-- dump date 20140620_035142 -- class Genbank::misc_feature -- table misc_feature_note -- id note 257363000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 257363000002 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 257363000003 catalytic residues [active] 257363000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 257363000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 257363000006 Walker A/P-loop; other site 257363000007 ATP binding site [chemical binding]; other site 257363000008 Q-loop/lid; other site 257363000009 ABC transporter signature motif; other site 257363000010 Walker B; other site 257363000011 D-loop; other site 257363000012 H-loop/switch region; other site 257363000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 257363000014 ABC-2 type transporter; Region: ABC2_membrane; cl17235 257363000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 257363000016 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 257363000017 FAD binding pocket [chemical binding]; other site 257363000018 conserved FAD binding motif [chemical binding]; other site 257363000019 phosphate binding motif [ion binding]; other site 257363000020 beta-alpha-beta structure motif; other site 257363000021 NAD binding pocket [chemical binding]; other site 257363000022 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 257363000023 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 257363000024 active site 257363000025 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 257363000026 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 257363000027 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 257363000028 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 257363000029 trimer interface [polypeptide binding]; other site 257363000030 active site 257363000031 UDP-GlcNAc binding site [chemical binding]; other site 257363000032 lipid binding site [chemical binding]; lipid-binding site 257363000033 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 257363000034 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 257363000035 FMN binding site [chemical binding]; other site 257363000036 active site 257363000037 catalytic residues [active] 257363000038 substrate binding site [chemical binding]; other site 257363000039 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 257363000040 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 257363000041 NodB motif; other site 257363000042 putative active site [active] 257363000043 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 257363000044 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 257363000045 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 257363000046 putative ligand binding site [chemical binding]; other site 257363000047 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 257363000048 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 257363000049 active site 257363000050 NTP binding site [chemical binding]; other site 257363000051 metal binding triad [ion binding]; metal-binding site 257363000052 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 257363000053 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257363000054 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 257363000055 active site 257363000056 putative DNA-binding cleft [nucleotide binding]; other site 257363000057 dimer interface [polypeptide binding]; other site 257363000058 GTPase [General function prediction only]; Region: Era; COG1159 257363000059 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 257363000060 G1 box; other site 257363000061 GTP/Mg2+ binding site [chemical binding]; other site 257363000062 Switch I region; other site 257363000063 G2 box; other site 257363000064 Switch II region; other site 257363000065 G3 box; other site 257363000066 G4 box; other site 257363000067 G5 box; other site 257363000068 KH domain; Region: KH_2; pfam07650 257363000069 ribonuclease III; Reviewed; Region: rnc; PRK00102 257363000070 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 257363000071 dimerization interface [polypeptide binding]; other site 257363000072 active site 257363000073 metal binding site [ion binding]; metal-binding site 257363000074 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 257363000075 dsRNA binding site [nucleotide binding]; other site 257363000076 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 257363000077 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 257363000078 Catalytic site [active] 257363000079 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 257363000080 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 257363000081 SLBB domain; Region: SLBB; pfam10531 257363000082 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 257363000083 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 257363000084 Protein export membrane protein; Region: SecD_SecF; pfam02355 257363000085 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 257363000086 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 257363000087 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 257363000088 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 257363000089 propionate/acetate kinase; Provisional; Region: PRK12379 257363000090 phosphate acetyltransferase; Provisional; Region: PRK11890 257363000091 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 257363000092 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 257363000093 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 257363000094 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 257363000095 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 257363000096 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 257363000097 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 257363000098 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 257363000099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363000100 Walker A/P-loop; other site 257363000101 ATP binding site [chemical binding]; other site 257363000102 type IV secretion system protein VirB3; Provisional; Region: PRK13899 257363000103 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 257363000104 G1 box; other site 257363000105 GTP/Mg2+ binding site [chemical binding]; other site 257363000106 Switch I region; other site 257363000107 G2 box; other site 257363000108 G3 box; other site 257363000109 Switch II region; other site 257363000110 G4 box; other site 257363000111 G5 box; other site 257363000112 50S ribosomal protein L31; Provisional; Region: PRK01397 257363000113 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 257363000114 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 257363000115 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 257363000116 Walker A/P-loop; other site 257363000117 ATP binding site [chemical binding]; other site 257363000118 Q-loop/lid; other site 257363000119 ABC transporter signature motif; other site 257363000120 Walker B; other site 257363000121 D-loop; other site 257363000122 H-loop/switch region; other site 257363000123 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 257363000124 Permease; Region: Permease; pfam02405 257363000125 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 257363000126 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 257363000127 active site 257363000128 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257363000129 dimer interface [polypeptide binding]; other site 257363000130 substrate binding site [chemical binding]; other site 257363000131 catalytic residues [active] 257363000132 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 257363000133 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 257363000134 Methyltransferase domain; Region: Methyltransf_23; pfam13489 257363000135 Methyltransferase domain; Region: Methyltransf_18; pfam12847 257363000136 S-adenosylmethionine binding site [chemical binding]; other site 257363000137 aspartate aminotransferase; Provisional; Region: PRK05764 257363000138 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 257363000139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257363000140 homodimer interface [polypeptide binding]; other site 257363000141 catalytic residue [active] 257363000142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 257363000143 putative acyl-acceptor binding pocket; other site 257363000144 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 257363000145 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 257363000146 elongation factor Ts; Provisional; Region: tsf; PRK09377 257363000147 UBA/TS-N domain; Region: UBA; pfam00627 257363000148 Elongation factor TS; Region: EF_TS; pfam00889 257363000149 Elongation factor TS; Region: EF_TS; pfam00889 257363000150 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 257363000151 rRNA interaction site [nucleotide binding]; other site 257363000152 S8 interaction site; other site 257363000153 putative laminin-1 binding site; other site 257363000154 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 257363000155 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 257363000156 active site 257363000157 HIGH motif; other site 257363000158 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 257363000159 KMSKS motif; other site 257363000160 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 257363000161 tRNA binding surface [nucleotide binding]; other site 257363000162 anticodon binding site; other site 257363000163 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257363000164 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 257363000165 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363000166 putative substrate translocation pore; other site 257363000167 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257363000168 EamA-like transporter family; Region: EamA; pfam00892 257363000169 EamA-like transporter family; Region: EamA; pfam00892 257363000170 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 257363000171 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 257363000172 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 257363000173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 257363000174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 257363000175 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 257363000176 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 257363000177 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257363000178 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 257363000179 active site 257363000180 phosphorylation site [posttranslational modification] 257363000181 intermolecular recognition site; other site 257363000182 dimerization interface [polypeptide binding]; other site 257363000183 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 257363000184 DNA binding site [nucleotide binding] 257363000185 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 257363000186 SecA binding site; other site 257363000187 Preprotein binding site; other site 257363000188 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 257363000189 trimer interface [polypeptide binding]; other site 257363000190 active site 257363000191 Gram-negative porin; Region: Porin_4; pfam13609 257363000192 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 257363000193 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 257363000194 CAP-like domain; other site 257363000195 active site 257363000196 primary dimer interface [polypeptide binding]; other site 257363000197 Sporulation related domain; Region: SPOR; pfam05036 257363000198 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 257363000199 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 257363000200 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 257363000201 active site 257363000202 HIGH motif; other site 257363000203 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257363000204 KMSK motif region; other site 257363000205 tRNA binding surface [nucleotide binding]; other site 257363000206 DALR anticodon binding domain; Region: DALR_1; smart00836 257363000207 anticodon binding site; other site 257363000208 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 257363000209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257363000210 Zn2+ binding site [ion binding]; other site 257363000211 Mg2+ binding site [ion binding]; other site 257363000212 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 257363000213 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 257363000214 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 257363000215 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 257363000216 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 257363000217 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 257363000218 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257363000219 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257363000220 ABC transporter; Region: ABC_tran_2; pfam12848 257363000221 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257363000222 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 257363000223 ParB-like nuclease domain; Region: ParBc; pfam02195 257363000224 KorB domain; Region: KorB; pfam08535 257363000225 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 257363000226 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 257363000227 P loop; other site 257363000228 Nucleotide binding site [chemical binding]; other site 257363000229 DTAP/Switch II; other site 257363000230 Switch I; other site 257363000231 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 257363000232 Magnesium ion binding site [ion binding]; other site 257363000233 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 257363000234 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 257363000235 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 257363000236 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 257363000237 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 257363000238 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 257363000239 active site 257363000240 multimer interface [polypeptide binding]; other site 257363000241 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 257363000242 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 257363000243 putative substrate translocation pore; other site 257363000244 TLC ATP/ADP transporter; Region: TLC; pfam03219 257363000245 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 257363000246 membrane protein insertase; Provisional; Region: PRK01318 257363000247 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 257363000248 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 257363000249 Mechanosensitive ion channel; Region: MS_channel; pfam00924 257363000250 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 257363000251 Uncharacterized conserved protein [Function unknown]; Region: COG1565 257363000252 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 257363000253 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 257363000254 FtsH Extracellular; Region: FtsH_ext; pfam06480 257363000255 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 257363000256 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 257363000257 Walker A motif; other site 257363000258 ATP binding site [chemical binding]; other site 257363000259 Walker B motif; other site 257363000260 arginine finger; other site 257363000261 Peptidase family M41; Region: Peptidase_M41; pfam01434 257363000262 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 257363000263 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 257363000264 Ligand Binding Site [chemical binding]; other site 257363000265 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 257363000266 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 257363000267 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 257363000268 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 257363000269 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 257363000270 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 257363000271 Fatty acid desaturase; Region: FA_desaturase; pfam00487 257363000272 Di-iron ligands [ion binding]; other site 257363000273 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 257363000274 UGMP family protein; Validated; Region: PRK09604 257363000275 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 257363000276 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 257363000277 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 257363000278 Clp amino terminal domain; Region: Clp_N; pfam02861 257363000279 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 257363000280 Walker A motif; other site 257363000281 ATP binding site [chemical binding]; other site 257363000282 Walker B motif; other site 257363000283 arginine finger; other site 257363000284 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 257363000285 Walker A motif; other site 257363000286 ATP binding site [chemical binding]; other site 257363000287 Walker B motif; other site 257363000288 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257363000289 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 257363000290 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 257363000291 NAD(P) binding site [chemical binding]; other site 257363000292 homotetramer interface [polypeptide binding]; other site 257363000293 homodimer interface [polypeptide binding]; other site 257363000294 active site 257363000295 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 257363000296 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 257363000297 Colicin V production protein; Region: Colicin_V; pfam02674 257363000298 Putative transcriptional regulator [Transcription]; Region: COG1678 257363000299 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 257363000300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363000301 Walker A/P-loop; other site 257363000302 ATP binding site [chemical binding]; other site 257363000303 Q-loop/lid; other site 257363000304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363000305 ABC transporter signature motif; other site 257363000306 Walker B; other site 257363000307 D-loop; other site 257363000308 H-loop/switch region; other site 257363000309 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257363000310 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 257363000311 S-adenosylmethionine binding site [chemical binding]; other site 257363000312 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 257363000313 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 257363000314 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 257363000315 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 257363000316 catalytic residues [active] 257363000317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 257363000318 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 257363000319 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 257363000320 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 257363000321 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 257363000322 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 257363000323 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 257363000324 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 257363000325 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 257363000326 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 257363000327 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 257363000328 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 257363000329 Walker A motif; other site 257363000330 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 257363000331 HflK protein; Region: hflK; TIGR01933 257363000332 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 257363000333 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 257363000334 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 257363000335 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 257363000336 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 257363000337 protein binding site [polypeptide binding]; other site 257363000338 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 257363000339 protein binding site [polypeptide binding]; other site 257363000340 hypothetical protein; Validated; Region: PRK01415 257363000341 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 257363000342 active site residue [active] 257363000343 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 257363000344 Iron-sulfur protein interface; other site 257363000345 proximal quinone binding site [chemical binding]; other site 257363000346 SdhD (CybS) interface [polypeptide binding]; other site 257363000347 proximal heme binding site [chemical binding]; other site 257363000348 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 257363000349 putative SdhC subunit interface [polypeptide binding]; other site 257363000350 putative proximal heme binding site [chemical binding]; other site 257363000351 putative Iron-sulfur protein interface [polypeptide binding]; other site 257363000352 putative proximal quinone binding site; other site 257363000353 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 257363000354 L-aspartate oxidase; Provisional; Region: PRK06175 257363000355 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 257363000356 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257363000357 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 257363000358 dimer interface [polypeptide binding]; other site 257363000359 conserved gate region; other site 257363000360 putative PBP binding loops; other site 257363000361 ABC-ATPase subunit interface; other site 257363000362 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 257363000363 S17 interaction site [polypeptide binding]; other site 257363000364 S8 interaction site; other site 257363000365 16S rRNA interaction site [nucleotide binding]; other site 257363000366 streptomycin interaction site [chemical binding]; other site 257363000367 23S rRNA interaction site [nucleotide binding]; other site 257363000368 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 257363000369 30S ribosomal protein S7; Validated; Region: PRK05302 257363000370 elongation factor G; Reviewed; Region: PRK00007 257363000371 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 257363000372 G1 box; other site 257363000373 putative GEF interaction site [polypeptide binding]; other site 257363000374 GTP/Mg2+ binding site [chemical binding]; other site 257363000375 Switch I region; other site 257363000376 G2 box; other site 257363000377 G3 box; other site 257363000378 Switch II region; other site 257363000379 G4 box; other site 257363000380 G5 box; other site 257363000381 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 257363000382 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 257363000383 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 257363000384 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 257363000385 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 257363000386 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 257363000387 putative homodimer interface [polypeptide binding]; other site 257363000388 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 257363000389 heterodimer interface [polypeptide binding]; other site 257363000390 homodimer interface [polypeptide binding]; other site 257363000391 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 257363000392 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 257363000393 23S rRNA interface [nucleotide binding]; other site 257363000394 putative thiostrepton binding site; other site 257363000395 L7/L12 interface [polypeptide binding]; other site 257363000396 L25 interface [polypeptide binding]; other site 257363000397 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 257363000398 mRNA/rRNA interface [nucleotide binding]; other site 257363000399 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 257363000400 23S rRNA interface [nucleotide binding]; other site 257363000401 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 257363000402 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 257363000403 core dimer interface [polypeptide binding]; other site 257363000404 peripheral dimer interface [polypeptide binding]; other site 257363000405 L10 interface [polypeptide binding]; other site 257363000406 L11 interface [polypeptide binding]; other site 257363000407 putative EF-Tu interaction site [polypeptide binding]; other site 257363000408 putative EF-G interaction site [polypeptide binding]; other site 257363000409 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 257363000410 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 257363000411 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 257363000412 RPB11 interaction site [polypeptide binding]; other site 257363000413 RPB12 interaction site [polypeptide binding]; other site 257363000414 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 257363000415 RPB3 interaction site [polypeptide binding]; other site 257363000416 RPB1 interaction site [polypeptide binding]; other site 257363000417 RPB11 interaction site [polypeptide binding]; other site 257363000418 RPB10 interaction site [polypeptide binding]; other site 257363000419 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 257363000420 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 257363000421 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 257363000422 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 257363000423 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 257363000424 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 257363000425 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 257363000426 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 257363000427 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 257363000428 DNA binding site [nucleotide binding] 257363000429 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 257363000430 multifunctional aminopeptidase A; Provisional; Region: PRK00913 257363000431 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 257363000432 interface (dimer of trimers) [polypeptide binding]; other site 257363000433 Substrate-binding/catalytic site; other site 257363000434 Zn-binding sites [ion binding]; other site 257363000435 ATPase MipZ; Region: MipZ; pfam09140 257363000436 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 257363000437 P-loop; other site 257363000438 Magnesium ion binding site [ion binding]; other site 257363000439 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 257363000440 Magnesium ion binding site [ion binding]; other site 257363000441 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 257363000442 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 257363000443 dimer interface [polypeptide binding]; other site 257363000444 anticodon binding site; other site 257363000445 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 257363000446 homodimer interface [polypeptide binding]; other site 257363000447 motif 1; other site 257363000448 active site 257363000449 motif 2; other site 257363000450 GAD domain; Region: GAD; pfam02938 257363000451 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 257363000452 active site 257363000453 motif 3; other site 257363000454 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 257363000455 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 257363000456 dihydrodipicolinate reductase; Provisional; Region: PRK00048 257363000457 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 257363000458 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 257363000459 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 257363000460 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257363000461 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 257363000462 substrate binding pocket [chemical binding]; other site 257363000463 membrane-bound complex binding site; other site 257363000464 hinge residues; other site 257363000465 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 257363000466 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 257363000467 GatB domain; Region: GatB_Yqey; smart00845 257363000468 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257363000469 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 257363000470 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 257363000471 ribosome recycling factor; Reviewed; Region: frr; PRK00083 257363000472 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 257363000473 hinge region; other site 257363000474 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 257363000475 putative nucleotide binding site [chemical binding]; other site 257363000476 uridine monophosphate binding site [chemical binding]; other site 257363000477 homohexameric interface [polypeptide binding]; other site 257363000478 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 257363000479 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 257363000480 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 257363000481 putative substrate translocation pore; other site 257363000482 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 257363000483 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 257363000484 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 257363000485 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257363000486 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257363000487 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257363000488 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257363000489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257363000490 Surface antigen; Region: Bac_surface_Ag; pfam01103 257363000491 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 257363000492 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 257363000493 active site 257363000494 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 257363000495 protein binding site [polypeptide binding]; other site 257363000496 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 257363000497 putative substrate binding region [chemical binding]; other site 257363000498 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 257363000499 putative RNA binding site [nucleotide binding]; other site 257363000500 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 257363000501 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 257363000502 S-adenosylmethionine binding site [chemical binding]; other site 257363000503 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 257363000504 putative coenzyme Q binding site [chemical binding]; other site 257363000505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 257363000506 RNA methyltransferase, RsmE family; Region: TIGR00046 257363000507 Domain of unknown function (DUF378); Region: DUF378; cl00943 257363000508 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 257363000509 Protein export membrane protein; Region: SecD_SecF; cl14618 257363000510 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 257363000511 IHF dimer interface [polypeptide binding]; other site 257363000512 IHF - DNA interface [nucleotide binding]; other site 257363000513 DNA polymerase III subunit delta'; Validated; Region: PRK06581 257363000514 signal recognition particle protein; Provisional; Region: PRK10867 257363000515 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 257363000516 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 257363000517 Signal peptide binding domain; Region: SRP_SPB; pfam02978 257363000518 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 257363000519 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257363000520 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 257363000521 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 257363000522 FeS/SAM binding site; other site 257363000523 HemN C-terminal domain; Region: HemN_C; pfam06969 257363000524 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 257363000525 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 257363000526 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 257363000527 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 257363000528 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 257363000529 active site 257363000530 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 257363000531 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 257363000532 E3 interaction surface; other site 257363000533 lipoyl attachment site [posttranslational modification]; other site 257363000534 e3 binding domain; Region: E3_binding; pfam02817 257363000535 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 257363000536 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 257363000537 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 257363000538 TPP-binding site [chemical binding]; other site 257363000539 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 257363000540 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 257363000541 Zn binding site [ion binding]; other site 257363000542 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 257363000543 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 257363000544 Walker A/P-loop; other site 257363000545 ATP binding site [chemical binding]; other site 257363000546 Q-loop/lid; other site 257363000547 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 257363000548 ABC transporter signature motif; other site 257363000549 Walker B; other site 257363000550 D-loop; other site 257363000551 H-loop/switch region; other site 257363000552 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 257363000553 Tetratricopeptide repeat; Region: TPR_6; pfam13174 257363000554 chaperone protein DnaJ; Provisional; Region: PRK14300 257363000555 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 257363000556 HSP70 interaction site [polypeptide binding]; other site 257363000557 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 257363000558 substrate binding site [polypeptide binding]; other site 257363000559 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 257363000560 Zn binding sites [ion binding]; other site 257363000561 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 257363000562 dimer interface [polypeptide binding]; other site 257363000563 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 257363000564 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 257363000565 nucleotide binding site [chemical binding]; other site 257363000566 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 257363000567 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 257363000568 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 257363000569 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 257363000570 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 257363000571 diiron binding motif [ion binding]; other site 257363000572 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 257363000573 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 257363000574 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 257363000575 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 257363000576 trimer interface [polypeptide binding]; other site 257363000577 active site 257363000578 substrate binding site [chemical binding]; other site 257363000579 CoA binding site [chemical binding]; other site 257363000580 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 257363000581 Transglycosylase; Region: Transgly; pfam00912 257363000582 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257363000583 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 257363000584 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 257363000585 Ligand Binding Site [chemical binding]; other site 257363000586 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 257363000587 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257363000588 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257363000589 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 257363000590 catalytic loop [active] 257363000591 iron binding site [ion binding]; other site 257363000592 chaperone protein HscA; Provisional; Region: hscA; PRK01433 257363000593 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 257363000594 nucleotide binding site [chemical binding]; other site 257363000595 co-chaperone HscB; Provisional; Region: hscB; PRK01356 257363000596 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 257363000597 HSP70 interaction site [polypeptide binding]; other site 257363000598 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 257363000599 RNA/DNA hybrid binding site [nucleotide binding]; other site 257363000600 active site 257363000601 excinuclease ABC subunit B; Provisional; Region: PRK05298 257363000602 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 257363000603 ATP binding site [chemical binding]; other site 257363000604 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 257363000605 nucleotide binding region [chemical binding]; other site 257363000606 ATP-binding site [chemical binding]; other site 257363000607 Ultra-violet resistance protein B; Region: UvrB; pfam12344 257363000608 UvrB/uvrC motif; Region: UVR; pfam02151 257363000609 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 257363000610 GSH binding site [chemical binding]; other site 257363000611 catalytic residues [active] 257363000612 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257363000613 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 257363000614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363000615 Walker A/P-loop; other site 257363000616 ATP binding site [chemical binding]; other site 257363000617 Q-loop/lid; other site 257363000618 ABC transporter signature motif; other site 257363000619 Walker B; other site 257363000620 D-loop; other site 257363000621 H-loop/switch region; other site 257363000622 DNA gyrase subunit A; Validated; Region: PRK05560 257363000623 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 257363000624 CAP-like domain; other site 257363000625 active site 257363000626 primary dimer interface [polypeptide binding]; other site 257363000627 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257363000628 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257363000629 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257363000630 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257363000631 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 257363000632 active site 257363000633 catalytic residues [active] 257363000634 metal binding site [ion binding]; metal-binding site 257363000635 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 257363000636 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 257363000637 putative active site [active] 257363000638 substrate binding site [chemical binding]; other site 257363000639 putative cosubstrate binding site; other site 257363000640 catalytic site [active] 257363000641 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 257363000642 substrate binding site [chemical binding]; other site 257363000643 Predicted ATPase [General function prediction only]; Region: COG1485 257363000644 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 257363000645 Walker A motif; other site 257363000646 ATP binding site [chemical binding]; other site 257363000647 Walker B motif; other site 257363000648 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 257363000649 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 257363000650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257363000651 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257363000652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363000653 Walker A/P-loop; other site 257363000654 ATP binding site [chemical binding]; other site 257363000655 Q-loop/lid; other site 257363000656 ABC transporter signature motif; other site 257363000657 Walker B; other site 257363000658 D-loop; other site 257363000659 H-loop/switch region; other site 257363000660 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 257363000661 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 257363000662 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 257363000663 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 257363000664 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 257363000665 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257363000666 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 257363000667 putative metal binding site; other site 257363000668 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 257363000669 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 257363000670 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 257363000671 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 257363000672 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 257363000673 ATP binding site [chemical binding]; other site 257363000674 active site 257363000675 substrate binding site [chemical binding]; other site 257363000676 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 257363000677 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 257363000678 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 257363000679 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 257363000680 active site 257363000681 dimer interface [polypeptide binding]; other site 257363000682 motif 1; other site 257363000683 motif 2; other site 257363000684 motif 3; other site 257363000685 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 257363000686 anticodon binding site; other site 257363000687 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 257363000688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257363000689 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 257363000690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 257363000691 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 257363000692 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 257363000693 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 257363000694 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 257363000695 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 257363000696 ATP binding site [chemical binding]; other site 257363000697 Mg2+ binding site [ion binding]; other site 257363000698 G-X-G motif; other site 257363000699 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 257363000700 anchoring element; other site 257363000701 dimer interface [polypeptide binding]; other site 257363000702 ATP binding site [chemical binding]; other site 257363000703 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 257363000704 active site 257363000705 metal binding site [ion binding]; metal-binding site 257363000706 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 257363000707 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 257363000708 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 257363000709 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 257363000710 protein binding site [polypeptide binding]; other site 257363000711 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 257363000712 Catalytic dyad [active] 257363000713 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257363000714 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 257363000715 dimer interface [polypeptide binding]; other site 257363000716 phosphorylation site [posttranslational modification] 257363000717 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 257363000718 ATP binding site [chemical binding]; other site 257363000719 Mg2+ binding site [ion binding]; other site 257363000720 G-X-G motif; other site 257363000721 Tetratricopeptide repeat; Region: TPR_16; pfam13432 257363000722 Tetratricopeptide repeat; Region: TPR_6; pfam13174 257363000723 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 257363000724 FOG: WD40-like repeat [Function unknown]; Region: COG1520 257363000725 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 257363000726 Trp docking motif [polypeptide binding]; other site 257363000727 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 257363000728 23S rRNA interface [nucleotide binding]; other site 257363000729 L3 interface [polypeptide binding]; other site 257363000730 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 257363000731 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 257363000732 putative active site [active] 257363000733 Ap4A binding site [chemical binding]; other site 257363000734 nudix motif; other site 257363000735 putative metal binding site [ion binding]; other site 257363000736 response regulator PleD; Reviewed; Region: pleD; PRK09581 257363000737 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 257363000738 active site 257363000739 phosphorylation site [posttranslational modification] 257363000740 intermolecular recognition site; other site 257363000741 dimerization interface [polypeptide binding]; other site 257363000742 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 257363000743 active site 257363000744 phosphorylation site [posttranslational modification] 257363000745 intermolecular recognition site; other site 257363000746 dimerization interface [polypeptide binding]; other site 257363000747 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257363000748 metal binding site [ion binding]; metal-binding site 257363000749 active site 257363000750 I-site; other site 257363000751 elongation factor P; Validated; Region: PRK00529 257363000752 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 257363000753 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 257363000754 RNA binding site [nucleotide binding]; other site 257363000755 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 257363000756 RNA binding site [nucleotide binding]; other site 257363000757 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 257363000758 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 257363000759 active site 257363000760 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 257363000761 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 257363000762 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 257363000763 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 257363000764 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 257363000765 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257363000766 HlyD family secretion protein; Region: HlyD_3; pfam13437 257363000767 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 257363000768 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 257363000769 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 257363000770 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257363000771 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257363000772 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257363000773 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 257363000774 FAD binding domain; Region: FAD_binding_4; pfam01565 257363000775 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 257363000776 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 257363000777 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 257363000778 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257363000779 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 257363000780 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 257363000781 Cell division protein FtsQ; Region: FtsQ; pfam03799 257363000782 cell division protein FtsA; Region: ftsA; TIGR01174 257363000783 Cell division protein FtsA; Region: FtsA; smart00842 257363000784 Cell division protein FtsA; Region: FtsA; pfam14450 257363000785 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 257363000786 Cytochrome c2 [Energy production and conversion]; Region: COG3474 257363000787 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 257363000788 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 257363000789 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 257363000790 RNA binding site [nucleotide binding]; other site 257363000791 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 257363000792 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 257363000793 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 257363000794 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 257363000795 RNA binding surface [nucleotide binding]; other site 257363000796 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257363000797 active site 257363000798 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 257363000799 Beta-lactamase; Region: Beta-lactamase; pfam00144 257363000800 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 257363000801 putative catalytic site [active] 257363000802 putative phosphate binding site [ion binding]; other site 257363000803 active site 257363000804 metal binding site A [ion binding]; metal-binding site 257363000805 DNA binding site [nucleotide binding] 257363000806 putative AP binding site [nucleotide binding]; other site 257363000807 putative metal binding site B [ion binding]; other site 257363000808 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 257363000809 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 257363000810 tetramer interface [polypeptide binding]; other site 257363000811 TPP-binding site [chemical binding]; other site 257363000812 heterodimer interface [polypeptide binding]; other site 257363000813 phosphorylation loop region [posttranslational modification] 257363000814 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 257363000815 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 257363000816 alpha subunit interface [polypeptide binding]; other site 257363000817 TPP binding site [chemical binding]; other site 257363000818 heterodimer interface [polypeptide binding]; other site 257363000819 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 257363000820 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 257363000821 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 257363000822 G1 box; other site 257363000823 putative GEF interaction site [polypeptide binding]; other site 257363000824 GTP/Mg2+ binding site [chemical binding]; other site 257363000825 Switch I region; other site 257363000826 G2 box; other site 257363000827 G3 box; other site 257363000828 Switch II region; other site 257363000829 G4 box; other site 257363000830 G5 box; other site 257363000831 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 257363000832 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 257363000833 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 257363000834 isocitrate dehydrogenase; Validated; Region: PRK09222 257363000835 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 257363000836 monovalent cation/proton antiporter, MnhG/PhaG subunit; Region: CPA3_mnhG_phaG; TIGR01300 257363000837 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 257363000838 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 257363000839 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 257363000840 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 257363000841 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 257363000842 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 257363000843 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 257363000844 [2Fe-2S] cluster binding site [ion binding]; other site 257363000845 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 257363000846 cytochrome b; Provisional; Region: CYTB; MTH00191 257363000847 Qi binding site; other site 257363000848 intrachain domain interface; other site 257363000849 interchain domain interface [polypeptide binding]; other site 257363000850 heme bH binding site [chemical binding]; other site 257363000851 heme bL binding site [chemical binding]; other site 257363000852 Qo binding site; other site 257363000853 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 257363000854 interchain domain interface [polypeptide binding]; other site 257363000855 intrachain domain interface; other site 257363000856 Qi binding site; other site 257363000857 Qo binding site; other site 257363000858 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 257363000859 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 257363000860 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 257363000861 putative dimer interface [polypeptide binding]; other site 257363000862 peptide chain release factor 2; Validated; Region: prfB; PRK00578 257363000863 Retrograde transport protein Dsl1 N terminal; Region: Dsl1_N; pfam11988 257363000864 PCRF domain; Region: PCRF; pfam03462 257363000865 RF-1 domain; Region: RF-1; pfam00472 257363000866 GTP-binding protein LepA; Provisional; Region: PRK05433 257363000867 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 257363000868 G1 box; other site 257363000869 putative GEF interaction site [polypeptide binding]; other site 257363000870 GTP/Mg2+ binding site [chemical binding]; other site 257363000871 Switch I region; other site 257363000872 G2 box; other site 257363000873 G3 box; other site 257363000874 Switch II region; other site 257363000875 G4 box; other site 257363000876 G5 box; other site 257363000877 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 257363000878 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 257363000879 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 257363000880 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 257363000881 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 257363000882 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257363000883 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 257363000884 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257363000885 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 257363000886 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257363000887 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 257363000888 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257363000889 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 257363000890 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 257363000891 VirB7 interaction site; other site 257363000892 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 257363000893 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 257363000894 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 257363000895 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 257363000896 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 257363000897 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 257363000898 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 257363000899 Walker A motif; other site 257363000900 hexamer interface [polypeptide binding]; other site 257363000901 ATP binding site [chemical binding]; other site 257363000902 Walker B motif; other site 257363000903 type IV secretion system component VirD4; Provisional; Region: PRK13897 257363000904 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 257363000905 Walker A motif; other site 257363000906 ATP binding site [chemical binding]; other site 257363000907 Walker B motif; other site 257363000908 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 257363000909 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 257363000910 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 257363000911 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 257363000912 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 257363000913 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 257363000914 active site 257363000915 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 257363000916 MutS domain I; Region: MutS_I; pfam01624 257363000917 MutS domain II; Region: MutS_II; pfam05188 257363000918 MutS domain III; Region: MutS_III; pfam05192 257363000919 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 257363000920 Walker A/P-loop; other site 257363000921 ATP binding site [chemical binding]; other site 257363000922 Q-loop/lid; other site 257363000923 ABC transporter signature motif; other site 257363000924 Walker B; other site 257363000925 D-loop; other site 257363000926 H-loop/switch region; other site 257363000927 sugar-phosphate isomerase, RpiB/LacA/LacB family; Region: rpiB_lacA_lacB; TIGR00689 257363000928 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 257363000929 Peptidase family M23; Region: Peptidase_M23; pfam01551 257363000930 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 257363000931 translocation protein TolB; Provisional; Region: tolB; PRK05137 257363000932 TolB amino-terminal domain; Region: TolB_N; pfam04052 257363000933 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 257363000934 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 257363000935 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 257363000936 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 257363000937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257363000938 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 257363000939 DNA binding residues [nucleotide binding] 257363000940 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 257363000941 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 257363000942 Ligand Binding Site [chemical binding]; other site 257363000943 amino acid transporter; Region: 2A0306; TIGR00909 257363000944 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 257363000945 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 257363000946 dimer interface [polypeptide binding]; other site 257363000947 motif 1; other site 257363000948 active site 257363000949 motif 2; other site 257363000950 motif 3; other site 257363000951 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 257363000952 anticodon binding site; other site 257363000953 TolQ protein; Region: tolQ; TIGR02796 257363000954 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 257363000955 TolR protein; Region: tolR; TIGR02801 257363000956 Gram-negative bacterial tonB protein; Region: TonB; cl10048 257363000957 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257363000958 HD domain; Region: HD_4; pfam13328 257363000959 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 257363000960 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363000961 putative substrate translocation pore; other site 257363000962 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 257363000963 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 257363000964 HlyD family secretion protein; Region: HlyD_3; pfam13437 257363000965 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 257363000966 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 257363000967 Walker A/P-loop; other site 257363000968 ATP binding site [chemical binding]; other site 257363000969 Q-loop/lid; other site 257363000970 ABC transporter signature motif; other site 257363000971 Walker B; other site 257363000972 D-loop; other site 257363000973 H-loop/switch region; other site 257363000974 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 257363000975 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 257363000976 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 257363000977 nucleotide binding site/active site [active] 257363000978 HIT family signature motif; other site 257363000979 catalytic residue [active] 257363000980 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 257363000981 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 257363000982 active site 257363000983 HslU subunit interaction site [polypeptide binding]; other site 257363000984 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 257363000985 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 257363000986 Walker A motif; other site 257363000987 ATP binding site [chemical binding]; other site 257363000988 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 257363000989 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 257363000990 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 257363000991 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 257363000992 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 257363000993 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 257363000994 dimerization interface [polypeptide binding]; other site 257363000995 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 257363000996 putative iron binding site [ion binding]; other site 257363000997 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 257363000998 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257363000999 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 257363001000 active site 257363001001 HIGH motif; other site 257363001002 nucleotide binding site [chemical binding]; other site 257363001003 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257363001004 active site 257363001005 KMSKS motif; other site 257363001006 DNA topoisomerase I; Validated; Region: PRK06599 257363001007 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 257363001008 active site 257363001009 interdomain interaction site; other site 257363001010 putative metal-binding site [ion binding]; other site 257363001011 nucleotide binding site [chemical binding]; other site 257363001012 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 257363001013 domain I; other site 257363001014 DNA binding groove [nucleotide binding] 257363001015 phosphate binding site [ion binding]; other site 257363001016 domain II; other site 257363001017 domain III; other site 257363001018 nucleotide binding site [chemical binding]; other site 257363001019 catalytic site [active] 257363001020 domain IV; other site 257363001021 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 257363001022 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 257363001023 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 257363001024 dimer interface [polypeptide binding]; other site 257363001025 decamer (pentamer of dimers) interface [polypeptide binding]; other site 257363001026 catalytic triad [active] 257363001027 peroxidatic and resolving cysteines [active] 257363001028 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 257363001029 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 257363001030 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 257363001031 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 257363001032 Sulfatase; Region: Sulfatase; pfam00884 257363001033 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 257363001034 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 257363001035 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 257363001036 NADP binding site [chemical binding]; other site 257363001037 active site 257363001038 putative substrate binding site [chemical binding]; other site 257363001039 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 257363001040 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 257363001041 NAD(P) binding site [chemical binding]; other site 257363001042 homodimer interface [polypeptide binding]; other site 257363001043 substrate binding site [chemical binding]; other site 257363001044 active site 257363001045 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 257363001046 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 257363001047 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 257363001048 active site 257363001049 homodimer interface [polypeptide binding]; other site 257363001050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257363001051 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 257363001052 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257363001053 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 257363001054 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 257363001055 Acyltransferase family; Region: Acyl_transf_3; pfam01757 257363001056 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257363001057 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 257363001058 active site 257363001059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257363001060 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 257363001061 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 257363001062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257363001063 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 257363001064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257363001065 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257363001066 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257363001067 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 257363001068 putative ADP-binding pocket [chemical binding]; other site 257363001069 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 257363001070 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 257363001071 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 257363001072 RNA binding surface [nucleotide binding]; other site 257363001073 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 257363001074 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 257363001075 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 257363001076 RimM N-terminal domain; Region: RimM; pfam01782 257363001077 PRC-barrel domain; Region: PRC; pfam05239 257363001078 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 257363001079 exodeoxyribonuclease VII, small subunit; Region: xseB; TIGR01280 257363001080 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 257363001081 active site 257363001082 DNA binding site [nucleotide binding] 257363001083 hypothetical protein; Provisional; Region: PRK14388 257363001084 NADH dehydrogenase subunit E; Validated; Region: PRK07539 257363001085 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 257363001086 putative dimer interface [polypeptide binding]; other site 257363001087 [2Fe-2S] cluster binding site [ion binding]; other site 257363001088 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 257363001089 NADH dehydrogenase subunit D; Validated; Region: PRK06075 257363001090 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 257363001091 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 257363001092 NADH dehydrogenase subunit B; Validated; Region: PRK06411 257363001093 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 257363001094 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 257363001095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 257363001096 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 257363001097 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 257363001098 active site 257363001099 DNA binding site [nucleotide binding] 257363001100 Int/Topo IB signature motif; other site 257363001101 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 257363001102 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 257363001103 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 257363001104 NAD binding site [chemical binding]; other site 257363001105 homotetramer interface [polypeptide binding]; other site 257363001106 homodimer interface [polypeptide binding]; other site 257363001107 substrate binding site [chemical binding]; other site 257363001108 active site 257363001109 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 257363001110 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 257363001111 putative active site [active] 257363001112 catalytic triad [active] 257363001113 putative dimer interface [polypeptide binding]; other site 257363001114 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 257363001115 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 257363001116 TM-ABC transporter signature motif; other site 257363001117 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 257363001118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363001119 Walker A/P-loop; other site 257363001120 ATP binding site [chemical binding]; other site 257363001121 Q-loop/lid; other site 257363001122 ABC transporter signature motif; other site 257363001123 Walker B; other site 257363001124 D-loop; other site 257363001125 H-loop/switch region; other site 257363001126 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 257363001127 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 257363001128 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 257363001129 active site 257363001130 HIGH motif; other site 257363001131 KMSKS motif; other site 257363001132 Predicted permeases [General function prediction only]; Region: COG0679 257363001133 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 257363001134 Malic enzyme, N-terminal domain; Region: malic; pfam00390 257363001135 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 257363001136 putative NAD(P) binding site [chemical binding]; other site 257363001137 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 257363001138 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 257363001139 active site/putative ARF binding site [active] 257363001140 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 257363001141 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363001142 putative substrate translocation pore; other site 257363001143 malate dehydrogenase; Reviewed; Region: PRK06223 257363001144 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 257363001145 NAD(P) binding site [chemical binding]; other site 257363001146 dimer interface [polypeptide binding]; other site 257363001147 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257363001148 substrate binding site [chemical binding]; other site 257363001149 TLC ATP/ADP transporter; Region: TLC; pfam03219 257363001150 CTP synthetase; Validated; Region: pyrG; PRK05380 257363001151 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 257363001152 Catalytic site [active] 257363001153 active site 257363001154 UTP binding site [chemical binding]; other site 257363001155 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 257363001156 active site 257363001157 putative oxyanion hole; other site 257363001158 catalytic triad [active] 257363001159 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 257363001160 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 257363001161 Ligand binding site; other site 257363001162 oligomer interface; other site 257363001163 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 257363001164 GTP cyclohydrolase I; Provisional; Region: PLN03044 257363001165 active site 257363001166 prolyl-tRNA synthetase; Provisional; Region: PRK12325 257363001167 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 257363001168 dimer interface [polypeptide binding]; other site 257363001169 motif 1; other site 257363001170 active site 257363001171 motif 2; other site 257363001172 motif 3; other site 257363001173 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 257363001174 anticodon binding site; other site 257363001175 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 257363001176 RuvA N terminal domain; Region: RuvA_N; pfam01330 257363001177 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 257363001178 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 257363001179 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 257363001180 Walker A motif; other site 257363001181 ATP binding site [chemical binding]; other site 257363001182 Walker B motif; other site 257363001183 arginine finger; other site 257363001184 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 257363001185 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257363001186 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257363001187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363001188 Walker A/P-loop; other site 257363001189 ATP binding site [chemical binding]; other site 257363001190 Q-loop/lid; other site 257363001191 ABC transporter signature motif; other site 257363001192 Walker B; other site 257363001193 D-loop; other site 257363001194 H-loop/switch region; other site 257363001195 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 257363001196 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 257363001197 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 257363001198 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 257363001199 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 257363001200 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 257363001201 BON domain; Region: BON; pfam04972 257363001202 BON domain; Region: BON; pfam04972 257363001203 intracellular septation protein A; Reviewed; Region: PRK00259 257363001204 Iron permease FTR1 family; Region: FTR1; pfam03239 257363001205 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 257363001206 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 257363001207 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 257363001208 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 257363001209 active site 257363001210 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 257363001211 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257363001212 catalytic residues [active] 257363001213 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 257363001214 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 257363001215 tandem repeat interface [polypeptide binding]; other site 257363001216 oligomer interface [polypeptide binding]; other site 257363001217 active site residues [active] 257363001218 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 257363001219 trimer interface [polypeptide binding]; other site 257363001220 active site 257363001221 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 257363001222 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 257363001223 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257363001224 catalytic residue [active] 257363001225 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 257363001226 dimer interface [polypeptide binding]; other site 257363001227 catalytic triad [active] 257363001228 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 257363001229 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 257363001230 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 257363001231 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 257363001232 putative peptidase; Provisional; Region: PRK11649 257363001233 Peptidase family M23; Region: Peptidase_M23; pfam01551 257363001234 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 257363001235 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 257363001236 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 257363001237 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257363001238 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257363001239 cell division protein FtsW; Region: ftsW; TIGR02614 257363001240 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 257363001241 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 257363001242 active site 257363001243 homodimer interface [polypeptide binding]; other site 257363001244 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 257363001245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257363001246 diaminopimelate epimerase; Region: DapF; TIGR00652 257363001247 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 257363001248 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 257363001249 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 257363001250 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 257363001251 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 257363001252 FeS/SAM binding site; other site 257363001253 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 257363001254 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 257363001255 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 257363001256 dimer interface [polypeptide binding]; other site 257363001257 motif 1; other site 257363001258 active site 257363001259 motif 2; other site 257363001260 motif 3; other site 257363001261 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 257363001262 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 257363001263 putative tRNA-binding site [nucleotide binding]; other site 257363001264 B3/4 domain; Region: B3_4; pfam03483 257363001265 tRNA synthetase B5 domain; Region: B5; smart00874 257363001266 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 257363001267 dimer interface [polypeptide binding]; other site 257363001268 motif 1; other site 257363001269 motif 3; other site 257363001270 motif 2; other site 257363001271 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 257363001272 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 257363001273 DNA polymerase III subunit beta; Validated; Region: PRK05643 257363001274 putative DNA binding surface [nucleotide binding]; other site 257363001275 dimer interface [polypeptide binding]; other site 257363001276 beta-clamp/clamp loader binding surface; other site 257363001277 beta-clamp/translesion DNA polymerase binding surface; other site 257363001278 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 257363001279 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 257363001280 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 257363001281 HIGH motif; other site 257363001282 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257363001283 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257363001284 active site 257363001285 KMSKS motif; other site 257363001286 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 257363001287 tRNA binding surface [nucleotide binding]; other site 257363001288 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 257363001289 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 257363001290 catalytic site [active] 257363001291 putative active site [active] 257363001292 putative substrate binding site [chemical binding]; other site 257363001293 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 257363001294 Septum formation initiator; Region: DivIC; pfam04977 257363001295 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 257363001296 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 257363001297 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 257363001298 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 257363001299 catalytic residue [active] 257363001300 putative FPP diphosphate binding site; other site 257363001301 putative FPP binding hydrophobic cleft; other site 257363001302 dimer interface [polypeptide binding]; other site 257363001303 putative IPP diphosphate binding site; other site 257363001304 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 257363001305 dimer interface [polypeptide binding]; other site 257363001306 phosphorylation site [posttranslational modification] 257363001307 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 257363001308 ATP binding site [chemical binding]; other site 257363001309 Mg2+ binding site [ion binding]; other site 257363001310 G-X-G motif; other site 257363001311 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257363001312 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 257363001313 active site 257363001314 phosphorylation site [posttranslational modification] 257363001315 intermolecular recognition site; other site 257363001316 dimerization interface [polypeptide binding]; other site 257363001317 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 257363001318 DNA binding site [nucleotide binding] 257363001319 branched-chain amino acid aminotransferase; Validated; Region: PRK06606 257363001320 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 257363001321 homodimer interface [polypeptide binding]; other site 257363001322 substrate-cofactor binding pocket; other site 257363001323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257363001324 catalytic residue [active] 257363001325 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 257363001326 dihydrodipicolinate synthase; Region: dapA; TIGR00674 257363001327 dimer interface [polypeptide binding]; other site 257363001328 active site 257363001329 catalytic residue [active] 257363001330 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 257363001331 SmpB-tmRNA interface; other site 257363001332 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 257363001333 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 257363001334 catalytic residues [active] 257363001335 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 257363001336 CoA binding domain; Region: CoA_binding; pfam02629 257363001337 CoA-ligase; Region: Ligase_CoA; pfam00549 257363001338 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 257363001339 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 257363001340 CoA-ligase; Region: Ligase_CoA; pfam00549 257363001341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 257363001342 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 257363001343 Predicted membrane protein [Function unknown]; Region: COG1238 257363001344 RDD family; Region: RDD; pfam06271 257363001345 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 257363001346 RecR protein; Region: RecR; pfam02132 257363001347 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 257363001348 putative active site [active] 257363001349 putative metal-binding site [ion binding]; other site 257363001350 tetramer interface [polypeptide binding]; other site 257363001351 ATP-NAD kinase; Region: NAD_kinase; pfam01513 257363001352 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 257363001353 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 257363001354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 257363001355 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 257363001356 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 257363001357 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 257363001358 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 257363001359 Predicted permeases [General function prediction only]; Region: COG0679 257363001360 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257363001361 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 257363001362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257363001363 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257363001364 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257363001365 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 257363001366 active site 257363001367 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 257363001368 Part of AAA domain; Region: AAA_19; pfam13245 257363001369 Family description; Region: UvrD_C_2; pfam13538 257363001370 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 257363001371 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 257363001372 tetramer interface [polypeptide binding]; other site 257363001373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257363001374 catalytic residue [active] 257363001375 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 257363001376 Found in ATP-dependent protease La (LON); Region: LON; smart00464 257363001377 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 257363001378 Walker A motif; other site 257363001379 ATP binding site [chemical binding]; other site 257363001380 Walker B motif; other site 257363001381 arginine finger; other site 257363001382 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 257363001383 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257363001384 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 257363001385 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 257363001386 homotetramer interface [polypeptide binding]; other site 257363001387 FMN binding site [chemical binding]; other site 257363001388 homodimer contacts [polypeptide binding]; other site 257363001389 putative active site [active] 257363001390 putative substrate binding site [chemical binding]; other site 257363001391 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 257363001392 Substrate binding site; other site 257363001393 Mg++ binding site; other site 257363001394 hypothetical protein; Validated; Region: PRK00110 257363001395 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 257363001396 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 257363001397 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 257363001398 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257363001399 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 257363001400 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 257363001401 S-adenosylmethionine binding site [chemical binding]; other site 257363001402 Methyltransferase domain; Region: Methyltransf_11; pfam08241 257363001403 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 257363001404 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 257363001405 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257363001406 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257363001407 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 257363001408 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 257363001409 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 257363001410 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 257363001411 catalytic site [active] 257363001412 putative active site [active] 257363001413 putative substrate binding site [chemical binding]; other site 257363001414 Helicase and RNase D C-terminal; Region: HRDC; smart00341 257363001415 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 257363001416 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 257363001417 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 257363001418 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 257363001419 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 257363001420 Na binding site [ion binding]; other site 257363001421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257363001422 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 257363001423 dimer interface [polypeptide binding]; other site 257363001424 phosphorylation site [posttranslational modification] 257363001425 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 257363001426 ATP binding site [chemical binding]; other site 257363001427 Mg2+ binding site [ion binding]; other site 257363001428 G-X-G motif; other site 257363001429 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 257363001430 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 257363001431 domain interfaces; other site 257363001432 active site 257363001433 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 257363001434 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 257363001435 active site 257363001436 HIGH motif; other site 257363001437 dimer interface [polypeptide binding]; other site 257363001438 KMSKS motif; other site 257363001439 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257363001440 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 257363001441 putative acyl-acceptor binding pocket; other site 257363001442 Protein required for attachment to host cells; Region: Host_attach; cl02398 257363001443 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 257363001444 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257363001445 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 257363001446 HemY protein N-terminus; Region: HemY_N; pfam07219 257363001447 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 257363001448 active site 257363001449 AmpG-like permease; Region: 2A0125; TIGR00901 257363001450 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 257363001451 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 257363001452 Ligand binding site; other site 257363001453 metal-binding site 257363001454 TLC ATP/ADP transporter; Region: TLC; pfam03219 257363001455 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 257363001456 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 257363001457 substrate binding pocket [chemical binding]; other site 257363001458 chain length determination region; other site 257363001459 substrate-Mg2+ binding site; other site 257363001460 catalytic residues [active] 257363001461 aspartate-rich region 1; other site 257363001462 active site lid residues [active] 257363001463 aspartate-rich region 2; other site 257363001464 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 257363001465 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 257363001466 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 257363001467 active site 257363001468 arginine:agmatin antiporter; Provisional; Region: PRK10644 257363001469 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 257363001470 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 257363001471 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 257363001472 trimerization site [polypeptide binding]; other site 257363001473 active site 257363001474 cysteine desulfurase; Provisional; Region: PRK14012 257363001475 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 257363001476 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257363001477 catalytic residue [active] 257363001478 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 257363001479 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 257363001480 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257363001481 catalytic residue [active] 257363001482 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 257363001483 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 257363001484 GSH binding site (G-site) [chemical binding]; other site 257363001485 C-terminal domain interface [polypeptide binding]; other site 257363001486 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 257363001487 N-terminal domain interface [polypeptide binding]; other site 257363001488 dimer interface [polypeptide binding]; other site 257363001489 substrate binding pocket (H-site) [chemical binding]; other site 257363001490 pyruvate phosphate dikinase; Provisional; Region: PRK09279 257363001491 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 257363001492 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 257363001493 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 257363001494 hypothetical protein; Provisional; Region: PRK06661 257363001495 intersubunit interface [polypeptide binding]; other site 257363001496 active site 257363001497 Zn2+ binding site [ion binding]; other site 257363001498 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 257363001499 uncharacterized protein, YfiH family; Region: TIGR00726 257363001500 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 257363001501 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 257363001502 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257363001503 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 257363001504 non-specific DNA binding site [nucleotide binding]; other site 257363001505 salt bridge; other site 257363001506 sequence-specific DNA binding site [nucleotide binding]; other site 257363001507 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 257363001508 TLC ATP/ADP transporter; Region: TLC; pfam03219 257363001509 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01528 257363001510 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 257363001511 RNA binding site [nucleotide binding]; other site 257363001512 active site 257363001513 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 257363001514 16S/18S rRNA binding site [nucleotide binding]; other site 257363001515 S13e-L30e interaction site [polypeptide binding]; other site 257363001516 25S rRNA binding site [nucleotide binding]; other site 257363001517 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 257363001518 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 257363001519 RNase E interface [polypeptide binding]; other site 257363001520 trimer interface [polypeptide binding]; other site 257363001521 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 257363001522 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 257363001523 RNase E interface [polypeptide binding]; other site 257363001524 trimer interface [polypeptide binding]; other site 257363001525 active site 257363001526 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 257363001527 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 257363001528 RNA binding site [nucleotide binding]; other site 257363001529 domain interface; other site 257363001530 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 257363001531 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 257363001532 putative active site [active] 257363001533 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 257363001534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 257363001535 OstA-like protein; Region: OstA; cl00844 257363001536 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 257363001537 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 257363001538 Walker A/P-loop; other site 257363001539 ATP binding site [chemical binding]; other site 257363001540 Q-loop/lid; other site 257363001541 ABC transporter signature motif; other site 257363001542 Walker B; other site 257363001543 D-loop; other site 257363001544 H-loop/switch region; other site 257363001545 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 257363001546 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 257363001547 active site 257363001548 substrate binding site [chemical binding]; other site 257363001549 metal binding site [ion binding]; metal-binding site 257363001550 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 257363001551 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 257363001552 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 257363001553 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 257363001554 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 257363001555 dimer interface [polypeptide binding]; other site 257363001556 putative radical transfer pathway; other site 257363001557 diiron center [ion binding]; other site 257363001558 tyrosyl radical; other site 257363001559 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 257363001560 Class I ribonucleotide reductase; Region: RNR_I; cd01679 257363001561 active site 257363001562 dimer interface [polypeptide binding]; other site 257363001563 catalytic residues [active] 257363001564 effector binding site; other site 257363001565 R2 peptide binding site; other site 257363001566 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 257363001567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257363001568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257363001569 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 257363001570 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 257363001571 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 257363001572 homodimer interface [polypeptide binding]; other site 257363001573 NADP binding site [chemical binding]; other site 257363001574 substrate binding site [chemical binding]; other site 257363001575 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 257363001576 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 257363001577 trimer interface [polypeptide binding]; other site 257363001578 putative metal binding site [ion binding]; other site 257363001579 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 257363001580 30S subunit binding site; other site 257363001581 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 257363001582 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 257363001583 oligomer interface [polypeptide binding]; other site 257363001584 active site residues [active] 257363001585 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 257363001586 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 257363001587 RNA binding site [nucleotide binding]; other site 257363001588 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 257363001589 RNA binding site [nucleotide binding]; other site 257363001590 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 257363001591 RNA binding site [nucleotide binding]; other site 257363001592 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 257363001593 RNA binding site [nucleotide binding]; other site 257363001594 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 257363001595 RNA binding site [nucleotide binding]; other site 257363001596 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 257363001597 RNA binding site [nucleotide binding]; other site 257363001598 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 257363001599 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 257363001600 CMP-binding site; other site 257363001601 The sites determining sugar specificity; other site 257363001602 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 257363001603 IHF - DNA interface [nucleotide binding]; other site 257363001604 IHF dimer interface [polypeptide binding]; other site 257363001605 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 257363001606 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 257363001607 tandem repeat interface [polypeptide binding]; other site 257363001608 oligomer interface [polypeptide binding]; other site 257363001609 active site residues [active] 257363001610 transcription termination factor Rho; Provisional; Region: rho; PRK09376 257363001611 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 257363001612 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 257363001613 RNA binding site [nucleotide binding]; other site 257363001614 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 257363001615 multimer interface [polypeptide binding]; other site 257363001616 Walker A motif; other site 257363001617 ATP binding site [chemical binding]; other site 257363001618 Walker B motif; other site 257363001619 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 257363001620 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 257363001621 S-adenosylmethionine binding site [chemical binding]; other site 257363001622 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 257363001623 DHH family; Region: DHH; pfam01368 257363001624 DHHA1 domain; Region: DHHA1; pfam02272 257363001625 peptide chain release factor 1; Validated; Region: prfA; PRK00591 257363001626 This domain is found in peptide chain release factors; Region: PCRF; smart00937 257363001627 RF-1 domain; Region: RF-1; pfam00472 257363001628 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 257363001629 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 257363001630 E3 interaction surface; other site 257363001631 lipoyl attachment site [posttranslational modification]; other site 257363001632 e3 binding domain; Region: E3_binding; pfam02817 257363001633 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 257363001634 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 257363001635 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 257363001636 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 257363001637 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 257363001638 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 257363001639 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 257363001640 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 257363001641 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 257363001642 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 257363001643 active site 257363001644 nucleophile elbow; other site 257363001645 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 257363001646 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 257363001647 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 257363001648 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 257363001649 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 257363001650 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257363001651 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 257363001652 dimer interface [polypeptide binding]; other site 257363001653 allosteric magnesium binding site [ion binding]; other site 257363001654 active site 257363001655 aspartate-rich active site metal binding site; other site 257363001656 Schiff base residues; other site 257363001657 primosome assembly protein PriA; Validated; Region: PRK05580 257363001658 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 257363001659 ATP binding site [chemical binding]; other site 257363001660 putative Mg++ binding site [ion binding]; other site 257363001661 helicase superfamily c-terminal domain; Region: HELICc; smart00490 257363001662 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 257363001663 Flavoprotein; Region: Flavoprotein; pfam02441 257363001664 replicative DNA helicase; Provisional; Region: PRK09165 257363001665 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 257363001666 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 257363001667 Walker A motif; other site 257363001668 ATP binding site [chemical binding]; other site 257363001669 Walker B motif; other site 257363001670 DNA binding loops [nucleotide binding] 257363001671 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 257363001672 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 257363001673 RNA binding surface [nucleotide binding]; other site 257363001674 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 257363001675 active site 257363001676 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 257363001677 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 257363001678 S-adenosylmethionine binding site [chemical binding]; other site 257363001679 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 257363001680 DNA repair protein RadA; Provisional; Region: PRK11823 257363001681 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 257363001682 Walker A motif; other site 257363001683 ATP binding site [chemical binding]; other site 257363001684 Walker B motif; other site 257363001685 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 257363001686 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 257363001687 Recombination protein O N terminal; Region: RecO_N; pfam11967 257363001688 Recombination protein O C terminal; Region: RecO_C; pfam02565 257363001689 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 257363001690 Glycoprotease family; Region: Peptidase_M22; pfam00814 257363001691 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 257363001692 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 257363001693 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 257363001694 G1 box; other site 257363001695 putative GEF interaction site [polypeptide binding]; other site 257363001696 GTP/Mg2+ binding site [chemical binding]; other site 257363001697 Switch I region; other site 257363001698 G2 box; other site 257363001699 G3 box; other site 257363001700 Switch II region; other site 257363001701 G4 box; other site 257363001702 G5 box; other site 257363001703 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 257363001704 Translation-initiation factor 2; Region: IF-2; pfam11987 257363001705 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 257363001706 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 257363001707 NusA N-terminal domain; Region: NusA_N; pfam08529 257363001708 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 257363001709 RNA binding site [nucleotide binding]; other site 257363001710 homodimer interface [polypeptide binding]; other site 257363001711 NusA-like KH domain; Region: KH_5; pfam13184 257363001712 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 257363001713 G-X-X-G motif; other site 257363001714 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 257363001715 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 257363001716 Sm and related proteins; Region: Sm_like; cl00259 257363001717 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 257363001718 putative oligomer interface [polypeptide binding]; other site 257363001719 putative RNA binding site [nucleotide binding]; other site 257363001720 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 257363001721 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 257363001722 RNA binding surface [nucleotide binding]; other site 257363001723 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 257363001724 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 257363001725 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 257363001726 active site 257363001727 HIGH motif; other site 257363001728 dimer interface [polypeptide binding]; other site 257363001729 KMSKS motif; other site 257363001730 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 257363001731 RNA binding surface [nucleotide binding]; other site 257363001732 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 257363001733 MG2 domain; Region: A2M_N; pfam01835 257363001734 Alpha-2-macroglobulin family; Region: A2M; pfam00207 257363001735 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 257363001736 surface patch; other site 257363001737 thioester region; other site 257363001738 specificity defining residues; other site 257363001739 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 257363001740 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257363001741 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257363001742 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257363001743 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 257363001744 substrate binding site [chemical binding]; other site 257363001745 oxyanion hole (OAH) forming residues; other site 257363001746 trimer interface [polypeptide binding]; other site 257363001747 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 257363001748 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257363001749 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 257363001750 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 257363001751 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 257363001752 active site 257363001753 phosphorylation site [posttranslational modification] 257363001754 intermolecular recognition site; other site 257363001755 dimerization interface [polypeptide binding]; other site 257363001756 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 257363001757 Walker A motif; other site 257363001758 ATP binding site [chemical binding]; other site 257363001759 Walker B motif; other site 257363001760 arginine finger; other site 257363001761 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 257363001762 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 257363001763 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 257363001764 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 257363001765 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 257363001766 UDP-glycosyltransferase; Region: PLN02534 257363001767 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 257363001768 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 257363001769 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257363001770 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 257363001771 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 257363001772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257363001773 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 257363001774 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 257363001775 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 257363001776 S-adenosylmethionine binding site [chemical binding]; other site 257363001777 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 257363001778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 257363001779 MraZ protein; Region: MraZ; pfam02381 257363001780 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 257363001781 Na binding site [ion binding]; other site 257363001782 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 257363001783 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 257363001784 GIY-YIG motif/motif A; other site 257363001785 active site 257363001786 catalytic site [active] 257363001787 putative DNA binding site [nucleotide binding]; other site 257363001788 metal binding site [ion binding]; metal-binding site 257363001789 UvrB/uvrC motif; Region: UVR; pfam02151 257363001790 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 257363001791 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 257363001792 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 257363001793 DEAD/DEAH box helicase; Region: DEAD; pfam00270 257363001794 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 257363001795 SEC-C motif; Region: SEC-C; pfam02810 257363001796 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 257363001797 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257363001798 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 257363001799 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 257363001800 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 257363001801 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 257363001802 hinge; other site 257363001803 active site 257363001804 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 257363001805 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 257363001806 Mg2+ binding site [ion binding]; other site 257363001807 G-X-G motif; other site 257363001808 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 257363001809 anchoring element; other site 257363001810 dimer interface [polypeptide binding]; other site 257363001811 ATP binding site [chemical binding]; other site 257363001812 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 257363001813 active site 257363001814 putative metal-binding site [ion binding]; other site 257363001815 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 257363001816 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 257363001817 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 257363001818 active site 257363001819 motif I; other site 257363001820 motif II; other site 257363001821 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 257363001822 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 257363001823 MgtE intracellular N domain; Region: MgtE_N; pfam03448 257363001824 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 257363001825 Divalent cation transporter; Region: MgtE; pfam01769 257363001826 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 257363001827 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 257363001828 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 257363001829 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 257363001830 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 257363001831 Cu(I) binding site [ion binding]; other site 257363001832 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 257363001833 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 257363001834 dimer interface [polypeptide binding]; other site 257363001835 substrate binding site [chemical binding]; other site 257363001836 metal binding sites [ion binding]; metal-binding site 257363001837 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 257363001838 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 257363001839 TraX protein; Region: TraX; pfam05857 257363001840 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 257363001841 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 257363001842 ssDNA binding site; other site 257363001843 generic binding surface II; other site 257363001844 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 257363001845 ATP binding site [chemical binding]; other site 257363001846 putative Mg++ binding site [ion binding]; other site 257363001847 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 257363001848 nucleotide binding region [chemical binding]; other site 257363001849 ATP-binding site [chemical binding]; other site 257363001850 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 257363001851 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 257363001852 Mg++ binding site [ion binding]; other site 257363001853 putative catalytic motif [active] 257363001854 putative substrate binding site [chemical binding]; other site 257363001855 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257363001856 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 257363001857 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257363001858 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257363001859 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 257363001860 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257363001861 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257363001862 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257363001863 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 257363001864 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 257363001865 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 257363001866 ATP binding site [chemical binding]; other site 257363001867 putative Mg++ binding site [ion binding]; other site 257363001868 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 257363001869 nucleotide binding region [chemical binding]; other site 257363001870 ATP-binding site [chemical binding]; other site 257363001871 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 257363001872 Uncharacterized conserved protein [Function unknown]; Region: COG2938 257363001873 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 257363001874 active site residue [active] 257363001875 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 257363001876 DnaA N-terminal domain; Region: DnaA_N; pfam11638 257363001877 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 257363001878 Walker A motif; other site 257363001879 ATP binding site [chemical binding]; other site 257363001880 Walker B motif; other site 257363001881 arginine finger; other site 257363001882 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 257363001883 DnaA box-binding interface [nucleotide binding]; other site 257363001884 Patatin [General function prediction only]; Region: COG3621 257363001885 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 257363001886 active site 257363001887 nucleophile elbow; other site 257363001888 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 257363001889 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 257363001890 putative substrate translocation pore; other site 257363001891 GTP-binding protein YchF; Reviewed; Region: PRK09601 257363001892 YchF GTPase; Region: YchF; cd01900 257363001893 G1 box; other site 257363001894 GTP/Mg2+ binding site [chemical binding]; other site 257363001895 Switch I region; other site 257363001896 G2 box; other site 257363001897 Switch II region; other site 257363001898 G3 box; other site 257363001899 G4 box; other site 257363001900 G5 box; other site 257363001901 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 257363001902 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 257363001903 putative active site [active] 257363001904 catalytic residue [active] 257363001905 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 257363001906 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 257363001907 5S rRNA interface [nucleotide binding]; other site 257363001908 CTC domain interface [polypeptide binding]; other site 257363001909 L16 interface [polypeptide binding]; other site 257363001910 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 257363001911 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 257363001912 FeS/SAM binding site; other site 257363001913 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 257363001914 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 257363001915 23S rRNA binding site [nucleotide binding]; other site 257363001916 L21 binding site [polypeptide binding]; other site 257363001917 L13 binding site [polypeptide binding]; other site 257363001918 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 257363001919 ribonuclease P; Reviewed; Region: rnpA; PRK01492 257363001920 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 257363001921 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 257363001922 dimerization interface [polypeptide binding]; other site 257363001923 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 257363001924 dimer interface [polypeptide binding]; other site 257363001925 phosphorylation site [posttranslational modification] 257363001926 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 257363001927 ATP binding site [chemical binding]; other site 257363001928 Mg2+ binding site [ion binding]; other site 257363001929 G-X-G motif; other site 257363001930 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 257363001931 Uncharacterized conserved protein [Function unknown]; Region: COG5590 257363001932 COQ9; Region: COQ9; pfam08511 257363001933 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 257363001934 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 257363001935 HIGH motif; other site 257363001936 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 257363001937 active site 257363001938 KMSKS motif; other site 257363001939 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 257363001940 tRNA binding surface [nucleotide binding]; other site 257363001941 anticodon binding site; other site 257363001942 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 257363001943 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257363001944 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 257363001945 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257363001946 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 257363001947 carboxyltransferase (CT) interaction site; other site 257363001948 biotinylation site [posttranslational modification]; other site 257363001949 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 257363001950 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 257363001951 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 257363001952 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 257363001953 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 257363001954 putative substrate translocation pore; other site 257363001955 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 257363001956 putative acyl-acceptor binding pocket; other site 257363001957 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 257363001958 acyl-activating enzyme (AAE) consensus motif; other site 257363001959 putative AMP binding site [chemical binding]; other site 257363001960 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 257363001961 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 257363001962 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 257363001963 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 257363001964 S-adenosylmethionine binding site [chemical binding]; other site 257363001965 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 257363001966 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 257363001967 HIGH motif; other site 257363001968 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 257363001969 active site 257363001970 KMSKS motif; other site 257363001971 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257363001972 HD domain; Region: HD_4; pfam13328 257363001973 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257363001974 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257363001975 synthetase active site [active] 257363001976 NTP binding site [chemical binding]; other site 257363001977 metal binding site [ion binding]; metal-binding site 257363001978 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 257363001979 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 257363001980 ring oligomerisation interface [polypeptide binding]; other site 257363001981 ATP/Mg binding site [chemical binding]; other site 257363001982 stacking interactions; other site 257363001983 hinge regions; other site 257363001984 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 257363001985 oligomerisation interface [polypeptide binding]; other site 257363001986 mobile loop; other site 257363001987 roof hairpin; other site 257363001988 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 257363001989 oligomer interface [polypeptide binding]; other site 257363001990 RNA binding site [nucleotide binding]; other site 257363001991 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 257363001992 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 257363001993 dimer interface [polypeptide binding]; other site 257363001994 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 257363001995 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 257363001996 Domain of unknown function DUF20; Region: UPF0118; pfam01594 257363001997 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 257363001998 hypothetical protein; Validated; Region: PRK06620 257363001999 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 257363002000 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 257363002001 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 257363002002 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 257363002003 alphaNTD - beta interaction site [polypeptide binding]; other site 257363002004 alphaNTD homodimer interface [polypeptide binding]; other site 257363002005 alphaNTD - beta' interaction site [polypeptide binding]; other site 257363002006 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 257363002007 30S ribosomal protein S11; Validated; Region: PRK05309 257363002008 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 257363002009 30S ribosomal protein S13; Region: bact_S13; TIGR03631 257363002010 adenylate kinase; Reviewed; Region: adk; PRK00279 257363002011 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 257363002012 AMP-binding site [chemical binding]; other site 257363002013 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 257363002014 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 257363002015 SecY translocase; Region: SecY; pfam00344 257363002016 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 257363002017 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 257363002018 23S rRNA binding site [nucleotide binding]; other site 257363002019 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 257363002020 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 257363002021 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 257363002022 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 257363002023 5S rRNA interface [nucleotide binding]; other site 257363002024 23S rRNA interface [nucleotide binding]; other site 257363002025 L5 interface [polypeptide binding]; other site 257363002026 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 257363002027 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 257363002028 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 257363002029 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 257363002030 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 257363002031 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 257363002032 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 257363002033 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 257363002034 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 257363002035 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 257363002036 RNA binding site [nucleotide binding]; other site 257363002037 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 257363002038 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 257363002039 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 257363002040 L23 interface [polypeptide binding]; other site 257363002041 trigger factor interaction site; other site 257363002042 23S rRNA interface [nucleotide binding]; other site 257363002043 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 257363002044 23S rRNA interface [nucleotide binding]; other site 257363002045 5S rRNA interface [nucleotide binding]; other site 257363002046 putative antibiotic binding site [chemical binding]; other site 257363002047 L25 interface [polypeptide binding]; other site 257363002048 L27 interface [polypeptide binding]; other site 257363002049 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 257363002050 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 257363002051 G-X-X-G motif; other site 257363002052 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 257363002053 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 257363002054 putative translocon binding site; other site 257363002055 protein-rRNA interface [nucleotide binding]; other site 257363002056 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 257363002057 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 257363002058 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 257363002059 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 257363002060 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 257363002061 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 257363002062 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 257363002063 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 257363002064 elongation factor Tu; Reviewed; Region: PRK00049 257363002065 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 257363002066 G1 box; other site 257363002067 GEF interaction site [polypeptide binding]; other site 257363002068 GTP/Mg2+ binding site [chemical binding]; other site 257363002069 Switch I region; other site 257363002070 G2 box; other site 257363002071 G3 box; other site 257363002072 Switch II region; other site 257363002073 G4 box; other site 257363002074 G5 box; other site 257363002075 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 257363002076 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 257363002077 Antibiotic Binding Site [chemical binding]; other site 257363002078 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 257363002079 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 257363002080 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 257363002081 fumarate hydratase; Reviewed; Region: fumC; PRK00485 257363002082 Class II fumarases; Region: Fumarase_classII; cd01362 257363002083 active site 257363002084 tetramer interface [polypeptide binding]; other site 257363002085 cell division protein FtsZ; Validated; Region: PRK09330 257363002086 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 257363002087 nucleotide binding site [chemical binding]; other site 257363002088 SulA interaction site; other site 257363002089 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 257363002090 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 257363002091 muropeptide transporter; Reviewed; Region: ampG; PRK11902 257363002092 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 257363002093 putative substrate translocation pore; other site 257363002094 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 257363002095 DEAD-like helicases superfamily; Region: DEXDc; smart00487 257363002096 ATP binding site [chemical binding]; other site 257363002097 Mg++ binding site [ion binding]; other site 257363002098 motif III; other site 257363002099 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 257363002100 nucleotide binding region [chemical binding]; other site 257363002101 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 257363002102 DNA-binding site [nucleotide binding]; DNA binding site 257363002103 RNA-binding motif; other site 257363002104 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 257363002105 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 257363002106 S-adenosylmethionine binding site [chemical binding]; other site 257363002107 SurA N-terminal domain; Region: SurA_N_3; cl07813 257363002108 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 257363002109 Organic solvent tolerance protein; Region: OstA_C; pfam04453 257363002110 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 257363002111 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 257363002112 generic binding surface II; other site 257363002113 generic binding surface I; other site 257363002114 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 257363002115 putative catalytic site [active] 257363002116 putative phosphate binding site [ion binding]; other site 257363002117 active site 257363002118 metal binding site A [ion binding]; metal-binding site 257363002119 DNA binding site [nucleotide binding] 257363002120 putative AP binding site [nucleotide binding]; other site 257363002121 putative metal binding site B [ion binding]; other site 257363002122 GTP-binding protein Der; Reviewed; Region: PRK00093 257363002123 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 257363002124 G1 box; other site 257363002125 GTP/Mg2+ binding site [chemical binding]; other site 257363002126 Switch I region; other site 257363002127 G2 box; other site 257363002128 Switch II region; other site 257363002129 G3 box; other site 257363002130 G4 box; other site 257363002131 G5 box; other site 257363002132 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 257363002133 G1 box; other site 257363002134 GTP/Mg2+ binding site [chemical binding]; other site 257363002135 Switch I region; other site 257363002136 G2 box; other site 257363002137 G3 box; other site 257363002138 Switch II region; other site 257363002139 G4 box; other site 257363002140 G5 box; other site 257363002141 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 257363002142 ABC1 family; Region: ABC1; pfam03109 257363002143 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 257363002144 active site 257363002145 ATP binding site [chemical binding]; other site 257363002146 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 257363002147 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 257363002148 S-adenosylmethionine binding site [chemical binding]; other site 257363002149 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 257363002150 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 257363002151 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 257363002152 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 257363002153 active site 257363002154 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 257363002155 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 257363002156 active site 257363002157 HIGH motif; other site 257363002158 KMSKS motif; other site 257363002159 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 257363002160 tRNA binding surface [nucleotide binding]; other site 257363002161 anticodon binding site; other site 257363002162 thymidylate kinase; Validated; Region: tmk; PRK00698 257363002163 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 257363002164 TMP-binding site; other site 257363002165 ATP-binding site [chemical binding]; other site 257363002166 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363002167 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 257363002168 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 257363002169 UbiA prenyltransferase family; Region: UbiA; pfam01040 257363002170 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 257363002171 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257363002172 active site 257363002173 HIGH motif; other site 257363002174 nucleotide binding site [chemical binding]; other site 257363002175 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257363002176 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 257363002177 active site 257363002178 KMSKS motif; other site 257363002179 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 257363002180 tRNA binding surface [nucleotide binding]; other site 257363002181 anticodon binding site; other site 257363002182 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 257363002183 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 257363002184 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 257363002185 RmuC family; Region: RmuC; pfam02646 257363002186 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 257363002187 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 257363002188 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 257363002189 Walker A motif; other site 257363002190 ATP binding site [chemical binding]; other site 257363002191 Walker B motif; other site 257363002192 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 257363002193 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 257363002194 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257363002195 Coenzyme A binding pocket [chemical binding]; other site 257363002196 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 257363002197 Ligand Binding Site [chemical binding]; other site 257363002198 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 257363002199 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257363002200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363002201 Walker A/P-loop; other site 257363002202 ATP binding site [chemical binding]; other site 257363002203 Q-loop/lid; other site 257363002204 ABC transporter signature motif; other site 257363002205 Walker B; other site 257363002206 D-loop; other site 257363002207 H-loop/switch region; other site 257363002208 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 257363002209 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 257363002210 putative substrate translocation pore; other site 257363002211 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 257363002212 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 257363002213 FtsX-like permease family; Region: FtsX; pfam02687 257363002214 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257363002215 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 257363002216 Walker A/P-loop; other site 257363002217 ATP binding site [chemical binding]; other site 257363002218 Q-loop/lid; other site 257363002219 ABC transporter signature motif; other site 257363002220 Walker B; other site 257363002221 D-loop; other site 257363002222 H-loop/switch region; other site 257363002223 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 257363002224 Domain of unknown function DUF21; Region: DUF21; pfam01595 257363002225 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 257363002226 Transporter associated domain; Region: CorC_HlyC; smart01091 257363002227 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 257363002228 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 257363002229 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257363002230 Autotransporter beta-domain; Region: Autotransporter; smart00869 257363002231 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257363002232 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257363002233 synthetase active site [active] 257363002234 NTP binding site [chemical binding]; other site 257363002235 metal binding site [ion binding]; metal-binding site 257363002236 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 257363002237 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 257363002238 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 257363002239 DNA binding residues [nucleotide binding] 257363002240 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 257363002241 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 257363002242 IHF dimer interface [polypeptide binding]; other site 257363002243 IHF - DNA interface [nucleotide binding]; other site 257363002244 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 257363002245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 257363002246 putative acyl-acceptor binding pocket; other site 257363002247 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 257363002248 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 257363002249 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 257363002250 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 257363002251 nucleotide binding pocket [chemical binding]; other site 257363002252 K-X-D-G motif; other site 257363002253 catalytic site [active] 257363002254 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 257363002255 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 257363002256 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 257363002257 Dimer interface [polypeptide binding]; other site 257363002258 BRCT sequence motif; other site 257363002259 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 257363002260 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 257363002261 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 257363002262 mce related protein; Region: MCE; pfam02470 257363002263 hypothetical protein; Provisional; Region: PRK06630 257363002264 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 257363002265 RNA/DNA hybrid binding site [nucleotide binding]; other site 257363002266 active site 257363002267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 257363002268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 257363002269 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 257363002270 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 257363002271 CoA-binding site [chemical binding]; other site 257363002272 ATP-binding [chemical binding]; other site 257363002273 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 257363002274 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 257363002275 active site 257363002276 catalytic site [active] 257363002277 substrate binding site [chemical binding]; other site 257363002278 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 257363002279 Part of AAA domain; Region: AAA_19; pfam13245 257363002280 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 257363002281 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 257363002282 Family description; Region: UvrD_C_2; pfam13538 257363002283 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 257363002284 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 257363002285 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 257363002286 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 257363002287 dimer interface [polypeptide binding]; other site 257363002288 active site 257363002289 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 257363002290 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 257363002291 TLC ATP/ADP transporter; Region: TLC; pfam03219 257363002292 FOG: CBS domain [General function prediction only]; Region: COG0517 257363002293 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 257363002294 Transporter associated domain; Region: CorC_HlyC; smart01091 257363002295 metal-binding heat shock protein; Provisional; Region: PRK00016 257363002296 lipoyl synthase; Provisional; Region: PRK05481 257363002297 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 257363002298 FeS/SAM binding site; other site 257363002299 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 257363002300 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 257363002301 dimer interface [polypeptide binding]; other site 257363002302 active site 257363002303 glycine-pyridoxal phosphate binding site [chemical binding]; other site 257363002304 folate binding site [chemical binding]; other site 257363002305 putative hydrolase; Provisional; Region: PRK11460 257363002306 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 257363002307 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 257363002308 putative GSH binding site [chemical binding]; other site 257363002309 catalytic residues [active] 257363002310 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 257363002311 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 257363002312 minor groove reading motif; other site 257363002313 helix-hairpin-helix signature motif; other site 257363002314 substrate binding pocket [chemical binding]; other site 257363002315 active site 257363002316 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 257363002317 Predicted methyltransferases [General function prediction only]; Region: COG0313 257363002318 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 257363002319 putative SAM binding site [chemical binding]; other site 257363002320 putative homodimer interface [polypeptide binding]; other site 257363002321 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 257363002322 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257363002323 putative ligand binding site [chemical binding]; other site 257363002324 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 257363002325 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 257363002326 tetramer interfaces [polypeptide binding]; other site 257363002327 binuclear metal-binding site [ion binding]; other site 257363002328 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 257363002329 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 257363002330 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 257363002331 aspartate kinase; Reviewed; Region: PRK06635 257363002332 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 257363002333 putative catalytic residues [active] 257363002334 putative nucleotide binding site [chemical binding]; other site 257363002335 putative aspartate binding site [chemical binding]; other site 257363002336 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 257363002337 putative allosteric regulatory residue; other site 257363002338 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 257363002339 salt bridge; other site 257363002340 non-specific DNA binding site [nucleotide binding]; other site 257363002341 sequence-specific DNA binding site [nucleotide binding]; other site 257363002342 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 257363002343 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363002344 putative substrate translocation pore; other site 257363002345 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 257363002346 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 257363002347 Helix-turn-helix domain; Region: HTH_25; pfam13413 257363002348 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 257363002349 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 257363002350 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 257363002351 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 257363002352 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 257363002353 trmE is a tRNA modification GTPase; Region: trmE; cd04164 257363002354 G1 box; other site 257363002355 GTP/Mg2+ binding site [chemical binding]; other site 257363002356 Switch I region; other site 257363002357 G2 box; other site 257363002358 Switch II region; other site 257363002359 G3 box; other site 257363002360 G4 box; other site 257363002361 G5 box; other site 257363002362 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 257363002363 recombinase A; Provisional; Region: recA; PRK09354 257363002364 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 257363002365 hexamer interface [polypeptide binding]; other site 257363002366 Walker A motif; other site 257363002367 ATP binding site [chemical binding]; other site 257363002368 Walker B motif; other site 257363002369 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 257363002370 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 257363002371 homotetramer interface [polypeptide binding]; other site 257363002372 NAD(P) binding site [chemical binding]; other site 257363002373 homodimer interface [polypeptide binding]; other site 257363002374 active site 257363002375 acyl carrier protein; Provisional; Region: acpP; PRK00982 257363002376 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 257363002377 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 257363002378 dimer interface [polypeptide binding]; other site 257363002379 active site 257363002380 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 257363002381 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 257363002382 catalytic site [active] 257363002383 G-X2-G-X-G-K; other site 257363002384 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 257363002385 sequence-specific DNA binding site [nucleotide binding]; other site 257363002386 salt bridge; other site 257363002387 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 257363002388 rod shape-determining protein MreC; Region: MreC; pfam04085 257363002389 rod shape-determining protein MreB; Provisional; Region: PRK13927 257363002390 MreB and similar proteins; Region: MreB_like; cd10225 257363002391 nucleotide binding site [chemical binding]; other site 257363002392 Mg binding site [ion binding]; other site 257363002393 putative protofilament interaction site [polypeptide binding]; other site 257363002394 RodZ interaction site [polypeptide binding]; other site 257363002395 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 257363002396 Predicted permeases [General function prediction only]; Region: COG0795 257363002397 putative outer membrane lipoprotein; Provisional; Region: PRK09967 257363002398 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257363002399 ligand binding site [chemical binding]; other site 257363002400 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 257363002401 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 257363002402 dimer interface [polypeptide binding]; other site 257363002403 active site 257363002404 CoA binding pocket [chemical binding]; other site 257363002405 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 257363002406 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 257363002407 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 257363002408 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 257363002409 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 257363002410 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 257363002411 P loop; other site 257363002412 GTP binding site [chemical binding]; other site 257363002413 DNA polymerase I; Provisional; Region: PRK05755 257363002414 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 257363002415 active site 257363002416 metal binding site 1 [ion binding]; metal-binding site 257363002417 putative 5' ssDNA interaction site; other site 257363002418 metal binding site 3; metal-binding site 257363002419 metal binding site 2 [ion binding]; metal-binding site 257363002420 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 257363002421 putative DNA binding site [nucleotide binding]; other site 257363002422 putative metal binding site [ion binding]; other site 257363002423 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 257363002424 active site 257363002425 DNA binding site [nucleotide binding] 257363002426 catalytic site [active] 257363002427 S-adenosylmethionine synthetase; Validated; Region: PRK05250 257363002428 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 257363002429 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 257363002430 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 257363002431 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 257363002432 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 257363002433 putative active site [active] 257363002434 putative PHP Thumb interface [polypeptide binding]; other site 257363002435 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 257363002436 generic binding surface II; other site 257363002437 generic binding surface I; other site 257363002438 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 257363002439 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 257363002440 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 257363002441 Protein of unknown function; Region: DUF3971; pfam13116 257363002442 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 257363002443 muropeptide transporter; Validated; Region: ampG; cl17669 257363002444 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 257363002445 seryl-tRNA synthetase; Provisional; Region: PRK05431 257363002446 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 257363002447 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 257363002448 dimer interface [polypeptide binding]; other site 257363002449 active site 257363002450 motif 1; other site 257363002451 motif 2; other site 257363002452 motif 3; other site 257363002453 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 257363002454 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 257363002455 Integral membrane protein TerC family; Region: TerC; cl10468 257363002456 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 257363002457 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257363002458 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 257363002459 S-adenosylmethionine binding site [chemical binding]; other site 257363002460 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 257363002461 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 257363002462 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 257363002463 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 257363002464 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 257363002465 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 257363002466 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 257363002467 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257363002468 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 257363002469 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257363002470 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 257363002471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363002472 Walker A/P-loop; other site 257363002473 ATP binding site [chemical binding]; other site 257363002474 Q-loop/lid; other site 257363002475 ABC transporter signature motif; other site 257363002476 Walker B; other site 257363002477 D-loop; other site 257363002478 H-loop/switch region; other site 257363002479 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 257363002480 4Fe-4S binding domain; Region: Fer4; pfam00037 257363002481 4Fe-4S binding domain; Region: Fer4; pfam00037 257363002482 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 257363002483 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 257363002484 NADH dehydrogenase subunit G; Validated; Region: PRK09130 257363002485 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 257363002486 catalytic loop [active] 257363002487 iron binding site [ion binding]; other site 257363002488 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 257363002489 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 257363002490 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 257363002491 Predicted membrane protein [Function unknown]; Region: COG3671 257363002492 aconitate hydratase; Validated; Region: PRK09277 257363002493 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 257363002494 substrate binding site [chemical binding]; other site 257363002495 ligand binding site [chemical binding]; other site 257363002496 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 257363002497 substrate binding site [chemical binding]; other site 257363002498 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 257363002499 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 257363002500 gamma subunit interface [polypeptide binding]; other site 257363002501 epsilon subunit interface [polypeptide binding]; other site 257363002502 LBP interface [polypeptide binding]; other site 257363002503 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 257363002504 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257363002505 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 257363002506 alpha subunit interaction interface [polypeptide binding]; other site 257363002507 Walker A motif; other site 257363002508 ATP binding site [chemical binding]; other site 257363002509 Walker B motif; other site 257363002510 inhibitor binding site; inhibition site 257363002511 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 257363002512 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 257363002513 core domain interface [polypeptide binding]; other site 257363002514 delta subunit interface [polypeptide binding]; other site 257363002515 epsilon subunit interface [polypeptide binding]; other site 257363002516 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 257363002517 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257363002518 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 257363002519 beta subunit interaction interface [polypeptide binding]; other site 257363002520 Walker A motif; other site 257363002521 ATP binding site [chemical binding]; other site 257363002522 Walker B motif; other site 257363002523 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 257363002524 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 257363002525 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 257363002526 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 257363002527 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257363002528 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257363002529 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257363002530 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 257363002531 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 257363002532 dimerization interface [polypeptide binding]; other site 257363002533 DPS ferroxidase diiron center [ion binding]; other site 257363002534 ion pore; other site 257363002535 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 257363002536 Transglycosylase; Region: Transgly; pfam00912 257363002537 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257363002538 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 257363002539 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 257363002540 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 257363002541 FeS/SAM binding site; other site 257363002542 TRAM domain; Region: TRAM; pfam01938 257363002543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 257363002544 Bacterial SH3 domain; Region: SH3_4; pfam06347 257363002545 Bacterial SH3 domain; Region: SH3_4; pfam06347 257363002546 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 257363002547 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 257363002548 TrkA-N domain; Region: TrkA_N; pfam02254 257363002549 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 257363002550 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 257363002551 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 257363002552 rRNA binding site [nucleotide binding]; other site 257363002553 predicted 30S ribosome binding site; other site 257363002554 Maf-like protein; Region: Maf; pfam02545 257363002555 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 257363002556 active site 257363002557 dimer interface [polypeptide binding]; other site 257363002558 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 257363002559 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 257363002560 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 257363002561 active site 257363002562 DNA binding site [nucleotide binding] 257363002563 Int/Topo IB signature motif; other site 257363002564 Phasin protein; Region: Phasin_2; pfam09361 257363002565 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 257363002566 PLD-like domain; Region: PLDc_2; pfam13091 257363002567 putative active site [active] 257363002568 catalytic site [active] 257363002569 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 257363002570 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 257363002571 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 257363002572 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 257363002573 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 257363002574 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 257363002575 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 257363002576 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 257363002577 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 257363002578 active site 257363002579 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 257363002580 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 257363002581 Mg++ binding site [ion binding]; other site 257363002582 putative catalytic motif [active] 257363002583 putative substrate binding site [chemical binding]; other site 257363002584 Protein of unknown function (DUF721); Region: DUF721; pfam05258 257363002585 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 257363002586 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 257363002587 Ferredoxin [Energy production and conversion]; Region: COG1146 257363002588 4Fe-4S binding domain; Region: Fer4; cl02805 257363002589 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 257363002590 heme exporter protein CcmC; Region: ccmC; TIGR01191 257363002591 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 257363002592 nucleoside/Zn binding site; other site 257363002593 dimer interface [polypeptide binding]; other site 257363002594 catalytic motif [active] 257363002595 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 257363002596 Cation efflux family; Region: Cation_efflux; cl00316 257363002597 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 257363002598 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 257363002599 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 257363002600 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 257363002601 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257363002602 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257363002603 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 257363002604 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 257363002605 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 257363002606 dimer interface [polypeptide binding]; other site 257363002607 ssDNA binding site [nucleotide binding]; other site 257363002608 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257363002609 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 257363002610 hypothetical protein; Reviewed; Region: PRK01530 257363002611 heat shock protein 90; Provisional; Region: PRK05218 257363002612 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 257363002613 ATP binding site [chemical binding]; other site 257363002614 Mg2+ binding site [ion binding]; other site 257363002615 G-X-G motif; other site 257363002616 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 257363002617 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 257363002618 substrate-cofactor binding pocket; other site 257363002619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257363002620 catalytic residue [active] 257363002621 trigger factor; Provisional; Region: tig; PRK01490 257363002622 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 257363002623 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 257363002624 GTPase CgtA; Reviewed; Region: obgE; PRK12299 257363002625 GTP1/OBG; Region: GTP1_OBG; pfam01018 257363002626 Obg GTPase; Region: Obg; cd01898 257363002627 G1 box; other site 257363002628 GTP/Mg2+ binding site [chemical binding]; other site 257363002629 Switch I region; other site 257363002630 G2 box; other site 257363002631 G3 box; other site 257363002632 Switch II region; other site 257363002633 G4 box; other site 257363002634 G5 box; other site 257363002635 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 257363002636 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 257363002637 dimer interface [polypeptide binding]; other site 257363002638 active site 257363002639 citrylCoA binding site [chemical binding]; other site 257363002640 NADH binding [chemical binding]; other site 257363002641 cationic pore residues; other site 257363002642 oxalacetate/citrate binding site [chemical binding]; other site 257363002643 coenzyme A binding site [chemical binding]; other site 257363002644 catalytic triad [active] 257363002645 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 257363002646 Fe-S cluster binding site [ion binding]; other site 257363002647 active site 257363002648 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 257363002649 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 257363002650 RNA binding surface [nucleotide binding]; other site 257363002651 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257363002652 active site 257363002653 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 257363002654 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 257363002655 S-adenosylmethionine binding site [chemical binding]; other site 257363002656 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 257363002657 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 257363002658 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 257363002659 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 257363002660 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 257363002661 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 257363002662 motif 1; other site 257363002663 dimer interface [polypeptide binding]; other site 257363002664 active site 257363002665 motif 2; other site 257363002666 motif 3; other site 257363002667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 257363002668 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 257363002669 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363002670 putative substrate translocation pore; other site 257363002671 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 257363002672 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 257363002673 motif 1; other site 257363002674 active site 257363002675 motif 2; other site 257363002676 motif 3; other site 257363002677 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 257363002678 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 257363002679 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 257363002680 dimerization interface 3.5A [polypeptide binding]; other site 257363002681 active site 257363002682 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 257363002683 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 257363002684 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 257363002685 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257363002686 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 257363002687 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 257363002688 DNA binding residues [nucleotide binding] 257363002689 DNA primase, catalytic core; Region: dnaG; TIGR01391 257363002690 CHC2 zinc finger; Region: zf-CHC2; pfam01807 257363002691 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 257363002692 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 257363002693 active site 257363002694 metal binding site [ion binding]; metal-binding site 257363002695 interdomain interaction site; other site 257363002696 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 257363002697 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 257363002698 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 257363002699 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 257363002700 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 257363002701 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 257363002702 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 257363002703 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 257363002704 ligand binding site [chemical binding]; other site 257363002705 homodimer interface [polypeptide binding]; other site 257363002706 NAD(P) binding site [chemical binding]; other site 257363002707 trimer interface B [polypeptide binding]; other site 257363002708 trimer interface A [polypeptide binding]; other site 257363002709 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 257363002710 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 257363002711 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 257363002712 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 257363002713 Walker A motif; other site 257363002714 ATP binding site [chemical binding]; other site 257363002715 Walker B motif; other site 257363002716 arginine finger; other site 257363002717 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 257363002718 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 257363002719 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 257363002720 Walker A motif; other site 257363002721 ATP binding site [chemical binding]; other site 257363002722 Walker B motif; other site 257363002723 arginine finger; other site 257363002724 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 257363002725 hypothetical protein; Validated; Region: PRK00153 257363002726 Predicted aspartyl protease [General function prediction only]; Region: COG3577 257363002727 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 257363002728 catalytic motif [active] 257363002729 Catalytic residue [active] 257363002730 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257363002731 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257363002732 Walker A/P-loop; other site 257363002733 ATP binding site [chemical binding]; other site 257363002734 Q-loop/lid; other site 257363002735 ABC transporter signature motif; other site 257363002736 Walker B; other site 257363002737 D-loop; other site 257363002738 H-loop/switch region; other site 257363002739 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 257363002740 putative hydrolase; Provisional; Region: PRK02113 257363002741 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 257363002742 active site 257363002743 Predicted permeases [General function prediction only]; Region: COG0795 257363002744 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 257363002745 DNA polymerase III subunit chi; Provisional; Region: PRK06646 257363002746 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 257363002747 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 257363002748 metal binding site [ion binding]; metal-binding site 257363002749 dimer interface [polypeptide binding]; other site 257363002750 Uncharacterized conserved protein [Function unknown]; Region: COG1434 257363002751 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 257363002752 putative active site [active] 257363002753 lipoate-protein ligase B; Provisional; Region: PRK14347 257363002754 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 257363002755 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 257363002756 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 257363002757 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 257363002758 ATP binding site [chemical binding]; other site 257363002759 Mg2+ binding site [ion binding]; other site 257363002760 G-X-G motif; other site 257363002761 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 257363002762 ATP binding site [chemical binding]; other site 257363002763 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 257363002764 Zinc-finger domain; Region: zf-CHCC; cl01821 257363002765 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 257363002766 metabolite-proton symporter; Region: 2A0106; TIGR00883 257363002767 putative substrate translocation pore; other site 257363002768 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 257363002769 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 257363002770 TIGR00701 family protein; Region: TIGR00701 257363002771 ferrochelatase; Reviewed; Region: hemH; PRK00035 257363002772 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 257363002773 C-terminal domain interface [polypeptide binding]; other site 257363002774 active site 257363002775 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 257363002776 active site 257363002777 N-terminal domain interface [polypeptide binding]; other site 257363002778 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 257363002779 substrate binding site [chemical binding]; other site 257363002780 active site