK05218 1003202002621 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 1003202002622 ATP binding site [chemical binding]; other site 1003202002623 Mg2+ binding site [ion binding]; other site 1003202002624 G-X-G motif; other site 1003202002625 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1003202002626 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1003202002627 substrate-cofactor binding pocket; other site 1003202002628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1003202002629 catalytic residue [active] 1003202002630 trigger factor; Provisional; Region: tig; PRK01490 1003202002631 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1003202002632 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1003202002633 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1003202002634 GTP1/OBG; Region: GTP1_OBG; pfam01018 1003202002635 Obg GTPase; Region: Obg; cd01898 1003202002636 G1 box; other site 1003202002637 GTP/Mg2+ binding site [chemical binding]; other site 1003202002638 Switch I region; other site 1003202002639 G2 box; other site 1003202002640 G3 box; other site 1003202002641 Switch II region; other site 1003202002642 G4 box; other site 1003202002643 G5 box; other site 1003202002644 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 1003202002645 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1003202002646 dimer interface [polypeptide binding]; other site 1003202002647 active site 1003202002648 citrylCoA binding site [chemical binding]; other site 1003202002649 NADH binding [chemical binding]; other site 1003202002650 cationic pore residues; other site 1003202002651 oxalacetate/citrate binding site [chemical binding]; other site 1003202002652 coenzyme A binding site [chemical binding]; other site 1003202002653 catalytic triad [active] 1003202002654 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1003202002655 Fe-S cluster binding site [ion binding]; other site 1003202002656 active site 1003202002657 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1003202002658 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 1003202002659 RNA binding surface [nucleotide binding]; other site 1003202002660 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1003202002661 active site 1003202002662 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1003202002663 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 1003202002664 S-adenosylmethionine binding site [chemical binding]; other site 1003202002665 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1003202002666 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1003202002667 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1003202002668 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1003202002669 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1003202002670 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1003202002671 motif 1; other site 1003202002672 dimer interface [polypeptide binding]; other site 1003202002673 active site 1003202002674 motif 2; other site 1003202002675 motif 3; other site 1003202002676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1003202002677 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 1003202002678 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202002679 putative substrate translocation pore; other site 1003202002680 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1003202002681 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 1003202002682 motif 1; other site 1003202002683 active site 1003202002684 motif 2; other site 1003202002685 motif 3; other site 1003202002686 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1003202002687 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1003202002688 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1003202002689 dimerization interface 3.5A [polypeptide binding]; other site 1003202002690 active site 1003202002691 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1003202002692 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1003202002693 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1003202002694 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1003202002695 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1003202002696 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 1003202002697 DNA binding residues [nucleotide binding] 1003202002698 DNA primase, catalytic core; Region: dnaG; TIGR01391 1003202002699 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1003202002700 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1003202002701 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 1003202002702 active site 1003202002703 metal binding site [ion binding]; metal-binding site 1003202002704 interdomain interaction site; other site 1003202002705 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1003202002706 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1003202002707 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1003202002708 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1003202002709 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1003202002710 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1003202002711 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1003202002712 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1003202002713 ligand binding site [chemical binding]; other site 1003202002714 homodimer interface [polypeptide binding]; other site 1003202002715 NAD(P) binding site [chemical binding]; other site 1003202002716 trimer interface B [polypeptide binding]; other site 1003202002717 trimer interface A [polypeptide binding]; other site 1003202002718 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1003202002719 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1003202002720 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1003202002721 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 1003202002722 Walker A motif; other site 1003202002723 ATP binding site [chemical binding]; other site 1003202002724 Walker B motif; other site 1003202002725 arginine finger; other site 1003202002726 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1003202002727 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1003202002728 hypothetical protein; Validated; Region: PRK00153 1003202002729 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1003202002730 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1003202002731 catalytic motif [active] 1003202002732 Catalytic residue [active] 1003202002733 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1003202002734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1003202002735 Walker A/P-loop; other site 1003202002736 ATP binding site [chemical binding]; other site 1003202002737 Q-loop/lid; other site 1003202002738 ABC transporter signature motif; other site 1003202002739 Walker B; other site 1003202002740 D-loop; other site 1003202002741 H-loop/switch region; other site 1003202002742 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1003202002743 putative hydrolase; Provisional; Region: PRK02113 1003202002744 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1003202002745 active site 1003202002746 Predicted permeases [General function prediction only]; Region: COG0795 1003202002747 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1003202002748 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1003202002749 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1003202002750 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1003202002751 metal binding site [ion binding]; metal-binding site 1003202002752 dimer interface [polypeptide binding]; other site 1003202002753 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1003202002754 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 1003202002755 putative active site [active] 1003202002756 lipoate-protein ligase B; Provisional; Region: PRK14347 1003202002757 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1003202002758 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1003202002759 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1003202002760 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 1003202002761 ATP binding site [chemical binding]; other site 1003202002762 Mg2+ binding site [ion binding]; other site 1003202002763 G-X-G motif; other site 1003202002764 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 1003202002765 ATP binding site [chemical binding]; other site 1003202002766 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1003202002767 Zinc-finger domain; Region: zf-CHCC; cl01821 1003202002768 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 1003202002769 metabolite-proton symporter; Region: 2A0106; TIGR00883 1003202002770 putative substrate translocation pore; other site 1003202002771 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1003202002772 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1003202002773 TIGR00701 family protein; Region: TIGR00701 1003202002774 ferrochelatase; Reviewed; Region: hemH; PRK00035 1003202002775 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1003202002776 C-terminal domain interface [polypeptide binding]; other site 1003202002777 active site 1003202002778 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1003202002779 active site 1003202002780 N-terminal domain interface [polypeptide binding]; other site 1003202002781 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1003202002782 substrate binding site [chemical binding]; other site 1003202002783 active site