-- dump date 20140620_034120 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1105096000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1105096000002 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 1105096000003 catalytic residues [active] 1105096000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1105096000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1105096000006 Walker A/P-loop; other site 1105096000007 ATP binding site [chemical binding]; other site 1105096000008 Q-loop/lid; other site 1105096000009 ABC transporter signature motif; other site 1105096000010 Walker B; other site 1105096000011 D-loop; other site 1105096000012 H-loop/switch region; other site 1105096000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1105096000014 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1105096000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1105096000016 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 1105096000017 FAD binding pocket [chemical binding]; other site 1105096000018 FAD binding motif [chemical binding]; other site 1105096000019 phosphate binding motif [ion binding]; other site 1105096000020 beta-alpha-beta structure motif; other site 1105096000021 NAD binding pocket [chemical binding]; other site 1105096000022 Iron coordination center [ion binding]; other site 1105096000023 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1105096000024 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 1105096000025 active site 1105096000026 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 1105096000027 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1105096000028 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1105096000029 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 1105096000030 trimer interface [polypeptide binding]; other site 1105096000031 active site 1105096000032 UDP-GlcNAc binding site [chemical binding]; other site 1105096000033 lipid binding site [chemical binding]; lipid-binding site 1105096000034 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1105096000035 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 1105096000036 FMN binding site [chemical binding]; other site 1105096000037 active site 1105096000038 catalytic residues [active] 1105096000039 substrate binding site [chemical binding]; other site 1105096000040 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105096000041 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1105096000042 NodB motif; other site 1105096000043 putative active site [active] 1105096000044 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1105096000045 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1105096000046 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 1105096000047 putative ligand binding site [chemical binding]; other site 1105096000048 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1105096000049 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1105096000050 active site 1105096000051 NTP binding site [chemical binding]; other site 1105096000052 metal binding triad [ion binding]; metal-binding site 1105096000053 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1105096000054 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105096000055 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105096000056 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1105096000057 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1105096000058 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105096000059 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1105096000060 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1105096000061 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1105096000062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1105096000063 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1105096000064 Thioredoxin; Region: Thioredoxin_4; pfam13462 1105096000065 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1105096000066 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105096000067 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 1105096000068 S-adenosylmethionine binding site [chemical binding]; other site 1105096000069 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105096000070 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105096000071 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1105096000072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096000073 Walker A/P-loop; other site 1105096000074 ATP binding site [chemical binding]; other site 1105096000075 Q-loop/lid; other site 1105096000076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096000077 ABC transporter signature motif; other site 1105096000078 Walker B; other site 1105096000079 D-loop; other site 1105096000080 H-loop/switch region; other site 1105096000081 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105096000082 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 1105096000083 Cu(I) binding site [ion binding]; other site 1105096000084 Putative transcriptional regulator [Transcription]; Region: COG1678 1105096000085 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1105096000086 Colicin V production protein; Region: Colicin_V; pfam02674 1105096000087 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1105096000088 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1105096000089 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105096000090 NAD(P) binding site [chemical binding]; other site 1105096000091 homotetramer interface [polypeptide binding]; other site 1105096000092 homodimer interface [polypeptide binding]; other site 1105096000093 active site 1105096000094 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1105096000095 Clp amino terminal domain; Region: Clp_N; pfam02861 1105096000096 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 1105096000097 Walker A motif; other site 1105096000098 ATP binding site [chemical binding]; other site 1105096000099 Walker B motif; other site 1105096000100 arginine finger; other site 1105096000101 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 1105096000102 Walker A motif; other site 1105096000103 ATP binding site [chemical binding]; other site 1105096000104 Walker B motif; other site 1105096000105 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1105096000106 UGMP family protein; Validated; Region: PRK09604 1105096000107 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1105096000108 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105096000109 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 1105096000110 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1105096000111 Di-iron ligands [ion binding]; other site 1105096000112 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 1105096000113 Protein of unknown function (DUF713); Region: DUF713; pfam05218 1105096000114 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1105096000115 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1105096000116 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1105096000117 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1105096000118 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1105096000119 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1105096000120 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 1105096000121 Ligand Binding Site [chemical binding]; other site 1105096000122 FtsH Extracellular; Region: FtsH_ext; pfam06480 1105096000123 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1105096000124 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 1105096000125 Walker A motif; other site 1105096000126 ATP binding site [chemical binding]; other site 1105096000127 Walker B motif; other site 1105096000128 arginine finger; other site 1105096000129 Peptidase family M41; Region: Peptidase_M41; pfam01434 1105096000130 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1105096000131 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1105096000132 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1105096000133 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1105096000134 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1105096000135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1105096000136 membrane protein insertase; Provisional; Region: PRK01318 1105096000137 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1105096000138 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1105096000139 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105096000140 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1105096000141 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 1105096000142 putative substrate translocation pore; other site 1105096000143 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 1105096000144 active site 1105096000145 multimer interface [polypeptide binding]; other site 1105096000146 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1105096000147 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1105096000148 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1105096000149 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1105096000150 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 1105096000151 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1105096000152 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 1105096000153 P loop; other site 1105096000154 Nucleotide binding site [chemical binding]; other site 1105096000155 DTAP/Switch II; other site 1105096000156 Switch I; other site 1105096000157 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 1105096000158 Magnesium ion binding site [ion binding]; other site 1105096000159 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1105096000160 ParB-like nuclease domain; Region: ParBc; pfam02195 1105096000161 KorB domain; Region: KorB; pfam08535 1105096000162 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1105096000163 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105096000164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105096000165 ABC transporter; Region: ABC_tran_2; pfam12848 1105096000166 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105096000167 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1105096000168 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1105096000169 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1105096000170 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105096000171 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1105096000172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1105096000173 Zn2+ binding site [ion binding]; other site 1105096000174 Mg2+ binding site [ion binding]; other site 1105096000175 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1105096000176 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1105096000177 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1105096000178 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1105096000179 active site 1105096000180 HIGH motif; other site 1105096000181 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105096000182 KMSK motif region; other site 1105096000183 tRNA binding surface [nucleotide binding]; other site 1105096000184 DALR anticodon binding domain; Region: DALR_1; smart00836 1105096000185 anticodon binding site; other site 1105096000186 Sporulation related domain; Region: SPOR; pfam05036 1105096000187 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1105096000188 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 1105096000189 CAP-like domain; other site 1105096000190 active site 1105096000191 primary dimer interface [polypeptide binding]; other site 1105096000192 Gram-negative porin; Region: Porin_4; pfam13609 1105096000193 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105096000194 trimer interface [polypeptide binding]; other site 1105096000195 active site 1105096000196 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 1105096000197 SecA binding site; other site 1105096000198 Preprotein binding site; other site 1105096000199 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105096000200 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 1105096000201 active site 1105096000202 phosphorylation site [posttranslational modification] 1105096000203 intermolecular recognition site; other site 1105096000204 dimerization interface [polypeptide binding]; other site 1105096000205 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 1105096000206 DNA binding site [nucleotide binding] 1105096000207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1105096000208 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1105096000209 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1105096000210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1105096000211 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1105096000212 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1105096000213 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1105096000214 EamA-like transporter family; Region: EamA; pfam00892 1105096000215 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1105096000216 EamA-like transporter family; Region: EamA; pfam00892 1105096000217 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 1105096000218 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096000219 putative substrate translocation pore; other site 1105096000220 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1105096000221 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1105096000222 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105096000223 active site 1105096000224 HIGH motif; other site 1105096000225 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105096000226 KMSKS motif; other site 1105096000227 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105096000228 tRNA binding surface [nucleotide binding]; other site 1105096000229 anticodon binding site; other site 1105096000230 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 1105096000231 rRNA interaction site [nucleotide binding]; other site 1105096000232 S8 interaction site; other site 1105096000233 putative laminin-1 binding site; other site 1105096000234 elongation factor Ts; Provisional; Region: tsf; PRK09377 1105096000235 UBA/TS-N domain; Region: UBA; pfam00627 1105096000236 Elongation factor TS; Region: EF_TS; pfam00889 1105096000237 Elongation factor TS; Region: EF_TS; pfam00889 1105096000238 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1105096000239 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1105096000240 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1105096000241 putative acyl-acceptor binding pocket; other site 1105096000242 aspartate aminotransferase; Provisional; Region: PRK05764 1105096000243 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 1105096000244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105096000245 homodimer interface [polypeptide binding]; other site 1105096000246 catalytic residue [active] 1105096000247 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105096000248 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1105096000249 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1105096000250 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1105096000251 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1105096000252 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1105096000253 active site 1105096000254 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1105096000255 dimer interface [polypeptide binding]; other site 1105096000256 substrate binding site [chemical binding]; other site 1105096000257 catalytic residues [active] 1105096000258 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1105096000259 Permease; Region: Permease; pfam02405 1105096000260 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1105096000261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096000262 Walker A/P-loop; other site 1105096000263 ATP binding site [chemical binding]; other site 1105096000264 Q-loop/lid; other site 1105096000265 ABC transporter signature motif; other site 1105096000266 Walker B; other site 1105096000267 D-loop; other site 1105096000268 H-loop/switch region; other site 1105096000269 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1105096000270 50S ribosomal protein L31; Provisional; Region: PRK01397 1105096000271 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1105096000272 G1 box; other site 1105096000273 GTP/Mg2+ binding site [chemical binding]; other site 1105096000274 Switch I region; other site 1105096000275 G2 box; other site 1105096000276 G3 box; other site 1105096000277 Switch II region; other site 1105096000278 G4 box; other site 1105096000279 G5 box; other site 1105096000280 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1105096000281 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1105096000282 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1105096000283 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105096000284 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096000285 Walker A/P-loop; other site 1105096000286 ATP binding site [chemical binding]; other site 1105096000287 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105096000288 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105096000289 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105096000290 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105096000291 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105096000292 phosphate acetyltransferase; Provisional; Region: PRK11890 1105096000293 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1105096000294 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1105096000295 propionate/acetate kinase; Provisional; Region: PRK12379 1105096000296 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1105096000297 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1105096000298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1105096000299 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1105096000300 Protein export membrane protein; Region: SecD_SecF; pfam02355 1105096000301 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1105096000302 SLBB domain; Region: SLBB; pfam10531 1105096000303 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1105096000304 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1105096000305 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 1105096000306 Catalytic site [active] 1105096000307 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 1105096000308 ribonuclease III; Reviewed; Region: rnc; PRK00102 1105096000309 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 1105096000310 dimerization interface [polypeptide binding]; other site 1105096000311 active site 1105096000312 metal binding site [ion binding]; metal-binding site 1105096000313 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 1105096000314 dsRNA binding site [nucleotide binding]; other site 1105096000315 GTPase [General function prediction only]; Region: Era; COG1159 1105096000316 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1105096000317 G1 box; other site 1105096000318 GTP/Mg2+ binding site [chemical binding]; other site 1105096000319 Switch I region; other site 1105096000320 G2 box; other site 1105096000321 Switch II region; other site 1105096000322 G3 box; other site 1105096000323 G4 box; other site 1105096000324 G5 box; other site 1105096000325 KH domain; Region: KH_2; pfam07650 1105096000326 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 1105096000327 active site 1105096000328 putative DNA-binding cleft [nucleotide binding]; other site 1105096000329 dimer interface [polypeptide binding]; other site 1105096000330 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1105096000331 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1105096000332 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1105096000333 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 1105096000334 Walker A motif; other site 1105096000335 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 1105096000336 HflK protein; Region: hflK; TIGR01933 1105096000337 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105096000338 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 1105096000339 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1105096000340 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105096000341 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 1105096000342 protein binding site [polypeptide binding]; other site 1105096000343 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 1105096000344 protein binding site [polypeptide binding]; other site 1105096000345 hypothetical protein; Validated; Region: PRK01415 1105096000346 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1105096000347 active site residue [active] 1105096000348 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 1105096000349 Iron-sulfur protein interface; other site 1105096000350 proximal quinone binding site [chemical binding]; other site 1105096000351 SdhD (CybS) interface [polypeptide binding]; other site 1105096000352 proximal heme binding site [chemical binding]; other site 1105096000353 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 1105096000354 putative SdhC subunit interface [polypeptide binding]; other site 1105096000355 putative proximal heme binding site [chemical binding]; other site 1105096000356 putative Iron-sulfur protein interface [polypeptide binding]; other site 1105096000357 putative proximal quinone binding site; other site 1105096000358 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1105096000359 L-aspartate oxidase; Provisional; Region: PRK06175 1105096000360 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1105096000361 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1105096000362 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 1105096000363 dimer interface [polypeptide binding]; other site 1105096000364 conserved gate region; other site 1105096000365 putative PBP binding loops; other site 1105096000366 ABC-ATPase subunit interface; other site 1105096000367 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 1105096000368 S17 interaction site [polypeptide binding]; other site 1105096000369 S8 interaction site; other site 1105096000370 16S rRNA interaction site [nucleotide binding]; other site 1105096000371 streptomycin interaction site [chemical binding]; other site 1105096000372 23S rRNA interaction site [nucleotide binding]; other site 1105096000373 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1105096000374 30S ribosomal protein S7; Validated; Region: PRK05302 1105096000375 elongation factor G; Reviewed; Region: PRK00007 1105096000376 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1105096000377 G1 box; other site 1105096000378 putative GEF interaction site [polypeptide binding]; other site 1105096000379 GTP/Mg2+ binding site [chemical binding]; other site 1105096000380 Switch I region; other site 1105096000381 G2 box; other site 1105096000382 G3 box; other site 1105096000383 Switch II region; other site 1105096000384 G4 box; other site 1105096000385 G5 box; other site 1105096000386 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 1105096000387 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 1105096000388 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 1105096000389 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1105096000390 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1105096000391 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1105096000392 putative homodimer interface [polypeptide binding]; other site 1105096000393 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1105096000394 heterodimer interface [polypeptide binding]; other site 1105096000395 homodimer interface [polypeptide binding]; other site 1105096000396 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1105096000397 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 1105096000398 23S rRNA interface [nucleotide binding]; other site 1105096000399 putative thiostrepton binding site; other site 1105096000400 L7/L12 interface [polypeptide binding]; other site 1105096000401 L25 interface [polypeptide binding]; other site 1105096000402 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 1105096000403 mRNA/rRNA interface [nucleotide binding]; other site 1105096000404 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 1105096000405 23S rRNA interface [nucleotide binding]; other site 1105096000406 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1105096000407 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 1105096000408 core dimer interface [polypeptide binding]; other site 1105096000409 peripheral dimer interface [polypeptide binding]; other site 1105096000410 L10 interface [polypeptide binding]; other site 1105096000411 L11 interface [polypeptide binding]; other site 1105096000412 putative EF-Tu interaction site [polypeptide binding]; other site 1105096000413 putative EF-G interaction site [polypeptide binding]; other site 1105096000414 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1105096000415 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 1105096000416 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1105096000417 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 1105096000418 RPB11 interaction site [polypeptide binding]; other site 1105096000419 RPB12 interaction site [polypeptide binding]; other site 1105096000420 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 1105096000421 RPB3 interaction site [polypeptide binding]; other site 1105096000422 RPB1 interaction site [polypeptide binding]; other site 1105096000423 RPB11 interaction site [polypeptide binding]; other site 1105096000424 RPB10 interaction site [polypeptide binding]; other site 1105096000425 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1105096000426 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1105096000427 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1105096000428 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1105096000429 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1105096000430 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1105096000431 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1105096000432 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 1105096000433 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1105096000434 DNA binding site [nucleotide binding] 1105096000435 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1105096000436 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1105096000437 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 1105096000438 interface (dimer of trimers) [polypeptide binding]; other site 1105096000439 Substrate-binding/catalytic site; other site 1105096000440 Zn-binding sites [ion binding]; other site 1105096000441 ATPase MipZ; Region: MipZ; pfam09140 1105096000442 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 1105096000443 P-loop; other site 1105096000444 Magnesium ion binding site [ion binding]; other site 1105096000445 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1105096000446 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 1105096000447 dimer interface [polypeptide binding]; other site 1105096000448 anticodon binding site; other site 1105096000449 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 1105096000450 homodimer interface [polypeptide binding]; other site 1105096000451 motif 1; other site 1105096000452 active site 1105096000453 motif 2; other site 1105096000454 GAD domain; Region: GAD; pfam02938 1105096000455 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 1105096000456 active site 1105096000457 motif 3; other site 1105096000458 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1105096000459 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1105096000460 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1105096000461 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1105096000462 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1105096000463 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1105096000464 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105096000465 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 1105096000466 substrate binding pocket [chemical binding]; other site 1105096000467 membrane-bound complex binding site; other site 1105096000468 hinge residues; other site 1105096000469 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1105096000470 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1105096000471 GatB domain; Region: GatB_Yqey; smart00845 1105096000472 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1105096000473 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1105096000474 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 1105096000475 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1105096000476 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 1105096000477 hinge region; other site 1105096000478 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 1105096000479 putative nucleotide binding site [chemical binding]; other site 1105096000480 uridine monophosphate binding site [chemical binding]; other site 1105096000481 homohexameric interface [polypeptide binding]; other site 1105096000482 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1105096000483 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105096000484 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 1105096000485 putative substrate translocation pore; other site 1105096000486 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 1105096000487 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1105096000488 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1105096000489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105096000490 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105096000491 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105096000492 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105096000493 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105096000494 Surface antigen; Region: Bac_surface_Ag; pfam01103 1105096000495 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1105096000496 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 1105096000497 active site 1105096000498 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 1105096000499 protein binding site [polypeptide binding]; other site 1105096000500 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 1105096000501 putative substrate binding region [chemical binding]; other site 1105096000502 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 1105096000503 putative RNA binding site [nucleotide binding]; other site 1105096000504 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1105096000505 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 1105096000506 S-adenosylmethionine binding site [chemical binding]; other site 1105096000507 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1105096000508 nucleophilic elbow; other site 1105096000509 catalytic triad; other site 1105096000510 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1105096000511 putative coenzyme Q binding site [chemical binding]; other site 1105096000512 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1105096000513 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1105096000514 RNA methyltransferase, RsmE family; Region: TIGR00046 1105096000515 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1105096000516 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1105096000517 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105096000518 Protein export membrane protein; Region: SecD_SecF; cl14618 1105096000519 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 1105096000520 IHF dimer interface [polypeptide binding]; other site 1105096000521 IHF - DNA interface [nucleotide binding]; other site 1105096000522 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1105096000523 signal recognition particle protein; Provisional; Region: PRK10867 1105096000524 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1105096000525 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 1105096000526 P loop; other site 1105096000527 GTP binding site [chemical binding]; other site 1105096000528 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1105096000529 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105096000530 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105096000531 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1105096000532 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 1105096000533 FeS/SAM binding site; other site 1105096000534 HemN C-terminal domain; Region: HemN_C; pfam06969 1105096000535 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105096000536 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1105096000537 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105096000538 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1105096000539 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1105096000540 active site 1105096000541 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1105096000542 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 1105096000543 E3 interaction surface; other site 1105096000544 lipoyl attachment site [posttranslational modification]; other site 1105096000545 e3 binding domain; Region: E3_binding; pfam02817 1105096000546 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105096000547 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1105096000548 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 1105096000549 TPP-binding site [chemical binding]; other site 1105096000550 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1105096000551 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1105096000552 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1105096000553 active site 1105096000554 Zn binding site [ion binding]; other site 1105096000555 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1105096000556 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105096000557 Walker A/P-loop; other site 1105096000558 ATP binding site [chemical binding]; other site 1105096000559 Q-loop/lid; other site 1105096000560 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105096000561 ABC transporter signature motif; other site 1105096000562 Walker B; other site 1105096000563 D-loop; other site 1105096000564 H-loop/switch region; other site 1105096000565 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1105096000566 chaperone protein DnaJ; Provisional; Region: PRK14300 1105096000567 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 1105096000568 HSP70 interaction site [polypeptide binding]; other site 1105096000569 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1105096000570 substrate binding site [polypeptide binding]; other site 1105096000571 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1105096000572 Zn binding sites [ion binding]; other site 1105096000573 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1105096000574 dimer interface [polypeptide binding]; other site 1105096000575 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1105096000576 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1105096000577 nucleotide binding site [chemical binding]; other site 1105096000578 NEF interaction site [polypeptide binding]; other site 1105096000579 SBD interface [polypeptide binding]; other site 1105096000580 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1105096000581 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105096000582 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1105096000583 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1105096000584 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1105096000585 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1105096000586 diiron binding motif [ion binding]; other site 1105096000587 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1105096000588 Subunit III/VIIa interface [polypeptide binding]; other site 1105096000589 Phospholipid binding site [chemical binding]; other site 1105096000590 Subunit I/III interface [polypeptide binding]; other site 1105096000591 Subunit III/VIb interface [polypeptide binding]; other site 1105096000592 Subunit III/VIa interface; other site 1105096000593 Subunit III/Vb interface [polypeptide binding]; other site 1105096000594 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1105096000595 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1105096000596 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 1105096000597 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 1105096000598 trimer interface [polypeptide binding]; other site 1105096000599 active site 1105096000600 substrate binding site [chemical binding]; other site 1105096000601 CoA binding site [chemical binding]; other site 1105096000602 Transglycosylase; Region: Transgly; pfam00912 1105096000603 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105096000604 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1105096000605 Transglycosylase; Region: Transgly; cl17702 1105096000606 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 1105096000607 Ligand Binding Site [chemical binding]; other site 1105096000608 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1105096000609 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1105096000610 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1105096000611 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 1105096000612 catalytic loop [active] 1105096000613 iron binding site [ion binding]; other site 1105096000614 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1105096000615 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105096000616 nucleotide binding site [chemical binding]; other site 1105096000617 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1105096000618 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 1105096000619 HSP70 interaction site [polypeptide binding]; other site 1105096000620 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1105096000621 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105096000622 active site 1105096000623 excinuclease ABC subunit B; Provisional; Region: PRK05298 1105096000624 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 1105096000625 ATP binding site [chemical binding]; other site 1105096000626 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 1105096000627 nucleotide binding region [chemical binding]; other site 1105096000628 ATP-binding site [chemical binding]; other site 1105096000629 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1105096000630 UvrB/uvrC motif; Region: UVR; pfam02151 1105096000631 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 1105096000632 GSH binding site [chemical binding]; other site 1105096000633 catalytic residues [active] 1105096000634 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105096000635 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1105096000636 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1105096000637 Walker A/P-loop; other site 1105096000638 ATP binding site [chemical binding]; other site 1105096000639 Q-loop/lid; other site 1105096000640 ABC transporter signature motif; other site 1105096000641 Walker B; other site 1105096000642 D-loop; other site 1105096000643 H-loop/switch region; other site 1105096000644 DNA gyrase subunit A; Validated; Region: PRK05560 1105096000645 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 1105096000646 CAP-like domain; other site 1105096000647 active site 1105096000648 primary dimer interface [polypeptide binding]; other site 1105096000649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105096000650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105096000651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105096000652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105096000653 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1105096000654 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 1105096000655 active site 1105096000656 catalytic residues [active] 1105096000657 metal binding site [ion binding]; metal-binding site 1105096000658 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1105096000659 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1105096000660 putative active site [active] 1105096000661 substrate binding site [chemical binding]; other site 1105096000662 putative cosubstrate binding site; other site 1105096000663 catalytic site [active] 1105096000664 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1105096000665 substrate binding site [chemical binding]; other site 1105096000666 potential RNA of insufficient length (23S ribosomal RNA) 1105096000667 Predicted ATPase [General function prediction only]; Region: COG1485 1105096000668 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 1105096000669 Walker A motif; other site 1105096000670 ATP binding site [chemical binding]; other site 1105096000671 Walker B motif; other site 1105096000672 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1105096000673 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1105096000674 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105096000675 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105096000676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096000677 Walker A/P-loop; other site 1105096000678 ATP binding site [chemical binding]; other site 1105096000679 Q-loop/lid; other site 1105096000680 ABC transporter signature motif; other site 1105096000681 Walker B; other site 1105096000682 D-loop; other site 1105096000683 H-loop/switch region; other site 1105096000684 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1105096000685 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1105096000686 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1105096000687 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1105096000688 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105096000689 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1105096000690 putative metal binding site; other site 1105096000691 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1105096000692 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1105096000693 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1105096000694 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1105096000695 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1105096000696 ATP binding site [chemical binding]; other site 1105096000697 active site 1105096000698 substrate binding site [chemical binding]; other site 1105096000699 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1105096000700 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 1105096000701 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105096000702 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 1105096000703 active site 1105096000704 dimer interface [polypeptide binding]; other site 1105096000705 motif 1; other site 1105096000706 motif 2; other site 1105096000707 motif 3; other site 1105096000708 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 1105096000709 anticodon binding site; other site 1105096000710 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1105096000711 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1105096000712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1105096000713 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105096000714 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 1105096000715 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1105096000716 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 1105096000717 ATP binding site [chemical binding]; other site 1105096000718 Mg2+ binding site [ion binding]; other site 1105096000719 G-X-G motif; other site 1105096000720 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 1105096000721 anchoring element; other site 1105096000722 dimer interface [polypeptide binding]; other site 1105096000723 ATP binding site [chemical binding]; other site 1105096000724 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 1105096000725 active site 1105096000726 metal binding site [ion binding]; metal-binding site 1105096000727 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105096000728 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1105096000729 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1105096000730 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 1105096000731 protein binding site [polypeptide binding]; other site 1105096000732 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1105096000733 Catalytic dyad [active] 1105096000734 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 1105096000735 dimer interface [polypeptide binding]; other site 1105096000736 phosphorylation site [posttranslational modification] 1105096000737 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 1105096000738 ATP binding site [chemical binding]; other site 1105096000739 Mg2+ binding site [ion binding]; other site 1105096000740 G-X-G motif; other site 1105096000741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1105096000742 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1105096000743 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1105096000744 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1105096000745 Trp docking motif [polypeptide binding]; other site 1105096000746 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 1105096000747 23S rRNA interface [nucleotide binding]; other site 1105096000748 L3 interface [polypeptide binding]; other site 1105096000749 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1105096000750 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 1105096000751 putative active site [active] 1105096000752 Ap4A binding site [chemical binding]; other site 1105096000753 nudix motif; other site 1105096000754 putative metal binding site [ion binding]; other site 1105096000755 response regulator PleD; Reviewed; Region: pleD; PRK09581 1105096000756 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 1105096000757 active site 1105096000758 phosphorylation site [posttranslational modification] 1105096000759 intermolecular recognition site; other site 1105096000760 dimerization interface [polypeptide binding]; other site 1105096000761 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 1105096000762 active site 1105096000763 phosphorylation site [posttranslational modification] 1105096000764 intermolecular recognition site; other site 1105096000765 dimerization interface [polypeptide binding]; other site 1105096000766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1105096000767 metal binding site [ion binding]; metal-binding site 1105096000768 active site 1105096000769 I-site; other site 1105096000770 elongation factor P; Validated; Region: PRK00529 1105096000771 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1105096000772 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 1105096000773 RNA binding site [nucleotide binding]; other site 1105096000774 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 1105096000775 RNA binding site [nucleotide binding]; other site 1105096000776 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105096000777 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 1105096000778 active site 1105096000779 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1105096000780 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1105096000781 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1105096000782 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1105096000783 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1105096000784 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105096000785 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105096000786 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105096000787 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 1105096000788 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1105096000789 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105096000790 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105096000791 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105096000792 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1105096000793 FAD binding domain; Region: FAD_binding_4; pfam01565 1105096000794 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1105096000795 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1105096000796 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1105096000797 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1105096000798 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1105096000799 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1105096000800 Cell division protein FtsQ; Region: FtsQ; pfam03799 1105096000801 cell division protein FtsA; Region: ftsA; TIGR01174 1105096000802 Cell division protein FtsA; Region: FtsA; smart00842 1105096000803 Cell division protein FtsA; Region: FtsA; pfam14450 1105096000804 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1105096000805 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1105096000806 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 1105096000807 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1105096000808 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 1105096000809 RNA binding site [nucleotide binding]; other site 1105096000810 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1105096000811 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 1105096000812 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1105096000813 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1105096000814 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105096000815 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 1105096000816 RNA binding surface [nucleotide binding]; other site 1105096000817 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105096000818 active site 1105096000819 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1105096000820 Beta-lactamase; Region: Beta-lactamase; pfam00144 1105096000821 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 1105096000822 putative catalytic site [active] 1105096000823 putative phosphate binding site [ion binding]; other site 1105096000824 active site 1105096000825 metal binding site A [ion binding]; metal-binding site 1105096000826 DNA binding site [nucleotide binding] 1105096000827 putative AP binding site [nucleotide binding]; other site 1105096000828 putative metal binding site B [ion binding]; other site 1105096000829 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1105096000830 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 1105096000831 tetramer interface [polypeptide binding]; other site 1105096000832 TPP-binding site [chemical binding]; other site 1105096000833 heterodimer interface [polypeptide binding]; other site 1105096000834 phosphorylation loop region [posttranslational modification] 1105096000835 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1105096000836 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 1105096000837 alpha subunit interface [polypeptide binding]; other site 1105096000838 TPP binding site [chemical binding]; other site 1105096000839 heterodimer interface [polypeptide binding]; other site 1105096000840 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1105096000841 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1105096000842 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1105096000843 G1 box; other site 1105096000844 putative GEF interaction site [polypeptide binding]; other site 1105096000845 GTP/Mg2+ binding site [chemical binding]; other site 1105096000846 Switch I region; other site 1105096000847 G2 box; other site 1105096000848 G3 box; other site 1105096000849 Switch II region; other site 1105096000850 G4 box; other site 1105096000851 G5 box; other site 1105096000852 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 1105096000853 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 1105096000854 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1105096000855 isocitrate dehydrogenase; Validated; Region: PRK09222 1105096000856 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1105096000857 monovalent cation/proton antiporter, MnhG/PhaG subunit; Region: CPA3_mnhG_phaG; TIGR01300 1105096000858 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1105096000859 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1105096000860 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1105096000861 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1105096000862 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1105096000863 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1105096000864 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 1105096000865 [2Fe-2S] cluster binding site [ion binding]; other site 1105096000866 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 1105096000867 cytochrome b; Provisional; Region: CYTB; MTH00191 1105096000868 Qi binding site; other site 1105096000869 intrachain domain interface; other site 1105096000870 interchain domain interface [polypeptide binding]; other site 1105096000871 heme bH binding site [chemical binding]; other site 1105096000872 heme bL binding site [chemical binding]; other site 1105096000873 Qo binding site; other site 1105096000874 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 1105096000875 interchain domain interface [polypeptide binding]; other site 1105096000876 intrachain domain interface; other site 1105096000877 Qi binding site; other site 1105096000878 Qo binding site; other site 1105096000879 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1105096000880 Cytochrome c; Region: Cytochrom_C; cl11414 1105096000881 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1105096000882 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 1105096000883 putative dimer interface [polypeptide binding]; other site 1105096000884 PCRF domain; Region: PCRF; pfam03462 1105096000885 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1105096000886 RF-1 domain; Region: RF-1; pfam00472 1105096000887 GTP-binding protein LepA; Provisional; Region: PRK05433 1105096000888 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1105096000889 G1 box; other site 1105096000890 putative GEF interaction site [polypeptide binding]; other site 1105096000891 GTP/Mg2+ binding site [chemical binding]; other site 1105096000892 Switch I region; other site 1105096000893 G2 box; other site 1105096000894 G3 box; other site 1105096000895 Switch II region; other site 1105096000896 G4 box; other site 1105096000897 G5 box; other site 1105096000898 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 1105096000899 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 1105096000900 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1105096000901 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1105096000902 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1105096000903 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105096000904 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1105096000905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105096000906 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1105096000907 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105096000908 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105096000909 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1105096000910 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1105096000911 VirB7 interaction site; other site 1105096000912 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105096000913 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1105096000914 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105096000915 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1105096000916 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1105096000917 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1105096000918 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 1105096000919 Walker A motif; other site 1105096000920 hexamer interface [polypeptide binding]; other site 1105096000921 ATP binding site [chemical binding]; other site 1105096000922 Walker B motif; other site 1105096000923 type IV secretion system component VirD4; Provisional; Region: PRK13897 1105096000924 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 1105096000925 Walker A motif; other site 1105096000926 ATP binding site [chemical binding]; other site 1105096000927 Walker B motif; other site 1105096000928 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1105096000929 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1105096000930 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105096000931 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105096000932 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105096000933 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 1105096000934 active site 1105096000935 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1105096000936 MutS domain I; Region: MutS_I; pfam01624 1105096000937 MutS domain II; Region: MutS_II; pfam05188 1105096000938 MutS domain III; Region: MutS_III; pfam05192 1105096000939 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1105096000940 Walker A/P-loop; other site 1105096000941 ATP binding site [chemical binding]; other site 1105096000942 Q-loop/lid; other site 1105096000943 ABC transporter signature motif; other site 1105096000944 Walker B; other site 1105096000945 D-loop; other site 1105096000946 H-loop/switch region; other site 1105096000947 sugar-phosphate isomerase, RpiB/LacA/LacB family; Region: rpiB_lacA_lacB; TIGR00689 1105096000948 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105096000949 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1105096000950 translocation protein TolB; Provisional; Region: tolB; PRK05137 1105096000951 TolB amino-terminal domain; Region: TolB_N; pfam04052 1105096000952 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105096000953 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1105096000954 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105096000955 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105096000956 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 1105096000957 DNA binding residues [nucleotide binding] 1105096000958 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1105096000959 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1105096000960 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 1105096000961 Ligand Binding Site [chemical binding]; other site 1105096000962 amino acid transporter; Region: 2A0306; TIGR00909 1105096000963 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1105096000964 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 1105096000965 dimer interface [polypeptide binding]; other site 1105096000966 motif 1; other site 1105096000967 active site 1105096000968 motif 2; other site 1105096000969 motif 3; other site 1105096000970 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 1105096000971 anticodon binding site; other site 1105096000972 TolQ protein; Region: tolQ; TIGR02796 1105096000973 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1105096000974 TolR protein; Region: tolR; TIGR02801 1105096000975 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1105096000976 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105096000977 HD domain; Region: HD_4; pfam13328 1105096000978 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 1105096000979 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096000980 putative substrate translocation pore; other site 1105096000981 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1105096000982 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 1105096000983 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105096000984 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1105096000985 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1105096000986 Walker A/P-loop; other site 1105096000987 ATP binding site [chemical binding]; other site 1105096000988 Q-loop/lid; other site 1105096000989 ABC transporter signature motif; other site 1105096000990 Walker B; other site 1105096000991 D-loop; other site 1105096000992 H-loop/switch region; other site 1105096000993 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1105096000994 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1105096000995 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1105096000996 nucleotide binding site/active site [active] 1105096000997 HIT family signature motif; other site 1105096000998 catalytic residue [active] 1105096000999 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1105096001000 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 1105096001001 active site 1105096001002 HslU subunit interaction site [polypeptide binding]; other site 1105096001003 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1105096001004 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 1105096001005 Walker A motif; other site 1105096001006 ATP binding site [chemical binding]; other site 1105096001007 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1105096001008 Walker B motif; other site 1105096001009 arginine finger; other site 1105096001010 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105096001011 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1105096001012 Lipid-A-disaccharide synthetase; Region: LpxB; pfam02684 1105096001013 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1105096001014 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1105096001015 dimerization interface [polypeptide binding]; other site 1105096001016 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 1105096001017 putative iron binding site [ion binding]; other site 1105096001018 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1105096001019 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1105096001020 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105096001021 HIGH motif; other site 1105096001022 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105096001023 active site 1105096001024 KMSKS motif; other site 1105096001025 DNA topoisomerase I; Validated; Region: PRK06599 1105096001026 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 1105096001027 active site 1105096001028 interdomain interaction site; other site 1105096001029 putative metal-binding site [ion binding]; other site 1105096001030 nucleotide binding site [chemical binding]; other site 1105096001031 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 1105096001032 domain I; other site 1105096001033 DNA binding groove [nucleotide binding] 1105096001034 phosphate binding site [ion binding]; other site 1105096001035 domain II; other site 1105096001036 domain III; other site 1105096001037 nucleotide binding site [chemical binding]; other site 1105096001038 catalytic site [active] 1105096001039 domain IV; other site 1105096001040 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1105096001041 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105096001042 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 1105096001043 dimer interface [polypeptide binding]; other site 1105096001044 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1105096001045 catalytic triad [active] 1105096001046 peroxidatic and resolving cysteines [active] 1105096001047 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105096001048 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 1105096001049 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1105096001050 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1105096001051 Sulfatase; Region: Sulfatase; pfam00884 1105096001052 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1105096001053 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1105096001054 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1105096001055 NADP binding site [chemical binding]; other site 1105096001056 active site 1105096001057 putative substrate binding site [chemical binding]; other site 1105096001058 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1105096001059 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1105096001060 NAD(P) binding site [chemical binding]; other site 1105096001061 homodimer interface [polypeptide binding]; other site 1105096001062 substrate binding site [chemical binding]; other site 1105096001063 active site 1105096001064 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1105096001065 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1105096001066 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 1105096001067 active site 1105096001068 homodimer interface [polypeptide binding]; other site 1105096001069 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 1105096001070 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105096001071 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 1105096001072 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105096001073 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 1105096001074 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1105096001075 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1105096001076 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105096001077 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 1105096001078 active site 1105096001079 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105096001080 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 1105096001081 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1105096001082 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105096001083 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105096001084 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105096001085 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105096001086 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1105096001087 catalytic site [active] 1105096001088 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105096001089 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 1105096001090 putative ADP-binding pocket [chemical binding]; other site 1105096001091 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1105096001092 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1105096001093 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 1105096001094 RNA binding surface [nucleotide binding]; other site 1105096001095 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1105096001096 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105096001097 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1105096001098 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105096001099 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1105096001100 RimM N-terminal domain; Region: RimM; pfam01782 1105096001101 PRC-barrel domain; Region: PRC; pfam05239 1105096001102 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105096001103 exodeoxyribonuclease VII, small subunit; Region: xseB; TIGR01280 1105096001104 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1105096001105 active site 1105096001106 DNA binding site [nucleotide binding] 1105096001107 hypothetical protein; Provisional; Region: PRK14388 1105096001108 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1105096001109 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 1105096001110 putative dimer interface [polypeptide binding]; other site 1105096001111 [2Fe-2S] cluster binding site [ion binding]; other site 1105096001112 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1105096001113 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1105096001114 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1105096001115 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1105096001116 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1105096001117 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1105096001118 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1105096001119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1105096001120 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1105096001121 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 1105096001122 active site 1105096001123 DNA binding site [nucleotide binding] 1105096001124 Int/Topo IB signature motif; other site 1105096001125 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1105096001126 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1105096001127 NAD binding site [chemical binding]; other site 1105096001128 homotetramer interface [polypeptide binding]; other site 1105096001129 homodimer interface [polypeptide binding]; other site 1105096001130 substrate binding site [chemical binding]; other site 1105096001131 active site 1105096001132 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1105096001133 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1105096001134 putative active site [active] 1105096001135 catalytic triad [active] 1105096001136 putative dimer interface [polypeptide binding]; other site 1105096001137 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1105096001138 zinc binding site [ion binding]; other site 1105096001139 putative ligand binding site [chemical binding]; other site 1105096001140 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 1105096001141 TM-ABC transporter signature motif; other site 1105096001142 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1105096001143 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096001144 Walker A/P-loop; other site 1105096001145 ATP binding site [chemical binding]; other site 1105096001146 Q-loop/lid; other site 1105096001147 ABC transporter signature motif; other site 1105096001148 Walker B; other site 1105096001149 D-loop; other site 1105096001150 H-loop/switch region; other site 1105096001151 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1105096001152 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1105096001153 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1105096001154 active site 1105096001155 HIGH motif; other site 1105096001156 KMSKS motif; other site 1105096001157 Predicted permeases [General function prediction only]; Region: COG0679 1105096001158 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1105096001159 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1105096001160 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1105096001161 putative NAD(P) binding site [chemical binding]; other site 1105096001162 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1105096001163 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 1105096001164 active site/putative ARF binding site [active] 1105096001165 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 1105096001166 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096001167 putative substrate translocation pore; other site 1105096001168 malate dehydrogenase; Reviewed; Region: PRK06223 1105096001169 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1105096001170 NAD(P) binding site [chemical binding]; other site 1105096001171 dimer interface [polypeptide binding]; other site 1105096001172 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105096001173 substrate binding site [chemical binding]; other site 1105096001174 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105096001175 CTP synthetase; Validated; Region: pyrG; PRK05380 1105096001176 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 1105096001177 Catalytic site [active] 1105096001178 active site 1105096001179 UTP binding site [chemical binding]; other site 1105096001180 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1105096001181 active site 1105096001182 putative oxyanion hole; other site 1105096001183 catalytic triad [active] 1105096001184 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1105096001185 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1105096001186 Ligand binding site; other site 1105096001187 oligomer interface; other site 1105096001188 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1105096001189 GTP cyclohydrolase I; Provisional; Region: PLN03044 1105096001190 active site 1105096001191 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1105096001192 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 1105096001193 dimer interface [polypeptide binding]; other site 1105096001194 motif 1; other site 1105096001195 active site 1105096001196 motif 2; other site 1105096001197 motif 3; other site 1105096001198 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 1105096001199 anticodon binding site; other site 1105096001200 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1105096001201 RuvA N terminal domain; Region: RuvA_N; pfam01330 1105096001202 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1105096001203 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1105096001204 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 1105096001205 Walker A motif; other site 1105096001206 ATP binding site [chemical binding]; other site 1105096001207 Walker B motif; other site 1105096001208 arginine finger; other site 1105096001209 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1105096001210 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105096001211 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105096001212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096001213 Walker A/P-loop; other site 1105096001214 ATP binding site [chemical binding]; other site 1105096001215 Q-loop/lid; other site 1105096001216 ABC transporter signature motif; other site 1105096001217 Walker B; other site 1105096001218 D-loop; other site 1105096001219 H-loop/switch region; other site 1105096001220 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1105096001221 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1105096001222 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105096001223 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1105096001224 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1105096001225 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1105096001226 BON domain; Region: BON; pfam04972 1105096001227 BON domain; Region: BON; pfam04972 1105096001228 intracellular septation protein A; Reviewed; Region: PRK00259 1105096001229 Iron permease FTR1 family; Region: FTR1; pfam03239 1105096001230 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1105096001231 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105096001232 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1105096001233 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 1105096001234 active site 1105096001235 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 1105096001236 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1105096001237 catalytic residues [active] 1105096001238 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1105096001239 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105096001240 tandem repeat interface [polypeptide binding]; other site 1105096001241 oligomer interface [polypeptide binding]; other site 1105096001242 active site residues [active] 1105096001243 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105096001244 trimer interface [polypeptide binding]; other site 1105096001245 active site 1105096001246 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105096001247 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 1105096001248 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105096001249 catalytic residue [active] 1105096001250 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105096001251 dimer interface [polypeptide binding]; other site 1105096001252 catalytic triad [active] 1105096001253 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1105096001254 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105096001255 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1105096001256 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105096001257 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105096001258 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1105096001259 Subunit I/III interface [polypeptide binding]; other site 1105096001260 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1105096001261 D-pathway; other site 1105096001262 Subunit I/VIIc interface [polypeptide binding]; other site 1105096001263 Subunit I/IV interface [polypeptide binding]; other site 1105096001264 Subunit I/II interface [polypeptide binding]; other site 1105096001265 Low-spin heme (heme a) binding site [chemical binding]; other site 1105096001266 Subunit I/VIIa interface [polypeptide binding]; other site 1105096001267 Subunit I/VIa interface [polypeptide binding]; other site 1105096001268 Dimer interface; other site 1105096001269 Putative water exit pathway; other site 1105096001270 Binuclear center (heme a3/CuB) [ion binding]; other site 1105096001271 K-pathway; other site 1105096001272 Subunit I/Vb interface [polypeptide binding]; other site 1105096001273 Putative proton exit pathway; other site 1105096001274 Subunit I/VIb interface; other site 1105096001275 Subunit I/VIc interface [polypeptide binding]; other site 1105096001276 Electron transfer pathway; other site 1105096001277 Subunit I/VIIIb interface [polypeptide binding]; other site 1105096001278 Subunit I/VIIb interface [polypeptide binding]; other site 1105096001279 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1105096001280 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00117 1105096001281 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1105096001282 putative peptidase; Provisional; Region: PRK11649 1105096001283 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105096001284 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1105096001285 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1105096001286 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1105096001287 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105096001288 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105096001289 cell division protein FtsW; Region: ftsW; TIGR02614 1105096001290 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1105096001291 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 1105096001292 active site 1105096001293 homodimer interface [polypeptide binding]; other site 1105096001294 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 1105096001295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105096001296 diaminopimelate epimerase; Region: DapF; TIGR00652 1105096001297 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105096001298 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105096001299 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1105096001300 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105096001301 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 1105096001302 FeS/SAM binding site; other site 1105096001303 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1105096001304 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1105096001305 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 1105096001306 dimer interface [polypeptide binding]; other site 1105096001307 motif 1; other site 1105096001308 active site 1105096001309 motif 2; other site 1105096001310 motif 3; other site 1105096001311 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1105096001312 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 1105096001313 putative tRNA-binding site [nucleotide binding]; other site 1105096001314 B3/4 domain; Region: B3_4; pfam03483 1105096001315 tRNA synthetase B5 domain; Region: B5; smart00874 1105096001316 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 1105096001317 dimer interface [polypeptide binding]; other site 1105096001318 motif 1; other site 1105096001319 motif 3; other site 1105096001320 motif 2; other site 1105096001321 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1105096001322 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 1105096001323 DNA polymerase III subunit beta; Validated; Region: PRK05643 1105096001324 putative DNA binding surface [nucleotide binding]; other site 1105096001325 dimer interface [polypeptide binding]; other site 1105096001326 beta-clamp/clamp loader binding surface; other site 1105096001327 beta-clamp/translesion DNA polymerase binding surface; other site 1105096001328 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1105096001329 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1105096001330 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1105096001331 HIGH motif; other site 1105096001332 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105096001333 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105096001334 active site 1105096001335 KMSKS motif; other site 1105096001336 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1105096001337 tRNA binding surface [nucleotide binding]; other site 1105096001338 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105096001339 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105096001340 catalytic site [active] 1105096001341 putative active site [active] 1105096001342 putative substrate binding site [chemical binding]; other site 1105096001343 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1105096001344 Septum formation initiator; Region: DivIC; pfam04977 1105096001345 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1105096001346 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 1105096001347 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1105096001348 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1105096001349 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 1105096001350 catalytic residue [active] 1105096001351 putative FPP diphosphate binding site; other site 1105096001352 putative FPP binding hydrophobic cleft; other site 1105096001353 dimer interface [polypeptide binding]; other site 1105096001354 putative IPP diphosphate binding site; other site 1105096001355 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105096001356 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 1105096001357 dimer interface [polypeptide binding]; other site 1105096001358 phosphorylation site [posttranslational modification] 1105096001359 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 1105096001360 ATP binding site [chemical binding]; other site 1105096001361 Mg2+ binding site [ion binding]; other site 1105096001362 G-X-G motif; other site 1105096001363 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105096001364 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 1105096001365 active site 1105096001366 phosphorylation site [posttranslational modification] 1105096001367 intermolecular recognition site; other site 1105096001368 dimerization interface [polypeptide binding]; other site 1105096001369 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 1105096001370 DNA binding site [nucleotide binding] 1105096001371 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1105096001372 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1105096001373 homodimer interface [polypeptide binding]; other site 1105096001374 substrate-cofactor binding pocket; other site 1105096001375 catalytic residue [active] 1105096001376 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1105096001377 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1105096001378 dimer interface [polypeptide binding]; other site 1105096001379 active site 1105096001380 catalytic residue [active] 1105096001381 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 1105096001382 SmpB-tmRNA interface; other site 1105096001383 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 1105096001384 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1105096001385 catalytic residues [active] 1105096001386 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1105096001387 CoA binding domain; Region: CoA_binding; pfam02629 1105096001388 CoA-ligase; Region: Ligase_CoA; pfam00549 1105096001389 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1105096001390 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1105096001391 CoA-ligase; Region: Ligase_CoA; pfam00549 1105096001392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1105096001393 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1105096001394 Predicted membrane protein [Function unknown]; Region: COG1238 1105096001395 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1105096001396 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1105096001397 RecR protein; Region: RecR; pfam02132 1105096001398 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 1105096001399 putative active site [active] 1105096001400 putative metal-binding site [ion binding]; other site 1105096001401 tetramer interface [polypeptide binding]; other site 1105096001402 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1105096001403 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1105096001404 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1105096001405 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1105096001406 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1105096001407 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1105096001408 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1105096001409 Predicted permeases [General function prediction only]; Region: COG0679 1105096001410 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105096001411 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1105096001412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105096001413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105096001414 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105096001415 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 1105096001416 active site 1105096001417 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1105096001418 Part of AAA domain; Region: AAA_19; pfam13245 1105096001419 Family description; Region: UvrD_C_2; pfam13538 1105096001420 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1105096001421 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 1105096001422 tetramer interface [polypeptide binding]; other site 1105096001423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105096001424 catalytic residue [active] 1105096001425 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1105096001426 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1105096001427 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 1105096001428 Walker A motif; other site 1105096001429 ATP binding site [chemical binding]; other site 1105096001430 Walker B motif; other site 1105096001431 arginine finger; other site 1105096001432 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1105096001433 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105096001434 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1105096001435 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 1105096001436 homotetramer interface [polypeptide binding]; other site 1105096001437 FMN binding site [chemical binding]; other site 1105096001438 homodimer contacts [polypeptide binding]; other site 1105096001439 putative active site [active] 1105096001440 putative substrate binding site [chemical binding]; other site 1105096001441 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1105096001442 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1105096001443 Substrate binding site; other site 1105096001444 Mg++ binding site; other site 1105096001445 hypothetical protein; Validated; Region: PRK00110 1105096001446 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1105096001447 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105096001448 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 1105096001449 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105096001450 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1105096001451 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1105096001452 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1105096001453 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1105096001454 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105096001455 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105096001456 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105096001457 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1105096001458 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1105096001459 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105096001460 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105096001461 catalytic site [active] 1105096001462 putative active site [active] 1105096001463 putative substrate binding site [chemical binding]; other site 1105096001464 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1105096001465 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 1105096001466 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1105096001467 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1105096001468 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1105096001469 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105096001470 Na binding site [ion binding]; other site 1105096001471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105096001472 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 1105096001473 dimer interface [polypeptide binding]; other site 1105096001474 phosphorylation site [posttranslational modification] 1105096001475 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 1105096001476 ATP binding site [chemical binding]; other site 1105096001477 Mg2+ binding site [ion binding]; other site 1105096001478 G-X-G motif; other site 1105096001479 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1105096001480 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 1105096001481 domain interfaces; other site 1105096001482 active site 1105096001483 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1105096001484 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1105096001485 active site 1105096001486 HIGH motif; other site 1105096001487 dimer interface [polypeptide binding]; other site 1105096001488 KMSKS motif; other site 1105096001489 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1105096001490 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105096001491 putative acyl-acceptor binding pocket; other site 1105096001492 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1105096001493 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1105096001494 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105096001495 HemY protein N-terminus; Region: HemY_N; pfam07219 1105096001496 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 1105096001497 active site 1105096001498 AmpG-like permease; Region: 2A0125; TIGR00901 1105096001499 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 1105096001500 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1105096001501 Ligand binding site; other site 1105096001502 metal-binding site 1105096001503 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105096001504 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1105096001505 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1105096001506 substrate binding pocket [chemical binding]; other site 1105096001507 chain length determination region; other site 1105096001508 substrate-Mg2+ binding site; other site 1105096001509 catalytic residues [active] 1105096001510 aspartate-rich region 1; other site 1105096001511 active site lid residues [active] 1105096001512 aspartate-rich region 2; other site 1105096001513 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1105096001514 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1105096001515 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 1105096001516 active site 1105096001517 arginine:agmatin antiporter; Provisional; Region: PRK10644 1105096001518 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105096001519 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1105096001520 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1105096001521 trimerization site [polypeptide binding]; other site 1105096001522 active site 1105096001523 cysteine desulfurase; Provisional; Region: PRK14012 1105096001524 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105096001525 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105096001526 catalytic residue [active] 1105096001527 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1105096001528 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105096001529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105096001530 catalytic residue [active] 1105096001531 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105096001532 Transcriptional regulator; Region: Rrf2; cl17282 1105096001533 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1105096001534 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 1105096001535 GSH binding site (G-site) [chemical binding]; other site 1105096001536 C-terminal domain interface [polypeptide binding]; other site 1105096001537 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1105096001538 N-terminal domain interface [polypeptide binding]; other site 1105096001539 dimer interface [polypeptide binding]; other site 1105096001540 substrate binding pocket (H-site) [chemical binding]; other site 1105096001541 pyruvate, phosphate dikinase; Region: pyru_phos_dikin; TIGR01828 1105096001542 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1105096001543 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1105096001544 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1105096001545 hypothetical protein; Provisional; Region: PRK06661 1105096001546 intersubunit interface [polypeptide binding]; other site 1105096001547 active site 1105096001548 Zn2+ binding site [ion binding]; other site 1105096001549 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1105096001550 uncharacterized protein, YfiH family; Region: TIGR00726 1105096001551 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1105096001552 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1105096001553 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1105096001554 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1105096001555 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 1105096001556 non-specific DNA binding site [nucleotide binding]; other site 1105096001557 salt bridge; other site 1105096001558 sequence-specific DNA binding site [nucleotide binding]; other site 1105096001559 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1105096001560 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105096001561 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01528 1105096001562 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1105096001563 RNA binding site [nucleotide binding]; other site 1105096001564 active site 1105096001565 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 1105096001566 16S/18S rRNA binding site [nucleotide binding]; other site 1105096001567 S13e-L30e interaction site [polypeptide binding]; other site 1105096001568 25S rRNA binding site [nucleotide binding]; other site 1105096001569 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1105096001570 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1105096001571 oligomer interface [polypeptide binding]; other site 1105096001572 RNA binding site [nucleotide binding]; other site 1105096001573 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1105096001574 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1105096001575 RNase E interface [polypeptide binding]; other site 1105096001576 trimer interface [polypeptide binding]; other site 1105096001577 active site 1105096001578 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 1105096001579 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 1105096001580 RNA binding site [nucleotide binding]; other site 1105096001581 domain interface; other site 1105096001582 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1105096001583 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 1105096001584 putative active site [active] 1105096001585 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 1105096001586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1105096001587 OstA-like protein; Region: OstA; pfam03968 1105096001588 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1105096001589 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1105096001590 Walker A/P-loop; other site 1105096001591 ATP binding site [chemical binding]; other site 1105096001592 Q-loop/lid; other site 1105096001593 ABC transporter signature motif; other site 1105096001594 Walker B; other site 1105096001595 D-loop; other site 1105096001596 H-loop/switch region; other site 1105096001597 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1105096001598 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 1105096001599 active site 1105096001600 substrate binding site [chemical binding]; other site 1105096001601 metal binding site [ion binding]; metal-binding site 1105096001602 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1105096001603 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1105096001604 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105096001605 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1105096001606 dimer interface [polypeptide binding]; other site 1105096001607 putative radical transfer pathway; other site 1105096001608 diiron center [ion binding]; other site 1105096001609 tyrosyl radical; other site 1105096001610 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1105096001611 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1105096001612 active site 1105096001613 dimer interface [polypeptide binding]; other site 1105096001614 catalytic residues [active] 1105096001615 effector binding site; other site 1105096001616 R2 peptide binding site; other site 1105096001617 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1105096001618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105096001619 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105096001620 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1105096001621 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1105096001622 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1105096001623 homodimer interface [polypeptide binding]; other site 1105096001624 NADP binding site [chemical binding]; other site 1105096001625 substrate binding site [chemical binding]; other site 1105096001626 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1105096001627 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 1105096001628 trimer interface [polypeptide binding]; other site 1105096001629 putative metal binding site [ion binding]; other site 1105096001630 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 1105096001631 30S subunit binding site; other site 1105096001632 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1105096001633 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1105096001634 oligomer interface [polypeptide binding]; other site 1105096001635 active site residues [active] 1105096001636 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1105096001637 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 1105096001638 RNA binding site [nucleotide binding]; other site 1105096001639 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 1105096001640 RNA binding site [nucleotide binding]; other site 1105096001641 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 1105096001642 RNA binding site [nucleotide binding]; other site 1105096001643 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 1105096001644 RNA binding site [nucleotide binding]; other site 1105096001645 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 1105096001646 RNA binding site [nucleotide binding]; other site 1105096001647 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 1105096001648 RNA binding site [nucleotide binding]; other site 1105096001649 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1105096001650 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 1105096001651 CMP-binding site; other site 1105096001652 The sites determining sugar specificity; other site 1105096001653 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1105096001654 IHF - DNA interface [nucleotide binding]; other site 1105096001655 IHF dimer interface [polypeptide binding]; other site 1105096001656 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1105096001657 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105096001658 tandem repeat interface [polypeptide binding]; other site 1105096001659 oligomer interface [polypeptide binding]; other site 1105096001660 active site residues [active] 1105096001661 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1105096001662 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1105096001663 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 1105096001664 RNA binding site [nucleotide binding]; other site 1105096001665 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 1105096001666 multimer interface [polypeptide binding]; other site 1105096001667 Walker A motif; other site 1105096001668 ATP binding site [chemical binding]; other site 1105096001669 Walker B motif; other site 1105096001670 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 1105096001671 S-adenosylmethionine binding site [chemical binding]; other site 1105096001672 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105096001673 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1105096001674 DHH family; Region: DHH; pfam01368 1105096001675 DHHA1 domain; Region: DHHA1; pfam02272 1105096001676 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1105096001677 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1105096001678 RF-1 domain; Region: RF-1; pfam00472 1105096001679 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 1105096001680 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1105096001681 E3 interaction surface; other site 1105096001682 lipoyl attachment site [posttranslational modification]; other site 1105096001683 e3 binding domain; Region: E3_binding; pfam02817 1105096001684 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105096001685 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1105096001686 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1105096001687 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1105096001688 Predicted membrane protein [Function unknown]; Region: COG5346 1105096001689 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1105096001690 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1105096001691 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1105096001692 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1105096001693 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1105096001694 active site 1105096001695 nucleophile elbow; other site 1105096001696 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1105096001697 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1105096001698 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1105096001699 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1105096001700 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 1105096001701 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105096001702 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 1105096001703 dimer interface [polypeptide binding]; other site 1105096001704 allosteric magnesium binding site [ion binding]; other site 1105096001705 active site 1105096001706 aspartate-rich active site metal binding site; other site 1105096001707 Schiff base residues; other site 1105096001708 primosome assembly protein PriA; Validated; Region: PRK05580 1105096001709 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 1105096001710 ATP binding site [chemical binding]; other site 1105096001711 putative Mg++ binding site [ion binding]; other site 1105096001712 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1105096001713 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 1105096001714 Flavoprotein; Region: Flavoprotein; pfam02441 1105096001715 replicative DNA helicase; Provisional; Region: PRK09165 1105096001716 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1105096001717 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 1105096001718 Walker A motif; other site 1105096001719 ATP binding site [chemical binding]; other site 1105096001720 Walker B motif; other site 1105096001721 DNA binding loops [nucleotide binding] 1105096001722 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1105096001723 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 1105096001724 RNA binding surface [nucleotide binding]; other site 1105096001725 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1105096001726 probable active site [active] 1105096001727 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1105096001728 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 1105096001729 S-adenosylmethionine binding site [chemical binding]; other site 1105096001730 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105096001731 DNA repair protein RadA; Provisional; Region: PRK11823 1105096001732 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 1105096001733 Walker A motif; other site 1105096001734 ATP binding site [chemical binding]; other site 1105096001735 Walker B motif; other site 1105096001736 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1105096001737 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1105096001738 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1105096001739 Recombination protein O N terminal; Region: RecO_N; pfam11967 1105096001740 Recombination protein O C terminal; Region: RecO_C; pfam02565 1105096001741 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1105096001742 Glycoprotease family; Region: Peptidase_M22; pfam00814 1105096001743 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1105096001744 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1105096001745 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1105096001746 G1 box; other site 1105096001747 putative GEF interaction site [polypeptide binding]; other site 1105096001748 GTP/Mg2+ binding site [chemical binding]; other site 1105096001749 Switch I region; other site 1105096001750 G2 box; other site 1105096001751 G3 box; other site 1105096001752 Switch II region; other site 1105096001753 G4 box; other site 1105096001754 G5 box; other site 1105096001755 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 1105096001756 Translation-initiation factor 2; Region: IF-2; pfam11987 1105096001757 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 1105096001758 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1105096001759 NusA N-terminal domain; Region: NusA_N; pfam08529 1105096001760 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 1105096001761 RNA binding site [nucleotide binding]; other site 1105096001762 homodimer interface [polypeptide binding]; other site 1105096001763 NusA-like KH domain; Region: KH_5; pfam13184 1105096001764 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 1105096001765 G-X-X-G motif; other site 1105096001766 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1105096001767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1105096001768 Sm and related proteins; Region: Sm_like; cl00259 1105096001769 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1105096001770 putative oligomer interface [polypeptide binding]; other site 1105096001771 putative RNA binding site [nucleotide binding]; other site 1105096001772 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1105096001773 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 1105096001774 RNA binding surface [nucleotide binding]; other site 1105096001775 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1105096001776 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1105096001777 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1105096001778 active site 1105096001779 HIGH motif; other site 1105096001780 dimer interface [polypeptide binding]; other site 1105096001781 KMSKS motif; other site 1105096001782 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 1105096001783 RNA binding surface [nucleotide binding]; other site 1105096001784 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1105096001785 MG2 domain; Region: A2M_N; pfam01835 1105096001786 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1105096001787 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 1105096001788 surface patch; other site 1105096001789 thioester region; other site 1105096001790 specificity defining residues; other site 1105096001791 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1105096001792 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1105096001793 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1105096001794 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1105096001795 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 1105096001796 substrate binding site [chemical binding]; other site 1105096001797 oxyanion hole (OAH) forming residues; other site 1105096001798 trimer interface [polypeptide binding]; other site 1105096001799 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1105096001800 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1105096001801 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1105096001802 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1105096001803 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 1105096001804 active site 1105096001805 phosphorylation site [posttranslational modification] 1105096001806 intermolecular recognition site; other site 1105096001807 dimerization interface [polypeptide binding]; other site 1105096001808 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 1105096001809 Walker A motif; other site 1105096001810 ATP binding site [chemical binding]; other site 1105096001811 Walker B motif; other site 1105096001812 arginine finger; other site 1105096001813 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1105096001814 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105096001815 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105096001816 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105096001817 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105096001818 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105096001819 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1105096001820 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105096001821 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105096001822 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1105096001823 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105096001824 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105096001825 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1105096001826 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1105096001827 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 1105096001828 S-adenosylmethionine binding site [chemical binding]; other site 1105096001829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1105096001830 MraZ protein; Region: MraZ; pfam02381 1105096001831 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105096001832 Na binding site [ion binding]; other site 1105096001833 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1105096001834 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1105096001835 GIY-YIG motif/motif A; other site 1105096001836 active site 1105096001837 catalytic site [active] 1105096001838 putative DNA binding site [nucleotide binding]; other site 1105096001839 metal binding site [ion binding]; metal-binding site 1105096001840 UvrB/uvrC motif; Region: UVR; pfam02151 1105096001841 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1105096001842 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1105096001843 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1105096001844 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1105096001845 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1105096001846 SEC-C motif; Region: SEC-C; pfam02810 1105096001847 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 1105096001848 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1105096001849 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1105096001850 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1105096001851 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1105096001852 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 1105096001853 hinge; other site 1105096001854 active site 1105096001855 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1105096001856 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 1105096001857 Mg2+ binding site [ion binding]; other site 1105096001858 G-X-G motif; other site 1105096001859 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 1105096001860 anchoring element; other site 1105096001861 dimer interface [polypeptide binding]; other site 1105096001862 ATP binding site [chemical binding]; other site 1105096001863 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 1105096001864 active site 1105096001865 putative metal-binding site [ion binding]; other site 1105096001866 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105096001867 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1105096001868 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 1105096001869 active site 1105096001870 motif I; other site 1105096001871 motif II; other site 1105096001872 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 1105096001873 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1105096001874 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1105096001875 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 1105096001876 Divalent cation transporter; Region: MgtE; pfam01769 1105096001877 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1105096001878 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1105096001879 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1105096001880 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105096001881 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 1105096001882 Cu(I) binding site [ion binding]; other site 1105096001883 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 1105096001884 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 1105096001885 dimer interface [polypeptide binding]; other site 1105096001886 substrate binding site [chemical binding]; other site 1105096001887 metal binding sites [ion binding]; metal-binding site 1105096001888 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1105096001889 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1105096001890 TraX protein; Region: TraX; pfam05857 1105096001891 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1105096001892 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 1105096001893 ssDNA binding site; other site 1105096001894 generic binding surface II; other site 1105096001895 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 1105096001896 ATP binding site [chemical binding]; other site 1105096001897 putative Mg++ binding site [ion binding]; other site 1105096001898 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 1105096001899 nucleotide binding region [chemical binding]; other site 1105096001900 ATP-binding site [chemical binding]; other site 1105096001901 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1105096001902 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 1105096001903 Mg++ binding site [ion binding]; other site 1105096001904 putative catalytic motif [active] 1105096001905 putative substrate binding site [chemical binding]; other site 1105096001906 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105096001907 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1105096001908 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105096001909 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105096001910 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1105096001911 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105096001912 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105096001913 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105096001914 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1105096001915 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1105096001916 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 1105096001917 ATP binding site [chemical binding]; other site 1105096001918 putative Mg++ binding site [ion binding]; other site 1105096001919 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 1105096001920 nucleotide binding region [chemical binding]; other site 1105096001921 ATP-binding site [chemical binding]; other site 1105096001922 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1105096001923 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1105096001924 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1105096001925 active site residue [active] 1105096001926 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1105096001927 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1105096001928 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 1105096001929 Walker A motif; other site 1105096001930 ATP binding site [chemical binding]; other site 1105096001931 Walker B motif; other site 1105096001932 arginine finger; other site 1105096001933 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 1105096001934 DnaA box-binding interface [nucleotide binding]; other site 1105096001935 Patatin [General function prediction only]; Region: COG3621 1105096001936 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1105096001937 active site 1105096001938 nucleophile elbow; other site 1105096001939 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105096001940 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 1105096001941 putative substrate translocation pore; other site 1105096001942 GTP-binding protein YchF; Reviewed; Region: PRK09601 1105096001943 YchF GTPase; Region: YchF; cd01900 1105096001944 G1 box; other site 1105096001945 GTP/Mg2+ binding site [chemical binding]; other site 1105096001946 Switch I region; other site 1105096001947 G2 box; other site 1105096001948 Switch II region; other site 1105096001949 G3 box; other site 1105096001950 G4 box; other site 1105096001951 G5 box; other site 1105096001952 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 1105096001953 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 1105096001954 putative active site [active] 1105096001955 catalytic residue [active] 1105096001956 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1105096001957 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1105096001958 5S rRNA interface [nucleotide binding]; other site 1105096001959 CTC domain interface [polypeptide binding]; other site 1105096001960 L16 interface [polypeptide binding]; other site 1105096001961 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1105096001962 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1105096001963 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1105096001964 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1105096001965 23S rRNA binding site [nucleotide binding]; other site 1105096001966 L21 binding site [polypeptide binding]; other site 1105096001967 L13 binding site [polypeptide binding]; other site 1105096001968 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1105096001969 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1105096001970 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1105096001971 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 1105096001972 dimerization interface [polypeptide binding]; other site 1105096001973 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 1105096001974 dimer interface [polypeptide binding]; other site 1105096001975 phosphorylation site [posttranslational modification] 1105096001976 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 1105096001977 ATP binding site [chemical binding]; other site 1105096001978 Mg2+ binding site [ion binding]; other site 1105096001979 G-X-G motif; other site 1105096001980 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1105096001981 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1105096001982 COQ9; Region: COQ9; pfam08511 1105096001983 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1105096001984 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105096001985 HIGH motif; other site 1105096001986 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105096001987 active site 1105096001988 KMSKS motif; other site 1105096001989 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1105096001990 tRNA binding surface [nucleotide binding]; other site 1105096001991 anticodon binding site; other site 1105096001992 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1105096001993 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1105096001994 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1105096001995 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1105096001996 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 1105096001997 carboxyltransferase (CT) interaction site; other site 1105096001998 biotinylation site [posttranslational modification]; other site 1105096001999 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1105096002000 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1105096002001 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1105096002002 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1105096002003 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 1105096002004 putative substrate translocation pore; other site 1105096002005 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105096002006 putative acyl-acceptor binding pocket; other site 1105096002007 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1105096002008 acyl-activating enzyme (AAE) consensus motif; other site 1105096002009 putative AMP binding site [chemical binding]; other site 1105096002010 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 1105096002011 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1105096002012 dimer interface [polypeptide binding]; other site 1105096002013 putative PBP binding regions; other site 1105096002014 ABC-ATPase subunit interface; other site 1105096002015 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1105096002016 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 1105096002017 S-adenosylmethionine binding site [chemical binding]; other site 1105096002018 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1105096002019 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105096002020 HIGH motif; other site 1105096002021 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105096002022 active site 1105096002023 KMSKS motif; other site 1105096002024 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105096002025 HD domain; Region: HD_4; pfam13328 1105096002026 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105096002027 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1105096002028 synthetase active site [active] 1105096002029 NTP binding site [chemical binding]; other site 1105096002030 metal binding site [ion binding]; metal-binding site 1105096002031 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1105096002032 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 1105096002033 ring oligomerisation interface [polypeptide binding]; other site 1105096002034 ATP/Mg binding site [chemical binding]; other site 1105096002035 stacking interactions; other site 1105096002036 hinge regions; other site 1105096002037 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 1105096002038 oligomerisation interface [polypeptide binding]; other site 1105096002039 mobile loop; other site 1105096002040 roof hairpin; other site 1105096002041 ribonuclease PH; Reviewed; Region: rph; PRK00173 1105096002042 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1105096002043 hexamer interface [polypeptide binding]; other site 1105096002044 active site 1105096002045 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1105096002046 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 1105096002047 dimer interface [polypeptide binding]; other site 1105096002048 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1105096002049 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1105096002050 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1105096002051 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1105096002052 hypothetical protein; Validated; Region: PRK06620 1105096002053 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1105096002054 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1105096002055 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1105096002056 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1105096002057 alphaNTD - beta interaction site [polypeptide binding]; other site 1105096002058 alphaNTD homodimer interface [polypeptide binding]; other site 1105096002059 alphaNTD - beta' interaction site [polypeptide binding]; other site 1105096002060 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1105096002061 30S ribosomal protein S11; Validated; Region: PRK05309 1105096002062 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1105096002063 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1105096002064 adenylate kinase; Reviewed; Region: adk; PRK00279 1105096002065 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 1105096002066 AMP-binding site [chemical binding]; other site 1105096002067 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1105096002068 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1105096002069 SecY translocase; Region: SecY; pfam00344 1105096002070 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1105096002071 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 1105096002072 23S rRNA binding site [nucleotide binding]; other site 1105096002073 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1105096002074 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1105096002075 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1105096002076 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 1105096002077 5S rRNA interface [nucleotide binding]; other site 1105096002078 23S rRNA interface [nucleotide binding]; other site 1105096002079 L5 interface [polypeptide binding]; other site 1105096002080 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1105096002081 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105096002082 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105096002083 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1105096002084 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1105096002085 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1105096002086 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1105096002087 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1105096002088 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1105096002089 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1105096002090 RNA binding site [nucleotide binding]; other site 1105096002091 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1105096002092 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1105096002093 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 1105096002094 L23 interface [polypeptide binding]; other site 1105096002095 trigger factor interaction site; other site 1105096002096 23S rRNA interface [nucleotide binding]; other site 1105096002097 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 1105096002098 23S rRNA interface [nucleotide binding]; other site 1105096002099 5S rRNA interface [nucleotide binding]; other site 1105096002100 putative antibiotic binding site [chemical binding]; other site 1105096002101 L25 interface [polypeptide binding]; other site 1105096002102 L27 interface [polypeptide binding]; other site 1105096002103 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 1105096002104 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 1105096002105 G-X-X-G motif; other site 1105096002106 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1105096002107 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 1105096002108 putative translocon binding site; other site 1105096002109 protein-rRNA interface [nucleotide binding]; other site 1105096002110 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1105096002111 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1105096002112 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1105096002113 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1105096002114 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1105096002115 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1105096002116 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1105096002117 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1105096002118 elongation factor Tu; Reviewed; Region: PRK00049 1105096002119 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1105096002120 G1 box; other site 1105096002121 GEF interaction site [polypeptide binding]; other site 1105096002122 GTP/Mg2+ binding site [chemical binding]; other site 1105096002123 Switch I region; other site 1105096002124 G2 box; other site 1105096002125 G3 box; other site 1105096002126 Switch II region; other site 1105096002127 G4 box; other site 1105096002128 G5 box; other site 1105096002129 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 1105096002130 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 1105096002131 Antibiotic Binding Site [chemical binding]; other site 1105096002132 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1105096002133 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1105096002134 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1105096002135 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1105096002136 Class II fumarases; Region: Fumarase_classII; cd01362 1105096002137 active site 1105096002138 tetramer interface [polypeptide binding]; other site 1105096002139 cell division protein FtsZ; Validated; Region: PRK09330 1105096002140 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 1105096002141 nucleotide binding site [chemical binding]; other site 1105096002142 SulA interaction site; other site 1105096002143 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1105096002144 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1105096002145 muropeptide transporter; Validated; Region: ampG; cl17669 1105096002146 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 1105096002147 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1105096002148 ATP binding site [chemical binding]; other site 1105096002149 Mg++ binding site [ion binding]; other site 1105096002150 motif III; other site 1105096002151 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 1105096002152 nucleotide binding region [chemical binding]; other site 1105096002153 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 1105096002154 DNA-binding site [nucleotide binding]; DNA binding site 1105096002155 RNA-binding motif; other site 1105096002156 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1105096002157 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 1105096002158 S-adenosylmethionine binding site [chemical binding]; other site 1105096002159 SurA N-terminal domain; Region: SurA_N_3; cl07813 1105096002160 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1105096002161 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1105096002162 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1105096002163 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 1105096002164 generic binding surface II; other site 1105096002165 generic binding surface I; other site 1105096002166 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 1105096002167 putative catalytic site [active] 1105096002168 putative phosphate binding site [ion binding]; other site 1105096002169 active site 1105096002170 metal binding site A [ion binding]; metal-binding site 1105096002171 DNA binding site [nucleotide binding] 1105096002172 putative AP binding site [nucleotide binding]; other site 1105096002173 putative metal binding site B [ion binding]; other site 1105096002174 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1105096002175 GTP-binding protein Der; Reviewed; Region: PRK00093 1105096002176 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1105096002177 G1 box; other site 1105096002178 GTP/Mg2+ binding site [chemical binding]; other site 1105096002179 Switch I region; other site 1105096002180 G2 box; other site 1105096002181 Switch II region; other site 1105096002182 G3 box; other site 1105096002183 G4 box; other site 1105096002184 G5 box; other site 1105096002185 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1105096002186 G1 box; other site 1105096002187 GTP/Mg2+ binding site [chemical binding]; other site 1105096002188 Switch I region; other site 1105096002189 G2 box; other site 1105096002190 G3 box; other site 1105096002191 Switch II region; other site 1105096002192 G4 box; other site 1105096002193 G5 box; other site 1105096002194 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1105096002195 ABC1 family; Region: ABC1; pfam03109 1105096002196 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 1105096002197 active site 1105096002198 ATP binding site [chemical binding]; other site 1105096002199 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1105096002200 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 1105096002201 S-adenosylmethionine binding site [chemical binding]; other site 1105096002202 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1105096002203 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1105096002204 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1105096002205 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1105096002206 active site 1105096002207 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1105096002208 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1105096002209 active site 1105096002210 HIGH motif; other site 1105096002211 KMSKS motif; other site 1105096002212 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1105096002213 tRNA binding surface [nucleotide binding]; other site 1105096002214 anticodon binding site; other site 1105096002215 thymidylate kinase; Validated; Region: tmk; PRK00698 1105096002216 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 1105096002217 TMP-binding site; other site 1105096002218 ATP-binding site [chemical binding]; other site 1105096002219 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096002220 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 1105096002221 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1105096002222 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105096002223 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1105096002224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105096002225 active site 1105096002226 HIGH motif; other site 1105096002227 nucleotide binding site [chemical binding]; other site 1105096002228 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105096002229 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1105096002230 active site 1105096002231 KMSKS motif; other site 1105096002232 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1105096002233 tRNA binding surface [nucleotide binding]; other site 1105096002234 anticodon binding site; other site 1105096002235 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105096002236 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105096002237 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105096002238 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1105096002239 RmuC family; Region: RmuC; pfam02646 1105096002240 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1105096002241 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1105096002242 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 1105096002243 Walker A motif; other site 1105096002244 ATP binding site [chemical binding]; other site 1105096002245 Walker B motif; other site 1105096002246 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105096002247 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1105096002248 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105096002249 Coenzyme A binding pocket [chemical binding]; other site 1105096002250 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 1105096002251 Ligand Binding Site [chemical binding]; other site 1105096002252 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1105096002253 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105096002254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096002255 Walker A/P-loop; other site 1105096002256 ATP binding site [chemical binding]; other site 1105096002257 Q-loop/lid; other site 1105096002258 ABC transporter signature motif; other site 1105096002259 Walker B; other site 1105096002260 D-loop; other site 1105096002261 H-loop/switch region; other site 1105096002262 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1105096002263 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 1105096002264 putative substrate translocation pore; other site 1105096002265 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1105096002266 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1105096002267 FtsX-like permease family; Region: FtsX; pfam02687 1105096002268 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1105096002269 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1105096002270 Walker A/P-loop; other site 1105096002271 ATP binding site [chemical binding]; other site 1105096002272 Q-loop/lid; other site 1105096002273 ABC transporter signature motif; other site 1105096002274 Walker B; other site 1105096002275 D-loop; other site 1105096002276 H-loop/switch region; other site 1105096002277 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1105096002278 Domain of unknown function DUF21; Region: DUF21; pfam01595 1105096002279 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 1105096002280 Transporter associated domain; Region: CorC_HlyC; smart01091 1105096002281 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1105096002282 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1105096002283 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105096002284 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105096002285 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1105096002286 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1105096002287 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1105096002288 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1105096002289 DNA binding residues [nucleotide binding] 1105096002290 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105096002291 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 1105096002292 IHF dimer interface [polypeptide binding]; other site 1105096002293 IHF - DNA interface [nucleotide binding]; other site 1105096002294 potential frameshift: common BLAST hit: gi|67459873|ref|YP_247495.1| patatin-like phospholipase 1105096002295 MULE transposase domain; Region: MULE; pfam10551 1105096002296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1105096002297 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1105096002298 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1105096002299 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1105096002300 catalytic residues [active] 1105096002301 catalytic nucleophile [active] 1105096002302 Presynaptic Site I dimer interface [polypeptide binding]; other site 1105096002303 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1105096002304 Synaptic Flat tetramer interface [polypeptide binding]; other site 1105096002305 Synaptic Site I dimer interface [polypeptide binding]; other site 1105096002306 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105096002307 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105096002308 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105096002309 conserved cys residue [active] 1105096002310 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 1105096002311 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105096002312 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105096002313 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105096002314 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 1105096002315 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1105096002316 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1105096002317 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1105096002318 putative acyl-acceptor binding pocket; other site 1105096002319 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1105096002320 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1105096002321 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1105096002322 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 1105096002323 nucleotide binding pocket [chemical binding]; other site 1105096002324 K-X-D-G motif; other site 1105096002325 catalytic site [active] 1105096002326 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1105096002327 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1105096002328 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 1105096002329 Dimer interface [polypeptide binding]; other site 1105096002330 BRCT sequence motif; other site 1105096002331 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1105096002332 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1105096002333 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1105096002334 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1105096002335 mce related protein; Region: MCE; pfam02470 1105096002336 hypothetical protein; Provisional; Region: PRK06630 1105096002337 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1105096002338 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105096002339 active site 1105096002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1105096002341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1105096002342 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1105096002343 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 1105096002344 CoA-binding site [chemical binding]; other site 1105096002345 ATP-binding [chemical binding]; other site 1105096002346 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1105096002347 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 1105096002348 active site 1105096002349 catalytic site [active] 1105096002350 substrate binding site [chemical binding]; other site 1105096002351 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1105096002352 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105096002353 Part of AAA domain; Region: AAA_19; pfam13245 1105096002354 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105096002355 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1105096002356 Family description; Region: UvrD_C_2; pfam13538 1105096002357 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105096002358 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1105096002359 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 1105096002360 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 1105096002361 dimer interface [polypeptide binding]; other site 1105096002362 active site 1105096002363 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105096002364 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1105096002365 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105096002366 FOG: CBS domain [General function prediction only]; Region: COG0517 1105096002367 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 1105096002368 Transporter associated domain; Region: CorC_HlyC; smart01091 1105096002369 metal-binding heat shock protein; Provisional; Region: PRK00016 1105096002370 lipoyl synthase; Provisional; Region: PRK05481 1105096002371 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 1105096002372 FeS/SAM binding site; other site 1105096002373 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1105096002374 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 1105096002375 dimer interface [polypeptide binding]; other site 1105096002376 active site 1105096002377 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1105096002378 folate binding site [chemical binding]; other site 1105096002379 putative hydrolase; Provisional; Region: PRK11460 1105096002380 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1105096002381 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 1105096002382 putative GSH binding site [chemical binding]; other site 1105096002383 catalytic residues [active] 1105096002384 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1105096002385 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1105096002386 minor groove reading motif; other site 1105096002387 helix-hairpin-helix signature motif; other site 1105096002388 substrate binding pocket [chemical binding]; other site 1105096002389 active site 1105096002390 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1105096002391 Predicted methyltransferases [General function prediction only]; Region: COG0313 1105096002392 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1105096002393 putative SAM binding site [chemical binding]; other site 1105096002394 putative homodimer interface [polypeptide binding]; other site 1105096002395 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1105096002396 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1105096002397 putative ligand binding site [chemical binding]; other site 1105096002398 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1105096002399 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1105096002400 tetramer interfaces [polypeptide binding]; other site 1105096002401 binuclear metal-binding site [ion binding]; other site 1105096002402 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1105096002403 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1105096002404 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1105096002405 aspartate kinase; Reviewed; Region: PRK06635 1105096002406 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 1105096002407 putative catalytic residues [active] 1105096002408 putative nucleotide binding site [chemical binding]; other site 1105096002409 putative aspartate binding site [chemical binding]; other site 1105096002410 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105096002411 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 1105096002412 putative allosteric regulatory residue; other site 1105096002413 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1105096002414 salt bridge; other site 1105096002415 non-specific DNA binding site [nucleotide binding]; other site 1105096002416 sequence-specific DNA binding site [nucleotide binding]; other site 1105096002417 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 1105096002418 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096002419 putative substrate translocation pore; other site 1105096002420 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1105096002421 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1105096002422 Helix-turn-helix domain; Region: HTH_25; pfam13413 1105096002423 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1105096002424 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1105096002425 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1105096002426 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1105096002427 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 1105096002428 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1105096002429 G1 box; other site 1105096002430 GTP/Mg2+ binding site [chemical binding]; other site 1105096002431 Switch I region; other site 1105096002432 G2 box; other site 1105096002433 Switch II region; other site 1105096002434 G3 box; other site 1105096002435 G4 box; other site 1105096002436 G5 box; other site 1105096002437 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1105096002438 recombinase A; Provisional; Region: recA; PRK09354 1105096002439 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 1105096002440 hexamer interface [polypeptide binding]; other site 1105096002441 Walker A motif; other site 1105096002442 ATP binding site [chemical binding]; other site 1105096002443 Walker B motif; other site 1105096002444 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105096002445 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1105096002446 NAD(P) binding site [chemical binding]; other site 1105096002447 homotetramer interface [polypeptide binding]; other site 1105096002448 homodimer interface [polypeptide binding]; other site 1105096002449 active site 1105096002450 acyl carrier protein; Provisional; Region: acpP; PRK00982 1105096002451 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1105096002452 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 1105096002453 dimer interface [polypeptide binding]; other site 1105096002454 active site 1105096002455 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1105096002456 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 1105096002457 catalytic site [active] 1105096002458 G-X2-G-X-G-K; other site 1105096002459 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 1105096002460 sequence-specific DNA binding site [nucleotide binding]; other site 1105096002461 salt bridge; other site 1105096002462 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1105096002463 rod shape-determining protein MreC; Region: MreC; pfam04085 1105096002464 rod shape-determining protein MreB; Provisional; Region: PRK13927 1105096002465 MreB and similar proteins; Region: MreB_like; cd10225 1105096002466 nucleotide binding site [chemical binding]; other site 1105096002467 Mg binding site [ion binding]; other site 1105096002468 putative protofilament interaction site [polypeptide binding]; other site 1105096002469 RodZ interaction site [polypeptide binding]; other site 1105096002470 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105096002471 Predicted permeases [General function prediction only]; Region: COG0795 1105096002472 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1105096002473 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1105096002474 ligand binding site [chemical binding]; other site 1105096002475 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1105096002476 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 1105096002477 dimer interface [polypeptide binding]; other site 1105096002478 active site 1105096002479 CoA binding pocket [chemical binding]; other site 1105096002480 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1105096002481 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1105096002482 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1105096002483 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1105096002484 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 1105096002485 P loop; other site 1105096002486 GTP binding site [chemical binding]; other site 1105096002487 DNA polymerase I; Region: pola; TIGR00593 1105096002488 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1105096002489 active site 1105096002490 metal binding site 1 [ion binding]; metal-binding site 1105096002491 putative 5' ssDNA interaction site; other site 1105096002492 metal binding site 3; metal-binding site 1105096002493 metal binding site 2 [ion binding]; metal-binding site 1105096002494 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1105096002495 putative DNA binding site [nucleotide binding]; other site 1105096002496 putative metal binding site [ion binding]; other site 1105096002497 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1105096002498 active site 1105096002499 DNA binding site [nucleotide binding] 1105096002500 catalytic site [active] 1105096002501 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1105096002502 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1105096002503 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1105096002504 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105096002505 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1105096002506 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1105096002507 putative active site [active] 1105096002508 putative PHP Thumb interface [polypeptide binding]; other site 1105096002509 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 1105096002510 generic binding surface II; other site 1105096002511 generic binding surface I; other site 1105096002512 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1105096002513 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1105096002514 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1105096002515 Protein of unknown function; Region: DUF3971; pfam13116 1105096002516 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105096002517 muropeptide transporter; Validated; Region: ampG; cl17669 1105096002518 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 1105096002519 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1105096002520 seryl-tRNA synthetase; Provisional; Region: PRK05431 1105096002521 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1105096002522 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 1105096002523 dimer interface [polypeptide binding]; other site 1105096002524 active site 1105096002525 motif 1; other site 1105096002526 motif 2; other site 1105096002527 motif 3; other site 1105096002528 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1105096002529 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105096002530 Integral membrane protein TerC family; Region: TerC; cl10468 1105096002531 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1105096002532 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105096002533 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 1105096002534 S-adenosylmethionine binding site [chemical binding]; other site 1105096002535 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105096002536 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1105096002537 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1105096002538 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1105096002539 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1105096002540 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1105096002541 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105096002542 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1105096002543 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105096002544 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1105096002545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096002546 Walker A/P-loop; other site 1105096002547 ATP binding site [chemical binding]; other site 1105096002548 Q-loop/lid; other site 1105096002549 ABC transporter signature motif; other site 1105096002550 Walker B; other site 1105096002551 D-loop; other site 1105096002552 H-loop/switch region; other site 1105096002553 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1105096002554 4Fe-4S binding domain; Region: Fer4; cl02805 1105096002555 4Fe-4S binding domain; Region: Fer4; pfam00037 1105096002556 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1105096002557 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1105096002558 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1105096002559 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 1105096002560 catalytic loop [active] 1105096002561 iron binding site [ion binding]; other site 1105096002562 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1105096002563 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 1105096002564 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1105096002565 Predicted membrane protein [Function unknown]; Region: COG3671 1105096002566 aconitate hydratase; Validated; Region: PRK09277 1105096002567 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1105096002568 substrate binding site [chemical binding]; other site 1105096002569 ligand binding site [chemical binding]; other site 1105096002570 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 1105096002571 substrate binding site [chemical binding]; other site 1105096002572 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1105096002573 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1105096002574 gamma subunit interface [polypeptide binding]; other site 1105096002575 epsilon subunit interface [polypeptide binding]; other site 1105096002576 LBP interface [polypeptide binding]; other site 1105096002577 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1105096002578 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105096002579 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 1105096002580 alpha subunit interaction interface [polypeptide binding]; other site 1105096002581 Walker A motif; other site 1105096002582 ATP binding site [chemical binding]; other site 1105096002583 Walker B motif; other site 1105096002584 inhibitor binding site; inhibition site 1105096002585 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105096002586 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1105096002587 core domain interface [polypeptide binding]; other site 1105096002588 delta subunit interface [polypeptide binding]; other site 1105096002589 epsilon subunit interface [polypeptide binding]; other site 1105096002590 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1105096002591 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105096002592 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 1105096002593 beta subunit interaction interface [polypeptide binding]; other site 1105096002594 Walker A motif; other site 1105096002595 ATP binding site [chemical binding]; other site 1105096002596 Walker B motif; other site 1105096002597 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105096002598 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1105096002599 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1105096002600 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1105096002601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1105096002602 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105096002603 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105096002604 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1105096002605 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1105096002606 dimerization interface [polypeptide binding]; other site 1105096002607 DPS ferroxidase diiron center [ion binding]; other site 1105096002608 ion pore; other site 1105096002609 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1105096002610 Transglycosylase; Region: Transgly; pfam00912 1105096002611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105096002612 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1105096002613 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105096002614 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 1105096002615 FeS/SAM binding site; other site 1105096002616 TRAM domain; Region: TRAM; pfam01938 1105096002617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1105096002618 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105096002619 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105096002620 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1105096002621 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1105096002622 TrkA-N domain; Region: TrkA_N; pfam02254 1105096002623 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1105096002624 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105096002625 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 1105096002626 rRNA binding site [nucleotide binding]; other site 1105096002627 predicted 30S ribosome binding site; other site 1105096002628 Maf-like protein; Region: Maf; pfam02545 1105096002629 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 1105096002630 active site 1105096002631 dimer interface [polypeptide binding]; other site 1105096002632 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1105096002633 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1105096002634 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 1105096002635 active site 1105096002636 DNA binding site [nucleotide binding] 1105096002637 Int/Topo IB signature motif; other site 1105096002638 Phasin protein; Region: Phasin_2; pfam09361 1105096002639 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1105096002640 PLD-like domain; Region: PLDc_2; pfam13091 1105096002641 putative active site [active] 1105096002642 catalytic site [active] 1105096002643 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1105096002644 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105096002645 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1105096002646 periplasmic folding chaperone; Provisional; Region: PRK10788 1105096002647 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1105096002648 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1105096002649 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1105096002650 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1105096002651 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 1105096002652 active site 1105096002653 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1105096002654 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 1105096002655 Mg++ binding site [ion binding]; other site 1105096002656 putative catalytic motif [active] 1105096002657 putative substrate binding site [chemical binding]; other site 1105096002658 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1105096002659 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105096002660 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105096002661 Ferredoxin [Energy production and conversion]; Region: COG1146 1105096002662 4Fe-4S binding domain; Region: Fer4; cl02805 1105096002663 heme exporter protein CcmC; Region: ccmC; TIGR01191 1105096002664 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 1105096002665 nucleoside/Zn binding site; other site 1105096002666 dimer interface [polypeptide binding]; other site 1105096002667 catalytic motif [active] 1105096002668 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1105096002669 Cation efflux family; Region: Cation_efflux; cl00316 1105096002670 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1105096002671 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1105096002672 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1105096002673 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1105096002674 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105096002675 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105096002676 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1105096002677 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1105096002678 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 1105096002679 dimer interface [polypeptide binding]; other site 1105096002680 ssDNA binding site [nucleotide binding]; other site 1105096002681 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105096002682 hypothetical protein; Reviewed; Region: PRK01530 1105096002683 heat shock protein 90; Provisional; Region: PRK05218 1105096002684 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 1105096002685 ATP binding site [chemical binding]; other site 1105096002686 Mg2+ binding site [ion binding]; other site 1105096002687 G-X-G motif; other site 1105096002688 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1105096002689 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 1105096002690 substrate-cofactor binding pocket; other site 1105096002691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105096002692 catalytic residue [active] 1105096002693 trigger factor; Provisional; Region: tig; PRK01490 1105096002694 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105096002695 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1105096002696 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1105096002697 GTP1/OBG; Region: GTP1_OBG; pfam01018 1105096002698 Obg GTPase; Region: Obg; cd01898 1105096002699 G1 box; other site 1105096002700 GTP/Mg2+ binding site [chemical binding]; other site 1105096002701 Switch I region; other site 1105096002702 G2 box; other site 1105096002703 G3 box; other site 1105096002704 Switch II region; other site 1105096002705 G4 box; other site 1105096002706 G5 box; other site 1105096002707 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 1105096002708 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1105096002709 dimer interface [polypeptide binding]; other site 1105096002710 active site 1105096002711 citrylCoA binding site [chemical binding]; other site 1105096002712 NADH binding [chemical binding]; other site 1105096002713 cationic pore residues; other site 1105096002714 oxalacetate/citrate binding site [chemical binding]; other site 1105096002715 coenzyme A binding site [chemical binding]; other site 1105096002716 catalytic triad [active] 1105096002717 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1105096002718 Fe-S cluster binding site [ion binding]; other site 1105096002719 active site 1105096002720 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105096002721 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 1105096002722 RNA binding surface [nucleotide binding]; other site 1105096002723 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105096002724 active site 1105096002725 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1105096002726 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 1105096002727 S-adenosylmethionine binding site [chemical binding]; other site 1105096002728 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1105096002729 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1105096002730 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1105096002731 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1105096002732 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105096002733 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1105096002734 motif 1; other site 1105096002735 dimer interface [polypeptide binding]; other site 1105096002736 active site 1105096002737 motif 2; other site 1105096002738 motif 3; other site 1105096002739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1105096002740 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 1105096002741 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096002742 putative substrate translocation pore; other site 1105096002743 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1105096002744 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 1105096002745 motif 1; other site 1105096002746 active site 1105096002747 motif 2; other site 1105096002748 motif 3; other site 1105096002749 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105096002750 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1105096002751 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1105096002752 dimerization interface 3.5A [polypeptide binding]; other site 1105096002753 active site 1105096002754 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1105096002755 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1105096002756 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105096002757 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1105096002758 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105096002759 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1105096002760 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 1105096002761 DNA binding residues [nucleotide binding] 1105096002762 DNA primase, catalytic core; Region: dnaG; TIGR01391 1105096002763 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1105096002764 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1105096002765 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 1105096002766 active site 1105096002767 metal binding site [ion binding]; metal-binding site 1105096002768 interdomain interaction site; other site 1105096002769 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1105096002770 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1105096002771 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1105096002772 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1105096002773 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105096002774 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1105096002775 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1105096002776 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105096002777 ligand binding site [chemical binding]; other site 1105096002778 homodimer interface [polypeptide binding]; other site 1105096002779 NAD(P) binding site [chemical binding]; other site 1105096002780 trimer interface B [polypeptide binding]; other site 1105096002781 trimer interface A [polypeptide binding]; other site 1105096002782 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1105096002783 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1105096002784 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1105096002785 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 1105096002786 Walker A motif; other site 1105096002787 ATP binding site [chemical binding]; other site 1105096002788 Walker B motif; other site 1105096002789 arginine finger; other site 1105096002790 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1105096002791 hypothetical protein; Validated; Region: PRK00153 1105096002792 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1105096002793 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1105096002794 catalytic motif [active] 1105096002795 Catalytic residue [active] 1105096002796 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1105096002797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105096002798 Walker A/P-loop; other site 1105096002799 ATP binding site [chemical binding]; other site 1105096002800 Q-loop/lid; other site 1105096002801 ABC transporter signature motif; other site 1105096002802 Walker B; other site 1105096002803 D-loop; other site 1105096002804 H-loop/switch region; other site 1105096002805 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1105096002806 putative hydrolase; Provisional; Region: PRK02113 1105096002807 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 1105096002808 active site 1105096002809 Predicted permeases [General function prediction only]; Region: COG0795 1105096002810 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105096002811 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1105096002812 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 1105096002813 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1105096002814 metal binding site [ion binding]; metal-binding site 1105096002815 dimer interface [polypeptide binding]; other site 1105096002816 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1105096002817 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; cl00630 1105096002818 putative active site [active] 1105096002819 lipoate-protein ligase B; Provisional; Region: PRK14347 1105096002820 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1105096002821 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1105096002822 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1105096002823 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 1105096002824 ATP binding site [chemical binding]; other site 1105096002825 Mg2+ binding site [ion binding]; other site 1105096002826 G-X-G motif; other site 1105096002827 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 1105096002828 ATP binding site [chemical binding]; other site 1105096002829 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1105096002830 Zinc-finger domain; Region: zf-CHCC; cl01821 1105096002831 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 1105096002832 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105096002833 putative substrate translocation pore; other site 1105096002834 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1105096002835 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1105096002836 TIGR00701 family protein; Region: TIGR00701 1105096002837 ferrochelatase; Reviewed; Region: hemH; PRK00035 1105096002838 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 1105096002839 C-terminal domain interface [polypeptide binding]; other site 1105096002840 active site 1105096002841 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 1105096002842 active site 1105096002843 N-terminal domain interface [polypeptide binding]; other site 1105096002844 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 1105096002845 substrate binding site [chemical binding]; other site 1105096002846 active site